Morphometrical study on senile larynx.

PubMed

Zieliński, R

2001-01-01

The aim of the study was a morphometrical macroscopic evaluation of senile larynges, according to its usefulness in ORL diagnostic and operational methods. Larynx preparations were taken from cadavers of both sexes, of age 65 and over, about 24 hours after death. Clinically important laryngeal diameters were collected using common morphometrical methods. A few body features were also being gathered. Computer statistical methods were used in data assessment, including basic statistics and linear correlations between diameters and between diameters and body features. The data presented in the study may be very helpful in evaluation of diagnostic methods. It may also help in selection of right operational tool' sizes, the most appropriate operational technique choice, preoperative preparations and designing and building virtual and plastic models for physicians' training.

Multi-level tree analysis of pulmonary artery/vein trees in non-contrast CT images

NASA Astrophysics Data System (ADS)

Gao, Zhiyun; Grout, Randall W.; Hoffman, Eric A.; Saha, Punam K.

2012-02-01

Diseases like pulmonary embolism and pulmonary hypertension are associated with vascular dystrophy. Identifying such pulmonary artery/vein (A/V) tree dystrophy in terms of quantitative measures via CT imaging significantly facilitates early detection of disease or a treatment monitoring process. A tree structure, consisting of nodes and connected arcs, linked to the volumetric representation allows multi-level geometric and volumetric analysis of A/V trees. Here, a new theory and method is presented to generate multi-level A/V tree representation of volumetric data and to compute quantitative measures of A/V tree geometry and topology at various tree hierarchies. The new method is primarily designed on arc skeleton computation followed by a tree construction based topologic and geometric analysis of the skeleton. The method starts with a volumetric A/V representation as input and generates its topologic and multi-level volumetric tree representations long with different multi-level morphometric measures. A new recursive merging and pruning algorithms are introduced to detect bad junctions and noisy branches often associated with digital geometric and topologic analysis. Also, a new notion of shortest axial path is introduced to improve the skeletal arc joining two junctions. The accuracy of the multi-level tree analysis algorithm has been evaluated using computer generated phantoms and pulmonary CT images of a pig vessel cast phantom while the reproducibility of method is evaluated using multi-user A/V separation of in vivo contrast-enhanced CT images of a pig lung at different respiratory volumes.

Mapping the Proxies of Memory and Learning Function in Senior Adults with High-performing, Normal Aging and Neurocognitive Disorders.

PubMed

Lu, Hanna; Xi, Ni; Fung, Ada W T; Lam, Linda C W

2018-06-09

Memory and learning, as the core brain function, shows controversial results across studies focusing on aging and dementia. One of the reasons is because of the multi-faceted nature of memory and learning. However, there is still a dearth of comparable proxies with psychometric and morphometric portrait in clinical and non-clinical populations. We aim to investigate the proxies of memory and learning function with direct and derived measures and examine their associations with morphometric features in senior adults with different cognitive status. Based on two modality-driven tests, we assessed the component-specific memory and learning in the individuals with high performing (HP), normal aging, and neurocognitive disorders (NCD) (n = 488). Structural magnetic resonance imaging was used to measure the regional cortical thickness with surface-based morphometry analysis in a subsample (n = 52). Compared with HP elderly, the ones with normal aging and minor NCD showed declined recognition memory and working memory, whereas had better learning performance (derived scores). Meanwhile, major NCD patients showed more breakdowns of memory and learning function. The correlation between proxies of memory and learning and cortical thickness exhibited the overlapped and unique neural underpinnings. The proxies of memory and learning could be characterized by component-specific constructs with psychometric and morphometric bases. Overall, the constructs of memory are more likely related to the pathological changes, and the constructs of learning tend to reflect the cognitive abilities of compensation.

The morphometrics of "masculinity" in human faces.

PubMed

Mitteroecker, Philipp; Windhager, Sonja; Müller, Gerd B; Schaefer, Katrin

2015-01-01

In studies of social inference and human mate preference, a wide but inconsistent array of tools for computing facial masculinity has been devised. Several of these approaches implicitly assumed that the individual expression of sexually dimorphic shape features, which we refer to as maleness, resembles facial shape features perceived as masculine. We outline a morphometric strategy for estimating separately the face shape patterns that underlie perceived masculinity and maleness, and for computing individual scores for these shape patterns. We further show how faces with different degrees of masculinity or maleness can be constructed in a geometric morphometric framework. In an application of these methods to a set of human facial photographs, we found that shape features typically perceived as masculine are wide faces with a wide inter-orbital distance, a wide nose, thin lips, and a large and massive lower face. The individual expressions of this combination of shape features--the masculinity shape scores--were the best predictor of rated masculinity among the compared methods (r = 0.5). The shape features perceived as masculine only partly resembled the average face shape difference between males and females (sexual dimorphism). Discriminant functions and Procrustes distances to the female mean shape were poor predictors of perceived masculinity.

Morphometric information to reduce the semantic gap in the characterization of microscopic images of thyroid nodules.

PubMed

Macedo, Alessandra A; Pessotti, Hugo C; Almansa, Luciana F; Felipe, Joaquim C; Kimura, Edna T

2016-07-01

The analyses of several systems for medical-imaging processing typically support the extraction of image attributes, but do not comprise some information that characterizes images. For example, morphometry can be applied to find new information about the visual content of an image. The extension of information may result in knowledge. Subsequently, results of mappings can be applied to recognize exam patterns, thus improving the accuracy of image retrieval and allowing a better interpretation of exam results. Although successfully applied in breast lesion images, the morphometric approach is still poorly explored in thyroid lesions due to the high subjectivity thyroid examinations. This paper presents a theoretical-practical study, considering Computer Aided Diagnosis (CAD) and Morphometry, to reduce the semantic discontinuity between medical image features and human interpretation of image content. The proposed method aggregates the content of microscopic images characterized by morphometric information and other image attributes extracted by traditional object extraction algorithms. This method carries out segmentation, feature extraction, image labeling and classification. Morphometric analysis was included as an object extraction method in order to verify the improvement of its accuracy for automatic classification of microscopic images. To validate this proposal and verify the utility of morphometric information to characterize thyroid images, a CAD system was created to classify real thyroid image-exams into Papillary Cancer, Goiter and Non-Cancer. Results showed that morphometric information can improve the accuracy and precision of image retrieval and the interpretation of results in computer-aided diagnosis. For example, in the scenario where all the extractors are combined with the morphometric information, the CAD system had its best performance (70% of precision in Papillary cases). Results signalized a positive use of morphometric information from images to reduce semantic discontinuity between human interpretation and image characterization. Copyright © 2016 Elsevier Ireland Ltd. All rights reserved.

Classification and Lateralization of Temporal Lobe Epilepsies with and without Hippocampal Atrophy Based on Whole-Brain Automatic MRI Segmentation

PubMed Central

Keihaninejad, Shiva; Heckemann, Rolf A.; Gousias, Ioannis S.; Hajnal, Joseph V.; Duncan, John S.; Aljabar, Paul; Rueckert, Daniel; Hammers, Alexander

2012-01-01

Brain images contain information suitable for automatically sorting subjects into categories such as healthy controls and patients. We sought to identify morphometric criteria for distinguishing controls (n = 28) from patients with unilateral temporal lobe epilepsy (TLE), 60 with and 20 without hippocampal atrophy (TLE-HA and TLE-N, respectively), and for determining the presumed side of seizure onset. The framework employs multi-atlas segmentation to estimate the volumes of 83 brain structures. A kernel-based separability criterion was then used to identify structures whose volumes discriminate between the groups. Next, we applied support vector machines (SVM) to the selected set for classification on the basis of volumes. We also computed pairwise similarities between all subjects and used spectral analysis to convert these into per-subject features. SVM was again applied to these feature data. After training on a subgroup, all TLE-HA patients were correctly distinguished from controls, achieving an accuracy of 96 ± 2% in both classification schemes. For TLE-N patients, the accuracy was 86 ± 2% based on structural volumes and 91 ± 3% using spectral analysis. Structures discriminating between patients and controls were mainly localized ipsilaterally to the presumed seizure focus. For the TLE-HA group, they were mainly in the temporal lobe; for the TLE-N group they included orbitofrontal regions, as well as the ipsilateral substantia nigra. Correct lateralization of the presumed seizure onset zone was achieved using hippocampi and parahippocampal gyri in all TLE-HA patients using either classification scheme; in the TLE-N patients, lateralization was accurate based on structural volumes in 86 ± 4%, and in 94 ± 4% with the spectral analysis approach. Unilateral TLE has imaging features that can be identified automatically, even when they are invisible to human experts. Such morphometric image features may serve as classification and lateralization criteria. The technique also detects unsuspected distinguishing features like the substantia nigra, warranting further study. PMID:22523539

VARSEDIG: an algorithm for morphometric characters selection and statistical validation in morphological taxonomy.

PubMed

Guisande, Cástor; Vari, Richard P; Heine, Jürgen; García-Roselló, Emilio; González-Dacosta, Jacinto; Perez-Schofield, Baltasar J García; González-Vilas, Luis; Pelayo-Villamil, Patricia

2016-09-12

We present and discuss VARSEDIG, an algorithm which identifies the morphometric features that significantly discriminate two taxa and validates the morphological distinctness between them via a Monte-Carlo test. VARSEDIG is freely available as a function of the RWizard application PlotsR (http://www.ipez.es/RWizard) and as R package on CRAN. The variables selected by VARSEDIG with the overlap method were very similar to those selected by logistic regression and discriminant analysis, but overcomes some shortcomings of these methods. VARSEDIG is, therefore, a good alternative by comparison to current classical classification methods for identifying morphometric features that significantly discriminate a taxon and for validating its morphological distinctness from other taxa. As a demonstration of the potential of VARSEDIG for this purpose, we analyze morphological discrimination among some species of the Neotropical freshwater family Characidae.

The Morphometrics of “Masculinity” in Human Faces

PubMed Central

Mitteroecker, Philipp; Windhager, Sonja; Müller, Gerd B.; Schaefer, Katrin

2015-01-01

In studies of social inference and human mate preference, a wide but inconsistent array of tools for computing facial masculinity has been devised. Several of these approaches implicitly assumed that the individual expression of sexually dimorphic shape features, which we refer to as maleness, resembles facial shape features perceived as masculine. We outline a morphometric strategy for estimating separately the face shape patterns that underlie perceived masculinity and maleness, and for computing individual scores for these shape patterns. We further show how faces with different degrees of masculinity or maleness can be constructed in a geometric morphometric framework. In an application of these methods to a set of human facial photographs, we found that shape features typically perceived as masculine are wide faces with a wide inter-orbital distance, a wide nose, thin lips, and a large and massive lower face. The individual expressions of this combination of shape features—the masculinity shape scores—were the best predictor of rated masculinity among the compared methods (r = 0.5). The shape features perceived as masculine only partly resembled the average face shape difference between males and females (sexual dimorphism). Discriminant functions and Procrustes distances to the female mean shape were poor predictors of perceived masculinity. PMID:25671667

Hydrological inferences through morphometric analysis of lower Kosi river basin of India for water resource management based on remote sensing data

NASA Astrophysics Data System (ADS)

Rai, Praveen Kumar; Chandel, Rajeev Singh; Mishra, Varun Narayan; Singh, Prafull

2018-03-01

Satellite based remote sensing technology has proven to be an effectual tool in analysis of drainage networks, study of surface morphological features and their correlation with groundwater management prospect at basin level. The present study highlights the effectiveness and advantage of remote sensing and GIS-based analysis for quantitative and qualitative assessment of flood plain region of lower Kosi river basin based on morphometric analysis. In this study, ASTER DEM is used to extract the vital hydrological parameters of lower Kosi river basin in ARC GIS software. Morphometric parameters, e.g., stream order, stream length, bifurcation ratio, drainage density, drainage frequency, drainage texture, form factor, circularity ratio, elongation ratio, etc., have been calculated for the Kosi basin and their hydrological inferences were discussed. Most of the morphometric parameters such as bifurcation ratio, drainage density, drainage frequency, drainage texture concluded that basin has good prospect for water management program for various purposes and also generated data base that can provide scientific information for site selection of water-harvesting structures and flood management activities in the basin. Land use land cover (LULC) of the basin were also prepared from Landsat data of 2005, 2010 and 2015 to assess the change in dynamic of the basin and these layers are very noteworthy for further watershed prioritization.

Robust tumor morphometry in multispectral fluorescence microscopy

NASA Astrophysics Data System (ADS)

Tabesh, Ali; Vengrenyuk, Yevgen; Teverovskiy, Mikhail; Khan, Faisal M.; Sapir, Marina; Powell, Douglas; Mesa-Tejada, Ricardo; Donovan, Michael J.; Fernandez, Gerardo

2009-02-01

Morphological and architectural characteristics of primary tissue compartments, such as epithelial nuclei (EN) and cytoplasm, provide important cues for cancer diagnosis, prognosis, and therapeutic response prediction. We propose two feature sets for the robust quantification of these characteristics in multiplex immunofluorescence (IF) microscopy images of prostate biopsy specimens. To enable feature extraction, EN and cytoplasm regions were first segmented from the IF images. Then, feature sets consisting of the characteristics of the minimum spanning tree (MST) connecting the EN and the fractal dimension (FD) of gland boundaries were obtained from the segmented compartments. We demonstrated the utility of the proposed features in prostate cancer recurrence prediction on a multi-institution cohort of 1027 patients. Univariate analysis revealed that both FD and one of the MST features were highly effective for predicting cancer recurrence (p <= 0.0001). In multivariate analysis, an MST feature was selected for a model incorporating clinical and image features. The model achieved a concordance index (CI) of 0.73 on the validation set, which was significantly higher than the CI of 0.69 for the standard multivariate model based solely on clinical features currently used in clinical practice (p < 0.0001). The contributions of this work are twofold. First, it is the first demonstration of the utility of the proposed features in morphometric analysis of IF images. Second, this is the largest scale study of the efficacy and robustness of the proposed features in prostate cancer prognosis.

Analysis of Morphological Features of Benign and Malignant Breast Cell Extracted From FNAC Microscopic Image Using the Pearsonian System of Curves.

PubMed

Rajbongshi, Nijara; Bora, Kangkana; Nath, Dilip C; Das, Anup K; Mahanta, Lipi B

2018-01-01

Cytological changes in terms of shape and size of nuclei are some of the common morphometric features to study breast cancer, which can be observed by careful screening of fine needle aspiration cytology (FNAC) images. This study attempts to categorize a collection of FNAC microscopic images into benign and malignant classes based on family of probability distribution using some morphometric features of cell nuclei. For this study, features namely area, perimeter, eccentricity, compactness, and circularity of cell nuclei were extracted from FNAC images of both benign and malignant samples using an image processing technique. All experiments were performed on a generated FNAC image database containing 564 malignant (cancerous) and 693 benign (noncancerous) cell level images. The five-set extracted features were reduced to three-set (area, perimeter, and circularity) based on the mean statistic. Finally, the data were fitted to the generalized Pearsonian system of frequency curve, so that the resulting distribution can be used as a statistical model. Pearsonian system is a family of distributions where kappa (κ) is the selection criteria computed as functions of the first four central moments. For the benign group, kappa (κ) corresponding to area, perimeter, and circularity was -0.00004, 0.0000, and 0.04155 and for malignant group it was 1016942, 0.01464, and -0.3213, respectively. Thus, the family of distribution related to these features for the benign and malignant group were different, and therefore, characterization of their probability curve will also be different.

Multi-Level and Multi-Scale Feature Aggregation Using Pretrained Convolutional Neural Networks for Music Auto-Tagging

NASA Astrophysics Data System (ADS)

Lee, Jongpil; Nam, Juhan

2017-08-01

Music auto-tagging is often handled in a similar manner to image classification by regarding the 2D audio spectrogram as image data. However, music auto-tagging is distinguished from image classification in that the tags are highly diverse and have different levels of abstractions. Considering this issue, we propose a convolutional neural networks (CNN)-based architecture that embraces multi-level and multi-scaled features. The architecture is trained in three steps. First, we conduct supervised feature learning to capture local audio features using a set of CNNs with different input sizes. Second, we extract audio features from each layer of the pre-trained convolutional networks separately and aggregate them altogether given a long audio clip. Finally, we put them into fully-connected networks and make final predictions of the tags. Our experiments show that using the combination of multi-level and multi-scale features is highly effective in music auto-tagging and the proposed method outperforms previous state-of-the-arts on the MagnaTagATune dataset and the Million Song Dataset. We further show that the proposed architecture is useful in transfer learning.

Correlation of tumor-infiltrating lymphocytes to histopathological features and molecular phenotypes in canine mammary carcinoma: A morphologic and immunohistochemical morphometric study.

PubMed

Kim, Jong-Hyuk; Chon, Seung-Ki; Im, Keum-Soon; Kim, Na-Hyun; Sur, Jung-Hyang

2013-04-01

Abundant lymphocyte infiltration is frequently found in canine malignant mammary tumors, but the pathological features and immunophenotypes associated with the infiltration remain to be elucidated. The aim of the present study was to evaluate the relationship between lymphocyte infiltration, histopathological features, and molecular phenotype in canine mammary carcinoma (MC). The study was done with archived formalin-fixed, paraffin-embedded samples (n = 47) by histologic and immunohistochemical methods. The degree of lymphocyte infiltration was evaluated by morphologic analysis, and the T- and B-cell populations as well as the T/B-cell ratio were evaluated by morphometric analysis; results were compared with the histologic features and molecular phenotypes. The degree of lymphocyte infiltration was significantly higher in MCs with lymphatic invasion than in those without lymphatic invasion (P < 0.0001) and in tumors of high histologic grade compared with those of lower histologic grade (P = 0.045). Morphometric analysis showed a larger amount of T-cells and B-cells in MCs with a higher histologic grade and lymphatic invasion, but the T/B ratio did not change. Lymphocyte infiltration was not associated with histologic type or molecular phenotype, as assessed from the immunohistochemical expression of epidermal growth factor receptor 2, estrogen receptor, cytokeratin 14, and p63. Since intense lymphocyte infiltration was associated with aggressive histologic features, lymphocytes may be important for tumor aggressiveness and greater malignant behavior in the tumor microenvironment.

Quantitative diagnosis of bladder cancer by morphometric analysis of HE images

NASA Astrophysics Data System (ADS)

Wu, Binlin; Nebylitsa, Samantha V.; Mukherjee, Sushmita; Jain, Manu

2015-02-01

In clinical practice, histopathological analysis of biopsied tissue is the main method for bladder cancer diagnosis and prognosis. The diagnosis is performed by a pathologist based on the morphological features in the image of a hematoxylin and eosin (HE) stained tissue sample. This manuscript proposes algorithms to perform morphometric analysis on the HE images, quantify the features in the images, and discriminate bladder cancers with different grades, i.e. high grade and low grade. The nuclei are separated from the background and other types of cells such as red blood cells (RBCs) and immune cells using manual outlining, color deconvolution and image segmentation. A mask of nuclei is generated for each image for quantitative morphometric analysis. The features of the nuclei in the mask image including size, shape, orientation, and their spatial distributions are measured. To quantify local clustering and alignment of nuclei, we propose a 1-nearest-neighbor (1-NN) algorithm which measures nearest neighbor distance and nearest neighbor parallelism. The global distributions of the features are measured using statistics of the proposed parameters. A linear support vector machine (SVM) algorithm is used to classify the high grade and low grade bladder cancers. The results show using a particular group of nuclei such as large ones, and combining multiple parameters can achieve better discrimination. This study shows the proposed approach can potentially help expedite pathological diagnosis by triaging potentially suspicious biopsies.

Neuroanatomical morphometric characterization of sex differences in youth using statistical learning.

PubMed

Sepehrband, Farshid; Lynch, Kirsten M; Cabeen, Ryan P; Gonzalez-Zacarias, Clio; Zhao, Lu; D'Arcy, Mike; Kesselman, Carl; Herting, Megan M; Dinov, Ivo D; Toga, Arthur W; Clark, Kristi A

2018-05-15

Exploring neuroanatomical sex differences using a multivariate statistical learning approach can yield insights that cannot be derived with univariate analysis. While gross differences in total brain volume are well-established, uncovering the more subtle, regional sex-related differences in neuroanatomy requires a multivariate approach that can accurately model spatial complexity as well as the interactions between neuroanatomical features. Here, we developed a multivariate statistical learning model using a support vector machine (SVM) classifier to predict sex from MRI-derived regional neuroanatomical features from a single-site study of 967 healthy youth from the Philadelphia Neurodevelopmental Cohort (PNC). Then, we validated the multivariate model on an independent dataset of 682 healthy youth from the multi-site Pediatric Imaging, Neurocognition and Genetics (PING) cohort study. The trained model exhibited an 83% cross-validated prediction accuracy, and correctly predicted the sex of 77% of the subjects from the independent multi-site dataset. Results showed that cortical thickness of the middle occipital lobes and the angular gyri are major predictors of sex. Results also demonstrated the inferential benefits of going beyond classical regression approaches to capture the interactions among brain features in order to better characterize sex differences in male and female youths. We also identified specific cortical morphological measures and parcellation techniques, such as cortical thickness as derived from the Destrieux atlas, that are better able to discriminate between males and females in comparison to other brain atlases (Desikan-Killiany, Brodmann and subcortical atlases). Copyright © 2018 Elsevier Inc. All rights reserved.

[Research Progress of Multi-Model Medical Image Fusion at Feature Level].

PubMed

Zhang, Junjie; Zhou, Tao; Lu, Huiling; Wang, Huiqun

2016-04-01

Medical image fusion realizes advantage integration of functional images and anatomical images.This article discusses the research progress of multi-model medical image fusion at feature level.We firstly describe the principle of medical image fusion at feature level.Then we analyze and summarize fuzzy sets,rough sets,D-S evidence theory,artificial neural network,principal component analysis and other fusion methods’ applications in medical image fusion and get summery.Lastly,we in this article indicate present problems and the research direction of multi-model medical images in the future.

Morphometrics applied to medical entomology.

PubMed

Dujardin, Jean-Pierre

2008-12-01

Morphometrics underwent a revolution more than one decade ago. In the modern morphometrics, the estimate of size is now contained in a single variable reflecting variation in many directions, as many as there are landmarks under study, and shape is defined as their relative positions after correcting for size, position and orientation. With these informative data, and the corresponding software freely available to conduct complex analyses, significant biological and epidemiological features can be quantified more accurately. We discuss the evolutionary significance of the environmental impact on metric variability, mentioning the importance of concepts like genetic assimilation, genetic accommodation, and epigenetics. We provide examples of measuring the effect of selection on metric variation by comparing (unpublished) Qst values with corresponding (published) Fst. The primary needs of medical entomologists are to distinguish species, especially cryptic species, and to detect them where they are not expected. We explain how geometric morphometrics could apply to these questions, and where there are deficiencies preventing the approach from being utilized at its maximum potential. Medical entomologists in connection with control programs aim to identify isolated populations where the risk of reinfestation after treatment would be low ("biogeographical islands"). Identifying them can be obtained from estimating the number of migrants per generation. Direct assessment of movement remains the most valid approach, but it scores active movement only. Genetic methods estimating gene flow levels among interbreeding populations are commonly used, but gene flow does not necessarily mean the current flow of migrants. Methods using the morphometric variation are neither suited to evaluate gene flow, nor are they adapted to estimate the flow of migrants. They may provide, however, the information needed to create a preliminary map pointing to relevant areas where one could invest in using molecular machinery. In case of reinfesting specimens after treatment, the question relates to the likely source of reinfesting specimens: are they a residual sample not affected by the control measures, or are they individuals migrating from surrounding, untreated foci? We explain why the morphometric approach may be adapted to answer such question. Thus, we describe the differences between estimating the flow of migrants and identifying the source of reinfestation after treatment: although morphometrics is not suited to deal with the former, it may be an appropriate tool to address the latter.

Patterns of genetic and morphometric diversity in baobab (Adansonia digitata) populations across different climatic zones of Benin (West Africa).

PubMed

Assogbadjo, A E; Kyndt, T; Sinsin, B; Gheysen, G; van Damme, P

2006-05-01

Baobab (Adansonia digitata) is a multi-purpose tree used daily by rural African communities. The present study aimed at investigating the level of morphometric and genetic variation and spatial genetic structure within and between threatened baobab populations from the three climatic zones of Benin. A total of 137 individuals from six populations were analysed using morphometric data as well as molecular marker data generated using the AFLP technique. Five primer pairs resulted in a total of 217 scored bands with 78.34 % of them being polymorphic. A two-level AMOVA of 137 individuals from six baobab populations revealed 82.37 % of the total variation within populations and 17.63 % among populations (P < 0.001). Analysis of population structure with allele-frequency based F-statistics revealed a global F(ST) of 0.127 +/- 0.072 (P < 0.001). The mean gene diversity within populations (H(S)) and the average gene diversity between populations (D(ST)) were estimated at 0.309 +/- 0.000 and 0.045 +/- 0.072, respectively. Baobabs in the Sudanian and Sudan-Guinean zones of Benin were short and produced the highest yields of pulp, seeds and kernels, in contrast to the ones in the Guinean zone, which were tall and produced only a small number of fruits with a low pulp, seed and kernel productivity. A statistically significant correlation with the observed patterns of genetic diversity was observed for three morphological characteristics: height of the trees, number of branches and thickness of the capsules. The results indicate some degree of physical isolation of the populations collected in the different climatic zones and suggest a substantial amount of genetic structuring between the analysed populations of baobab. Sampling options of the natural populations are suggested for in or ex situ conservation.

Morphometric Identification of Queens, Workers and Intermediates in In Vitro Reared Honey Bees (Apis mellifera).

PubMed

De Souza, Daiana A; Wang, Ying; Kaftanoglu, Osman; De Jong, David; Amdam, Gro V; Gonçalves, Lionel S; Francoy, Tiago M

2015-01-01

In vitro rearing is an important and useful tool for honey bee (Apis mellifera L.) studies. However, it often results in intercastes between queens and workers, which are normally are not seen in hive-reared bees, except when larvae older than three days are grafted for queen rearing. Morphological classification (queen versus worker or intercastes) of bees produced by this method can be subjective and generally depends on size differences. Here, we propose an alternative method for caste classification of female honey bees reared in vitro, based on weight at emergence, ovariole number, spermatheca size and size and shape, and features of the head, mandible and basitarsus. Morphological measurements were made with both traditional morphometric and geometric morphometrics techniques. The classifications were performed by principal component analysis, using naturally developed queens and workers as controls. First, the analysis included all the characters. Subsequently, a new analysis was made without the information about ovariole number and spermatheca size. Geometric morphometrics was less dependent on ovariole number and spermatheca information for caste and intercaste identification. This is useful, since acquiring information concerning these reproductive structures requires time-consuming dissection and they are not accessible when abdomens have been removed for molecular assays or in dried specimens. Additionally, geometric morphometrics divided intercastes into more discrete phenotype subsets. We conclude that morphometric geometrics are superior to traditional morphometrics techniques for identification and classification of honey bee castes and intermediates.

Morphometric Identification of Queens, Workers and Intermediates in In Vitro Reared Honey Bees (Apis mellifera)

PubMed Central

A. De Souza, Daiana; Wang, Ying; Kaftanoglu, Osman; De Jong, David; V. Amdam, Gro; S. Gonçalves, Lionel; M. Francoy, Tiago

2015-01-01

In vitro rearing is an important and useful tool for honey bee (Apis mellifera L.) studies. However, it often results in intercastes between queens and workers, which are normally are not seen in hive-reared bees, except when larvae older than three days are grafted for queen rearing. Morphological classification (queen versus worker or intercastes) of bees produced by this method can be subjective and generally depends on size differences. Here, we propose an alternative method for caste classification of female honey bees reared in vitro, based on weight at emergence, ovariole number, spermatheca size and size and shape, and features of the head, mandible and basitarsus. Morphological measurements were made with both traditional morphometric and geometric morphometrics techniques. The classifications were performed by principal component analysis, using naturally developed queens and workers as controls. First, the analysis included all the characters. Subsequently, a new analysis was made without the information about ovariole number and spermatheca size. Geometric morphometrics was less dependent on ovariole number and spermatheca information for caste and intercaste identification. This is useful, since acquiring information concerning these reproductive structures requires time-consuming dissection and they are not accessible when abdomens have been removed for molecular assays or in dried specimens. Additionally, geometric morphometrics divided intercastes into more discrete phenotype subsets. We conclude that morphometric geometrics are superior to traditional morphometrics techniques for identification and classification of honey bee castes and intermediates. PMID:25894528

Computer vision approach to morphometric feature analysis of basal cell nuclei for evaluating malignant potentiality of oral submucous fibrosis.

PubMed

Muthu Rama Krishnan, M; Pal, Mousumi; Paul, Ranjan Rashmi; Chakraborty, Chandan; Chatterjee, Jyotirmoy; Ray, Ajoy K

2012-06-01

This research work presents a quantitative approach for analysis of histomorphometric features of the basal cell nuclei in respect to their size, shape and intensity of staining, from surface epithelium of Oral Submucous Fibrosis showing dysplasia (OSFD) to that of the Normal Oral Mucosa (NOM). For all biological activity, the basal cells of the surface epithelium form the proliferative compartment and therefore their morphometric changes will spell the intricate biological behavior pertaining to normal cellular functions as well as in premalignant and malignant status. In view of this, the changes in shape, size and intensity of staining of the nuclei in the basal cell layer of the NOM and OSFD have been studied. Geometric, Zernike moments and Fourier descriptor (FD) based as well as intensity based features are extracted for histomorphometric pattern analysis of the nuclei. All these features are statistically analyzed along with 3D visualization in order to discriminate the groups. Results showed increase in the dimensions (area and perimeter), shape parameters and decreasing mean nuclei intensity of the nuclei in OSFD in respect to NOM. Further, the selected features are fed to the Bayesian classifier to discriminate normal and OSFD. The morphometric and intensity features provide a good sensitivity of 100%, specificity of 98.53% and positive predicative accuracy of 97.35%. This comparative quantitative characterization of basal cell nuclei will be of immense help for oral onco-pathologists, researchers and clinicians to assess the biological behavior of OSFD, specially relating to their premalignant and malignant potentiality. As a future direction more extensive study involving more number of disease subjects is observed.

Variability of morphometric parameters of human trabecular tissue from coxo-arthritis and osteoporotic samples.

PubMed

Marinozzi, Franco; Marinozzi, Andrea; Bini, Fabiano; Zuppante, Francesca; Pecci, Raffaella; Bedini, Rossella

2012-01-01

Morphometric and architectural bone parameters change in diseases such as osteoarthritis and osteoporosis. The mechanical strength of bone is primarily influenced by bone quantity and quality. Bone quality is defined by parameters such as trabecular thickness, trabecular separation, trabecular density and degree of anisotropy that describe the micro-architectural structure of bone. Recently, many studies have validated microtomography as a valuable investigative technique to assess bone morphometry, thanks to micro-CT non-destructive, non-invasive and reliability features, in comparison to traditional techniques such as histology. The aim of this study is the analysis by micro-computed tomography of six specimens, extracted from patients affected by osteoarthritis and osteoporosis, in order to observe the tridimensional structure and calculate several morphometric parameters.

[Morphometric features of the structure of the central nucleus of the amygdala in men and women].

PubMed

Antyukhov, A D

2015-01-01

To identify the interhemispheric asymmetry in the structure of the central nucleus of the amygdala in men and women. Morphometric features of the structure of neurons of the central nucleus amygdala complex were studied in histological sections of the brain of 6 men and 6 women (24 hemispheres), aged 19 to 55 years, with no lifetime diagnosis of mental or neurological disease. The value of the profile fields of neurons of the central nucleus amygdala complex in the left and right hemispheres of the brain were investigated. In women, the average value of neurons in the left hemisphere was somewhat greater than in the right hemisphere, while in men this value was greater in the right hemisphere. The interhemispheric morphometric differences were not significant regardless of gender. In addition, the quantity of relevant fields of neurons in the central nucleus of the amygdala in women was significantly larger than that of men in both hemispheres. The authors attempted to associate the results obtained in the study with emotional perception in men and women.

Vitamin B12 deficiency: Characterization of psychometrics and MRI morphometrics.

PubMed

Hsu, Yen-Hsuan; Huang, Ching-Feng; Lo, Chung-Ping; Wang, Tzu-Lan; Tu, Min-Chien

2016-01-01

Vitamin B12 is essential for the integrity of the central nervous system. However, performances in different cognitive domains relevant to vitamin B12 deficiency remain to be detailed. To date, there have been limited studies that examined the relationships between cognitions and structural neuroimaging in a single cohort of low-vitamin B12 status. The present study aimed to depict psychometrics and magnetic resonance imaging (MRI) morphometrics among patients with vitamin B12 deficiency, and to examine their inter-relations. We compared 34 consecutive patients with vitamin B12 deficiency (serum level ≤ 250 pg/ml) to 34 demographically matched controls by their cognitive performances and morphometric indices of brain MRI. The correlations between psychometrics and morphometrics were analyzed. The vitamin B12 deficiency group had lower scores than the controls on total scores of Mini-Mental Status Examination (MMSE) and Cognitive Abilities Screening Instrument (CASI) (both P < 0.05), language (P < 0.01), orientation (P < 0.01), and mental manipulation (P < 0.05). The patients also showed a greater frontal horn ratio than the controls (P < 0.05). Bicaudate ratio, fronto-occipital ratio, uncotemporal index, and normalized interuncal distance all showed a strong correlation with the total score of MMSE and CASI (all P < 0.01). Among these psychometric and morphometric indices, pronounced correlations between bicaudate ratio and long-term memory, mental manipulation, orientation, language, and verbal fluency were noted (all P < 0.01). Vitamin B12 deficiency is associated with a global cognition decline with language, orientation, and mental manipulation selectively impaired. Preferential atrophy in frontal regions is the main neuroimaging feature. Although the frontal ratio highlights the relevant atrophy among patients, the bicaudate ratio might be the best index on the basis of its strong association with global cognition and related cognitive domains, implying dysfunction of fronto-subcortical circuits as the fundamental pathogenesis related to vitamin B12 deficiency.

Local variance for multi-scale analysis in geomorphometry.

PubMed

Drăguţ, Lucian; Eisank, Clemens; Strasser, Thomas

2011-07-15

Increasing availability of high resolution Digital Elevation Models (DEMs) is leading to a paradigm shift regarding scale issues in geomorphometry, prompting new solutions to cope with multi-scale analysis and detection of characteristic scales. We tested the suitability of the local variance (LV) method, originally developed for image analysis, for multi-scale analysis in geomorphometry. The method consists of: 1) up-scaling land-surface parameters derived from a DEM; 2) calculating LV as the average standard deviation (SD) within a 3 × 3 moving window for each scale level; 3) calculating the rate of change of LV (ROC-LV) from one level to another, and 4) plotting values so obtained against scale levels. We interpreted peaks in the ROC-LV graphs as markers of scale levels where cells or segments match types of pattern elements characterized by (relatively) equal degrees of homogeneity. The proposed method has been applied to LiDAR DEMs in two test areas different in terms of roughness: low relief and mountainous, respectively. For each test area, scale levels for slope gradient, plan, and profile curvatures were produced at constant increments with either resampling (cell-based) or image segmentation (object-based). Visual assessment revealed homogeneous areas that convincingly associate into patterns of land-surface parameters well differentiated across scales. We found that the LV method performed better on scale levels generated through segmentation as compared to up-scaling through resampling. The results indicate that coupling multi-scale pattern analysis with delineation of morphometric primitives is possible. This approach could be further used for developing hierarchical classifications of landform elements.

Local variance for multi-scale analysis in geomorphometry

PubMed Central

Drăguţ, Lucian; Eisank, Clemens; Strasser, Thomas

2011-01-01

Increasing availability of high resolution Digital Elevation Models (DEMs) is leading to a paradigm shift regarding scale issues in geomorphometry, prompting new solutions to cope with multi-scale analysis and detection of characteristic scales. We tested the suitability of the local variance (LV) method, originally developed for image analysis, for multi-scale analysis in geomorphometry. The method consists of: 1) up-scaling land-surface parameters derived from a DEM; 2) calculating LV as the average standard deviation (SD) within a 3 × 3 moving window for each scale level; 3) calculating the rate of change of LV (ROC-LV) from one level to another, and 4) plotting values so obtained against scale levels. We interpreted peaks in the ROC-LV graphs as markers of scale levels where cells or segments match types of pattern elements characterized by (relatively) equal degrees of homogeneity. The proposed method has been applied to LiDAR DEMs in two test areas different in terms of roughness: low relief and mountainous, respectively. For each test area, scale levels for slope gradient, plan, and profile curvatures were produced at constant increments with either resampling (cell-based) or image segmentation (object-based). Visual assessment revealed homogeneous areas that convincingly associate into patterns of land-surface parameters well differentiated across scales. We found that the LV method performed better on scale levels generated through segmentation as compared to up-scaling through resampling. The results indicate that coupling multi-scale pattern analysis with delineation of morphometric primitives is possible. This approach could be further used for developing hierarchical classifications of landform elements. PMID:21779138

Morphometric and landsliding analyses in chain domain: the Roccella basin, NE Sicily, Italy

NASA Astrophysics Data System (ADS)

Rapisarda, Francesco

2009-10-01

The dynamic interaction of endogenic and exogenic processes in active geodynamic context leads to the deterioration of the physico-mechanical characteristics of the rocks, inducing slopes instability. In such context, the morphometric parameters and the analysis of landslide distribution contribute to appraise the evolutive state of hydrographic basins. The aim of the study is the morphometric characterization of the Roccella Torrent basin (Rtb) located in South Italy. Landsliding and tectonic structure dynamically interact with the drainage pattern that records these effects and permits the definition of the evolutive geomorphic stage of the basin. The Air Photograph Investigation and field surveys permitted to draw the main geomorphic features, the drainage pattern of the Rtb, to calculate the morphometric parameters and to delimit the landslides’ bodies. Detailed analysis about the landslide distribution within a test site 17 km2 wide were carried out to elaborate indicative indexes of the landslides type and to single out the lithotypes that are more involved in slope instability phenomena. The morphometric parameters indicate the rejuvenation state within the Rtb where the stream reaches show the effects of increased energy relief in agreement with the geological settings of this sector of the Apennine-Maghrebian Chain.

Watershed-based Morphometric Analysis: A Review

NASA Astrophysics Data System (ADS)

Sukristiyanti, S.; Maria, R.; Lestiana, H.

2018-02-01

Drainage basin/watershed analysis based on morphometric parameters is very important for watershed planning. Morphometric analysis of watershed is the best method to identify the relationship of various aspects in the area. Despite many technical papers were dealt with in this area of study, there is no particular standard classification and implication of each parameter. It is very confusing to evaluate a value of every morphometric parameter. This paper deals with the meaning of values of the various morphometric parameters, with adequate contextual information. A critical review is presented on each classification, the range of values, and their implications. Besides classification and its impact, the authors also concern about the quality of input data, either in data preparation or scale/the detail level of mapping. This review paper hopefully can give a comprehensive explanation to assist the upcoming research dealing with morphometric analysis.

Stone loaches of Choman River system, Kurdistan, Iran (Teleostei: Cypriniformes: Nemacheilidae).

PubMed

Kamangar, Barzan Bahrami; Prokofiev, Artem M; Ghaderi, Edris; Nalbant, Theodore T

2014-01-20

For the first time, we present data on species composition and distributions of nemacheilid loaches in the Choman River basin of Kurdistan province, Iran. Two genera and four species are recorded from the area, of which three species are new for science: Oxynoemacheilus kurdistanicus, O. zagrosensis, O. chomanicus spp. nov., and Turcinoemacheilus kosswigi Băn. et Nalb. Detailed and illustrated morphological descriptions and univariate and multivariate analysis of morphometric and meristic features are for each of these species. Forty morphometric and eleven meristic characters were used in multivariate analysis to select characters that could discriminate between the four loach species. Discriminant Function Analysis revealed that sixteen morphometric measures and five meristic characters have the most variability between the loach species. The dendrograms based on cluster analysis of Mahalanobis distances of morphometrics and a combination of both characters confirmed two distinct groups: Oxynoemacheilus spp. and T. kosswigi. Within Oxynoemacheilus, O. zagrosensis and O. chomanicus are more similar to one other rather to either is to O. kurdistanicus.

Further study on Physaloptera clausa Rudolphi, 1819 (Spirurida: Physalopteridae) from the Amur hedgehog Erinaceus amurensis Schrenk (Eulipotyphla: Erinaceidae).

PubMed

Chen, Hui-Xia; Ju, Hui-Dong; Li, Yang; Li, Liang

2017-12-20

In the present study, light and scanning electron microscopy (SEM) were used to further study the detailed morphology of Physaloptera clausa Rudolphi, 1819, based on the material collected from the Amur hedgehog E. amurensis Schrenk in China. The results revealed a few previously unreported morphological features and some morphological and morphometric variability between our specimens and the previous studies. The present supplementary morphological characters and morphometric data could help us to recognize this species more accurately.

Disentangling diatom species complexes: does morphometry suffice?

PubMed Central

Borrego-Ramos, María; Olenici, Adriana

2017-01-01

Accurate taxonomic resolution in light microscopy analyses of microalgae is essential to achieve high quality, comparable results in both floristic analyses and biomonitoring studies. A number of closely related diatom taxa have been detected to date co-occurring within benthic diatom assemblages, sharing many morphological, morphometrical and ecological characteristics. In this contribution, we analysed the hypothesis that, where a large sample size (number of individuals) is available, common morphometrical parameters (valve length, width and stria density) are sufficient to achieve a correct identification to the species level. We focused on some common diatom taxa belonging to the genus Gomphonema. More than 400 valves and frustules were photographed in valve view and measured using Fiji software. Several statistical tools (mixture and discriminant analysis, k-means clustering, classification trees, etc.) were explored to test whether mere morphometry, independently of other valve features, leads to correct identifications, when compared to identifications made by experts. In view of the results obtained, morphometry-based determination in diatom taxonomy is discouraged. PMID:29250472

Angular difference feature extraction for urban scene classification using ZY-3 multi-angle high-resolution satellite imagery

NASA Astrophysics Data System (ADS)

Huang, Xin; Chen, Huijun; Gong, Jianya

2018-01-01

Spaceborne multi-angle images with a high-resolution are capable of simultaneously providing spatial details and three-dimensional (3D) information to support detailed and accurate classification of complex urban scenes. In recent years, satellite-derived digital surface models (DSMs) have been increasingly utilized to provide height information to complement spectral properties for urban classification. However, in such a way, the multi-angle information is not effectively exploited, which is mainly due to the errors and difficulties of the multi-view image matching and the inaccuracy of the generated DSM over complex and dense urban scenes. Therefore, it is still a challenging task to effectively exploit the available angular information from high-resolution multi-angle images. In this paper, we investigate the potential for classifying urban scenes based on local angular properties characterized from high-resolution ZY-3 multi-view images. Specifically, three categories of angular difference features (ADFs) are proposed to describe the angular information at three levels (i.e., pixel, feature, and label levels): (1) ADF-pixel: the angular information is directly extrapolated by pixel comparison between the multi-angle images; (2) ADF-feature: the angular differences are described in the feature domains by comparing the differences between the multi-angle spatial features (e.g., morphological attribute profiles (APs)). (3) ADF-label: label-level angular features are proposed based on a group of urban primitives (e.g., buildings and shadows), in order to describe the specific angular information related to the types of primitive classes. In addition, we utilize spatial-contextual information to refine the multi-level ADF features using superpixel segmentation, for the purpose of alleviating the effects of salt-and-pepper noise and representing the main angular characteristics within a local area. The experiments on ZY-3 multi-angle images confirm that the proposed ADF features can effectively improve the accuracy of urban scene classification, with a significant increase in overall accuracy (3.8-11.7%) compared to using the spectral bands alone. Furthermore, the results indicated the superiority of the proposed ADFs in distinguishing between the spectrally similar and complex man-made classes, including roads and various types of buildings (e.g., high buildings, urban villages, and residential apartments).

Mid-Frequency Sonar Interactions with Beaked Whales

DTIC Science & Technology

2011-06-30

Beaked Whale, was not completed. However, several other goals were achieved, including synthesis of a morphometric model of a beaked whale. This and work...induced acoustic fields inside beaked whales and other marine mammals. Another high-level goal was to acquire new high-resolution morphometric and...range 1-10 kHz; collecting high-resolution morphometric data through computerized tomography (CT) scans on marine mammal specimens, and constructing

Morphometric analysis of erythrocytes from patients with thalassemia using tomographic diffractive microscopy

NASA Astrophysics Data System (ADS)

Lin, Yang-Hsien; Huang, Shin-Shyang; Wu, Shang-Ju; Sung, Kung-Bin

2017-11-01

Complete blood count is the most common test to detect anemia, but it is unable to obtain the abnormal shape of erythrocytes, which highly correlates with the hematologic function. Tomographic diffractive microscopy (TDM) is an emerging technique capable of quantifying three-dimensional (3-D) refractive index (RI) distributions of erythrocytes without labeling. TDM was used to characterize optical and morphological properties of 172 erythrocytes from healthy volunteers and 419 erythrocytes from thalassemic patients. To efficiently extract and analyze the properties of erythrocytes, we developed an adaptive region-growing method for automatically delineating erythrocytes from 3-D RI maps. The thalassemic erythrocytes not only contained lower hemoglobin content but also showed doughnut shape and significantly lower volume, surface area, effective radius, and average thickness. A multi-indices prediction model achieved perfect accuracy of diagnosing thalassemia using four features, including the optical volume, surface-area-to-volume ratio, sphericity index, and surface area. The results demonstrate the ability of TDM to provide quantitative, hematologic measurements and to assess morphological features of erythrocytes to distinguish healthy and thalassemic erythrocytes.

- and Scene-Guided Integration of Tls and Photogrammetric Point Clouds for Landslide Monitoring

NASA Astrophysics Data System (ADS)

Zieher, T.; Toschi, I.; Remondino, F.; Rutzinger, M.; Kofler, Ch.; Mejia-Aguilar, A.; Schlögel, R.

2018-05-01

Terrestrial and airborne 3D imaging sensors are well-suited data acquisition systems for the area-wide monitoring of landslide activity. State-of-the-art surveying techniques, such as terrestrial laser scanning (TLS) and photogrammetry based on unmanned aerial vehicle (UAV) imagery or terrestrial acquisitions have advantages and limitations associated with their individual measurement principles. In this study we present an integration approach for 3D point clouds derived from these techniques, aiming at improving the topographic representation of landslide features while enabling a more accurate assessment of landslide-induced changes. Four expert-based rules involving local morphometric features computed from eigenvectors, elevation and the agreement of the individual point clouds, are used to choose within voxels of selectable size which sensor's data to keep. Based on the integrated point clouds, digital surface models and shaded reliefs are computed. Using an image correlation technique, displacement vectors are finally derived from the multi-temporal shaded reliefs. All results show comparable patterns of landslide movement rates and directions. However, depending on the applied integration rule, differences in spatial coverage and correlation strength emerge.

Reviewing the upper Pleistocene human footprints from the 'Sala dei Misteri' in the Grotta della Bàsura (Toirano, northern Italy) cave: An integrated morphometric and morpho-classificatory approach

NASA Astrophysics Data System (ADS)

Paolo Citton; Romano, Marco; Salvador, Isabella; Avanzini, Marco

2017-08-01

About thirty human footprints made approximately 12,000 years B.P. inside the 'Sala dei Misteri' Cave of Básura near Toirano, Liguria, northern Italy, were studied by standard ichnological analysis. Eleven of the best-preserved tracks were examined further using morpho-classificatory and morphometric approaches, in order to estimate the minimum number of trackmakers; biometric measurements were also used to tentatively determine their physical characteristics (e.g., height and age). Results indicate at least three different producers, two youths and the third of tender age. Analysis of the data demonstrate the power of 3D, of landmark-based morphometrics, and the utility of methods of forensic anthropology in the determination of human footprints. The study of the number of trackmakers using the principal component analysis (PCA) on 'multi-trampling' surfaces could represent a model in the ichnological study of cave sites.

Morphometric comparison of Icelandic lava shield volcanoes versus selected Venusian edifices

NASA Technical Reports Server (NTRS)

Garvin, James B.; Williams, Richard S., Jr.

1993-01-01

Shield volcanoes are common landforms on the silicate planets of the inner Solar System, and a wide variety have recently been documented on Venus by means of Magellan observations. In this report, we emphasize our recently completed morphometric analysis of three representative Icelandic lava shields: the classic Skjaldbreidur edifice, the low-reflief Lambahraun feature, and the monogenetic Sandfellshaed shield, as the basis for comparison with representative venusian edifices (greater than 60 km in diameter). Our detailed morphometric measurements of a representative and well-studied set of Icelandic volcanoes permits us to make comparisons with our measurements of a reasonable subset of shield-like edifices on Venus on the basis of Magellan global radar altimetry. Our study has been restricted to venusian features larger than approximately 60 km in basal diameter, on the basis of the minimum intrinsic spatial resolution (8 km) of the Magellan radar altimetry data. Finally, in order to examine the implications of landform scaling from terrestrial simple and composite shields to larger venusian varieties, we have considered the morphometry of the subaerial component of Mauna Loa, a type-locality for a composite shield edifice on Earth.

Salient object detection based on multi-scale contrast.

PubMed

Wang, Hai; Dai, Lei; Cai, Yingfeng; Sun, Xiaoqiang; Chen, Long

2018-05-01

Due to the development of deep learning networks, a salient object detection based on deep learning networks, which are used to extract the features, has made a great breakthrough compared to the traditional methods. At present, the salient object detection mainly relies on very deep convolutional network, which is used to extract the features. In deep learning networks, an dramatic increase of network depth may cause more training errors instead. In this paper, we use the residual network to increase network depth and to mitigate the errors caused by depth increase simultaneously. Inspired by image simplification, we use color and texture features to obtain simplified image with multiple scales by means of region assimilation on the basis of super-pixels in order to reduce the complexity of images and to improve the accuracy of salient target detection. We refine the feature on pixel level by the multi-scale feature correction method to avoid the feature error when the image is simplified at the above-mentioned region level. The final full connection layer not only integrates features of multi-scale and multi-level but also works as classifier of salient targets. The experimental results show that proposed model achieves better results than other salient object detection models based on original deep learning networks. Copyright © 2018 Elsevier Ltd. All rights reserved.

A morphometric assessment and classification of coral reef spur and groove morphology

NASA Astrophysics Data System (ADS)

Duce, S.; Vila-Concejo, A.; Hamylton, S. M.; Webster, J. M.; Bruce, E.; Beaman, R. J.

2016-07-01

Spurs and grooves (SaGs) are a common and important feature of coral reef fore slopes worldwide. However, they are difficult to access and hence their morphodynamics and formation are poorly understood. We use remote sensing, with extensive ground truthing, to measure SaG morphometrics and environmental factors at 11,430 grooves across 17 reefs in the southern Great Barrier Reef, Australia. We revealed strong positive correlations between groove length, orientation and wave exposure with longer, more closely-spaced grooves oriented easterly reflecting the dominant swell regime. Wave exposure was found to be the most important factor controlling SaG distribution and morphology. Gradient of the upper reef slope was also an important limiting factor, with SaGs less likely to develop in steeply sloping (> 5°) areas. We used a subset of the morphometric data (11 reefs) to statistically define four classes of SaG. This classification scheme was tested on the remaining six reefs. SaGs in the four classes differ in morphology, groove substrate and coral cover. These differences provide insights into SaG formation mechanisms with implications to reef platform growth and evolution. We hypothesize SaG formation is dominated by coral growth processes at two classes and erosion processes at one class. A fourth class may represent relic features formed earlier in the Holocene transgression. The classes are comparable with SaGs elsewhere, suggesting the classification could be applied globally with the addition of new classes if necessary. While further research is required, we show remotely sensed SaG morphometrics can provide useful insights into reef platform evolution.

Patterns of Genetic and Morphometric Diversity in Baobab (Adansonia digitata) Populations Across Different Climatic Zones of Benin (West Africa)

PubMed Central

ASSOGBADJO, A. E.; KYNDT, T.; SINSIN, B.; GHEYSEN, G.; VAN DAMME, P.

2006-01-01

• Background and Aims Baobab (Adansonia digitata) is a multi-purpose tree used daily by rural African communities. The present study aimed at investigating the level of morphometric and genetic variation and spatial genetic structure within and between threatened baobab populations from the three climatic zones of Benin. • Methods A total of 137 individuals from six populations were analysed using morphometric data as well as molecular marker data generated using the AFLP technique. • Key Results Five primer pairs resulted in a total of 217 scored bands with 78·34 % of them being polymorphic. A two-level AMOVA of 137 individuals from six baobab populations revealed 82·37 % of the total variation within populations and 17·63 % among populations (P < 0·001)· Analysis of population structure with allele-frequency based F-statistics revealed a global FST of 0·127 ± 0·072 (P < 0·001). The mean gene diversity within populations (HS) and the average gene diversity between populations (DST) were estimated at 0·309 ± 0·000 and 0·045 ± 0·072, respectively. Baobabs in the Sudanian and Sudan-Guinean zones of Benin were short and produced the highest yields of pulp, seeds and kernels, in contrast to the ones in the Guinean zone, which were tall and produced only a small number of fruits with a low pulp, seed and kernel productivity. A statistically significant correlation with the observed patterns of genetic diversity was observed for three morphological characteristics: height of the trees, number of branches and thickness of the capsules. • Conclusions The results indicate some degree of physical isolation of the populations collected in the different climatic zones and suggest a substantial amount of genetic structuring between the analysed populations of baobab. Sampling options of the natural populations are suggested for in or ex situ conservation. PMID:16520343

Scaling mimesis: Morphometric and ecomorphological similarities in three sympatric plant-mimetic fish of the family Carangidae (Teleostei).

PubMed

Queiroz, Alexya Cunha de; Vallinoto, Marcelo; Sakai, Yoichi; Giarrizzo, Tommaso; Barros, Breno

2018-01-01

The mimetic juveniles of a number of carangid fish species resemble plant parts floating near the water surface, such as leaves, seeds and other plant debris. The present study is the first to verify the morphological similarities and ecomorphological relationships between three carangids (Oligoplites saurus, Oligoplites palometa and Trachinotus falcatus) and their associated plant models. Behavioral observations were conducted in the estuary of Curuçá River, in northeastern Pará (Brazil) between August 2015 and July 2016. Individual fishes and associated floating objects (models) were sampled for comparative analysis using both geometric and morphometric approaches. While the mimetic fish and their models retain their own distinct, intrinsic morphological features, a high degree of morphological similarity was found between each fish species and its model. The morphometric analyses revealed a general tendency of isometric development in all three fish species, probably related to their pelagic habitats, during all ontogenetic stages.

Morphometric convergence between Proterozoic and post-vegetation rivers

PubMed Central

Ielpi, Alessandro; Rainbird, Robert H.; Ventra, Dario; Ghinassi, Massimiliano

2017-01-01

Proterozoic rivers flowed through barren landscapes, and lacked interactions with macroscopic organisms. It is widely held that, in the absence of vegetation, fluvial systems featured barely entrenched channels that promptly widened over floodplains during floods. This hypothesis has never been tested because of an enduring lack of Precambrian fluvial-channel morphometric data. Here we show, through remote sensing and outcrop sedimentology, that deep rivers were developed in the Proterozoic, and that morphometric parameters for large fluvial channels might have remained within a narrow range over almost 2 billion years. Our data set comprises fluvial-channel forms deposited a few tens to thousands of kilometres from their headwaters, likely the record of basin- to craton-scale systems. Large Proterozoic channel forms present width:thickness ranges matching those of Phanerozoic counterparts, suggesting closer parallels between their fluvial dynamics. This outcome may better inform analyses of extraterrestrial planetary surfaces and related comparisons with pre-vegetation Earth landscapes. PMID:28548109

Morphometric convergence between Proterozoic and post-vegetation rivers.

PubMed

Ielpi, Alessandro; Rainbird, Robert H; Ventra, Dario; Ghinassi, Massimiliano

2017-05-26

Proterozoic rivers flowed through barren landscapes, and lacked interactions with macroscopic organisms. It is widely held that, in the absence of vegetation, fluvial systems featured barely entrenched channels that promptly widened over floodplains during floods. This hypothesis has never been tested because of an enduring lack of Precambrian fluvial-channel morphometric data. Here we show, through remote sensing and outcrop sedimentology, that deep rivers were developed in the Proterozoic, and that morphometric parameters for large fluvial channels might have remained within a narrow range over almost 2 billion years. Our data set comprises fluvial-channel forms deposited a few tens to thousands of kilometres from their headwaters, likely the record of basin- to craton-scale systems. Large Proterozoic channel forms present width:thickness ranges matching those of Phanerozoic counterparts, suggesting closer parallels between their fluvial dynamics. This outcome may better inform analyses of extraterrestrial planetary surfaces and related comparisons with pre-vegetation Earth landscapes.

Error diffusion concept for multi-level quantization

NASA Astrophysics Data System (ADS)

Broja, Manfred; Michalowski, Kristina; Bryngdahl, Olof

1990-11-01

The error diffusion binarization procedure is adapted to multi-level quantization. The threshold parameters then available have a noticeable influence on the process. Characteristic features of the technique are shown together with experimental results.

Hepatic Histology and Morphometric Measurements in Idiopathic Extrahepatic Portal Vein Thrombosis in Children, Correlated to Clinical Outcome of Meso-Rex Bypass.

PubMed

Tantemsapya, Niramol; Superina, Riccardo; Wang, Deli; Kronauer, Grace; Whitington, Peter F; Melin-Aldana, Hector

2018-06-01

The aim of this study was to correlate clinical, histologic, and morphometric features of the liver in children with extrahepatic portal vein thrombosis (EHPVT), with surgical outcome after Meso-Rex bypass (MRB). Idiopathic EHPVT, a significant cause of portal hypertension, is surgically corrected by MRB. Correlation of histologic and morphometric features of the liver with outcome has not been reported in children. We retrospectively reviewed clinical and intraoperative data of 45 children with idiopathic EHPVT. Liver samples were obtained at the time of MRB. Morphometric measurements of portal tract structures were performed and correlated with surgical outcome. Median follow-up was 3.65 years after surgery (range 1.5 to 10 years). Thirty-seven (82.2%) children had successful MRB. There was no association between age, sex, and suture material with surgical outcome. Average patient age was higher in patients with postoperative complications (P = NS). Portal fibrosis, bridging, parenchymal nodules, portal inflammation, hepatocellular swelling, steatosis, dilatation of portal lymphatics, and periductal fibrosis did not show a significant difference between the 2 groups. Portal vein and bile duct area index were significantly smaller in the unsuccessful group (P = 0.004 and 0.003, respectively). A portal vein area index <0.08 had a lower chance of successful surgical outcome. Hepatic artery area index was not significantly different. Measured intraoperative portal blood inflow was the only significant clinical factor affecting surgical outcome (P = 0.0003). Low portal vein area index and intraoperative portal blood inflow may be negative prognostic factors for MRB outcome in children with idiopathic EHPVT. Average patient age was higher, although not statistically significant, in patients with postoperative complications.

Quantitative pathology in virtual microscopy: history, applications, perspectives.

PubMed

Kayser, Gian; Kayser, Klaus

2013-07-01

With the emerging success of commercially available personal computers and the rapid progress in the development of information technologies, morphometric analyses of static histological images have been introduced to improve our understanding of the biology of diseases such as cancer. First applications have been quantifications of immunohistochemical expression patterns. In addition to object counting and feature extraction, laws of thermodynamics have been applied in morphometric calculations termed syntactic structure analysis. Here, one has to consider that the information of an image can be calculated for separate hierarchical layers such as single pixels, cluster of pixels, segmented small objects, clusters of small objects, objects of higher order composed of several small objects. Using syntactic structure analysis in histological images, functional states can be extracted and efficiency of labor in tissues can be quantified. Image standardization procedures, such as shading correction and color normalization, can overcome artifacts blurring clear thresholds. Morphometric techniques are not only useful to learn more about biological features of growth patterns, they can also be helpful in routine diagnostic pathology. In such cases, entropy calculations are applied in analogy to theoretical considerations concerning information content. Thus, regions with high information content can automatically be highlighted. Analysis of the "regions of high diagnostic value" can deliver in the context of clinical information, site of involvement and patient data (e.g. age, sex), support in histopathological differential diagnoses. It can be expected that quantitative virtual microscopy will open new possibilities for automated histological support. Automated integrated quantification of histological slides also serves for quality assurance. The development and theoretical background of morphometric analyses in histopathology are reviewed, as well as their application and potential future implementation in virtual microscopy. Copyright © 2012 Elsevier GmbH. All rights reserved.

Multi-level, multi-scale resource selection functions and resistance surfaces for conservation planning: Pumas as a case study

PubMed Central

Vickers, T. Winston; Ernest, Holly B.; Boyce, Walter M.

2017-01-01

The importance of examining multiple hierarchical levels when modeling resource use for wildlife has been acknowledged for decades. Multi-level resource selection functions have recently been promoted as a method to synthesize resource use across nested organizational levels into a single predictive surface. Analyzing multiple scales of selection within each hierarchical level further strengthens multi-level resource selection functions. We extend this multi-level, multi-scale framework to modeling resistance for wildlife by combining multi-scale resistance surfaces from two data types, genetic and movement. Resistance estimation has typically been conducted with one of these data types, or compared between the two. However, we contend it is not an either/or issue and that resistance may be better-modeled using a combination of resistance surfaces that represent processes at different hierarchical levels. Resistance surfaces estimated from genetic data characterize temporally broad-scale dispersal and successful breeding over generations, whereas resistance surfaces estimated from movement data represent fine-scale travel and contextualized movement decisions. We used telemetry and genetic data from a long-term study on pumas (Puma concolor) in a highly developed landscape in southern California to develop a multi-level, multi-scale resource selection function and a multi-level, multi-scale resistance surface. We used these multi-level, multi-scale surfaces to identify resource use patches and resistant kernel corridors. Across levels, we found puma avoided urban, agricultural areas, and roads and preferred riparian areas and more rugged terrain. For other landscape features, selection differed among levels, as did the scales of selection for each feature. With these results, we developed a conservation plan for one of the most isolated puma populations in the U.S. Our approach captured a wide spectrum of ecological relationships for a population, resulted in effective conservation planning, and can be readily applied to other wildlife species. PMID:28609466

Multi-level, multi-scale resource selection functions and resistance surfaces for conservation planning: Pumas as a case study.

PubMed

Zeller, Katherine A; Vickers, T Winston; Ernest, Holly B; Boyce, Walter M

2017-01-01

The importance of examining multiple hierarchical levels when modeling resource use for wildlife has been acknowledged for decades. Multi-level resource selection functions have recently been promoted as a method to synthesize resource use across nested organizational levels into a single predictive surface. Analyzing multiple scales of selection within each hierarchical level further strengthens multi-level resource selection functions. We extend this multi-level, multi-scale framework to modeling resistance for wildlife by combining multi-scale resistance surfaces from two data types, genetic and movement. Resistance estimation has typically been conducted with one of these data types, or compared between the two. However, we contend it is not an either/or issue and that resistance may be better-modeled using a combination of resistance surfaces that represent processes at different hierarchical levels. Resistance surfaces estimated from genetic data characterize temporally broad-scale dispersal and successful breeding over generations, whereas resistance surfaces estimated from movement data represent fine-scale travel and contextualized movement decisions. We used telemetry and genetic data from a long-term study on pumas (Puma concolor) in a highly developed landscape in southern California to develop a multi-level, multi-scale resource selection function and a multi-level, multi-scale resistance surface. We used these multi-level, multi-scale surfaces to identify resource use patches and resistant kernel corridors. Across levels, we found puma avoided urban, agricultural areas, and roads and preferred riparian areas and more rugged terrain. For other landscape features, selection differed among levels, as did the scales of selection for each feature. With these results, we developed a conservation plan for one of the most isolated puma populations in the U.S. Our approach captured a wide spectrum of ecological relationships for a population, resulted in effective conservation planning, and can be readily applied to other wildlife species.

Landmark-based geometric morphometric analysis of wing shape among certain species of Aedes mosquitoes in District Dehradun (Uttarakhand), India.

PubMed

Mondal, Ritwik; Devi, N Pemola; Jauhari, R K

2015-06-01

Insect wing morphology has been used in many studies to describe variations among species and populations using traditional morphometrics, and more recently geometric morphometrics. A landmark-based geometric morphometric analysis of the wings of three species of Aedes (Diptera: Culicidae), viz. Ae. aegypti, Ae. albopictus and Ae. pseudotaeniatus, at District Dehradun was conducted belling on the fact that it can provide insight into the population structure, ecology and taxonomic identification. Adult Aedes mosquito specimens were randomly collected using aerial nets and morphologically examined and identified. The landmarks were identified on the basis of landmark based geometric morphometric analysis thin-plate spline (mainly the software tps-Util 1.28; tps-Dig 1.40; tps-Relw 1.53; and tps-Spline 1.20) and integrated morphometrics programme (mainly twogroup win8 and PCA win8) were utilized. In relative warp (RW) analysis, the first two RW of Ae. aegypti accounted for the highest value (95.82%), followed by Ae. pseudotaeniatus (90.89%), while the lowest (90.12%) being recorded for Ae. albopictus. The bending energies of Ae. aegypti and Ae. pseudotaeniatus were quite identical being 0.1882 and 0.1858 respectively, while Ae. albopictus recorded the highest value of 0.9774. The mean difference values of the distances among Aedes species performing Hotelling's T 2 test were significantly high, predicting major differences among the taxa. In PCA analysis, the horizontal and vertical axis summarized 52.41 and 23.30% of variances respectively. The centroid size exhibited significant differences among populations (non-parametric Kruskal-Wallis test, H = 10.56, p < 0.01). It has been marked out that the geometric morphometrics utilizes powerful and comprehensive statistical procedures to analyze the shape differences of a morphological feature, assuming that the studied mosquitoes may represent different genotypes and probably come from one diverse gene pool.

Learning Behavior Characterization with Multi-Feature, Hierarchical Activity Sequences

ERIC Educational Resources Information Center

Ye, Cheng; Segedy, James R.; Kinnebrew, John S.; Biswas, Gautam

2015-01-01

This paper discusses Multi-Feature Hierarchical Sequential Pattern Mining, MFH-SPAM, a novel algorithm that efficiently extracts patterns from students' learning activity sequences. This algorithm extends an existing sequential pattern mining algorithm by dynamically selecting the level of specificity for hierarchically-defined features…

Geometric Morphometrics on Gene Expression Patterns Within Phenotypes: A Case Example on Limb Development

PubMed Central

Martínez-Abadías, Neus; Mateu, Roger; Niksic, Martina; Russo, Lucia; Sharpe, James

2016-01-01

How the genotype translates into the phenotype through development is critical to fully understand the evolution of phenotypes. We propose a novel approach to directly assess how changes in gene expression patterns are associated with changes in morphology using the limb as a case example. Our method combines molecular biology techniques, such as whole-mount in situ hybridization, with image and shape analysis, extending the use of Geometric Morphometrics to the analysis of nonanatomical shapes, such as gene expression domains. Elliptical Fourier and Procrustes-based semilandmark analyses were used to analyze the variation and covariation patterns of the limb bud shape with the expression patterns of two relevant genes for limb morphogenesis, Hoxa11 and Hoxa13. We devised a multiple thresholding method to semiautomatically segment gene domains at several expression levels in large samples of limb buds from C57Bl6 mouse embryos between 10 and 12 postfertilization days. Besides providing an accurate phenotyping tool to quantify the spatiotemporal dynamics of gene expression patterns within developing structures, our morphometric analyses revealed high, non-random, and gene-specific variation undergoing canalization during limb development. Our results demonstrate that Hoxa11 and Hoxa13, despite being paralogs with analogous functions in limb patterning, show clearly distinct dynamic patterns, both in shape and size, and are associated differently with the limb bud shape. The correspondence between our results and already well-established molecular processes underlying limb development confirms that this morphometric approach is a powerful tool to extract features of development regulating morphogenesis. Such multilevel analyses are promising in systems where not so much molecular information is available and will advance our understanding of the genotype–phenotype map. In systematics, this knowledge will increase our ability to infer how evolution modified a common developmental pattern to generate a wide diversity of morphologies, as in the vertebrate limb. PMID:26377442

Glaciated valleys in Europe and western Asia

PubMed Central

Prasicek, Günther; Otto, Jan-Christoph; Montgomery, David R.; Schrott, Lothar

2015-01-01

In recent years, remote sensing, morphometric analysis, and other computational concepts and tools have invigorated the field of geomorphological mapping. Automated interpretation of digital terrain data based on impartial rules holds substantial promise for large dataset processing and objective landscape classification. However, the geomorphological realm presents tremendous complexity and challenges in the translation of qualitative descriptions into geomorphometric semantics. Here, the simple, conventional distinction of V-shaped fluvial and U-shaped glacial valleys was analyzed quantitatively using multi-scale curvature and a novel morphometric variable termed Difference of Minimum Curvature (DMC). We used this automated terrain analysis approach to produce a raster map at a scale of 1:6,000,000 showing the distribution of glaciated valleys across Europe and western Asia. The data set has a cell size of 3 arc seconds and consists of more than 40 billion grid cells. Glaciated U-shaped valleys commonly associated with erosion by warm-based glaciers are abundant in the alpine regions of mid Europe and western Asia but also occur at the margins of mountain ice sheets in Scandinavia. The high-level correspondence with field mapping and the fully transferable semantics validate this approach for automated analysis of yet unexplored terrain around the globe and qualify for potential applications on other planetary bodies like Mars. PMID:27019665

Morphologic and morphometric studies of impact craters in the northern plains of Mars

NASA Technical Reports Server (NTRS)

Barlow, N. G.

1993-01-01

Fresh impact craters in the northern plains of Mars display a variety of morphologic and morphometric properties. Ejecta morphologies range from radial to fluidized, interior features include central peaks and central pits, fluidized morphologies display a range of sinuosities, and depth-diameter ratios are being measured to determine regional variations. Studies of the martian northern plains over the past five years have concentrated in three areas: (1) determining correlations of ejecta morphologies with crater diameter, latitude, and underlying terrain; (2) determining variations in fluidized ejecta blanket sinuosity across the planet; and (3) measurement of depth-diameter ratios and determination of regional variations in this ratio.

Numerical analysis of dysplasia-associated changes in depth-dependent light scattering profile of cervical epithelium

NASA Astrophysics Data System (ADS)

Arifler, Dizem; MacAulay, Calum; Follen, Michele; Guillaud, Martial

2013-06-01

Dysplastic progression is known to be associated with changes in morphology and internal structure of cells. A detailed assessment of the influence of these changes on cellular scattering response is needed to develop and optimize optical diagnostic techniques. In this study, we first analyzed a set of quantitative histopathologic images from cervical biopsies and we obtained detailed information on morphometric and photometric features of segmented epithelial cell nuclei. Morphometric parameters included average size and eccentricity of the best-fit ellipse. Photometric parameters included optical density measures that can be related to dielectric properties and texture characteristics of the nuclei. These features enabled us to construct realistic three-dimensional computational models of basal, parabasal, intermediate, and superficial cell nuclei that were representative of four diagnostic categories, namely normal (or negative for dysplasia), mild dysplasia, moderate dysplasia, and severe dysplasia or carcinoma in situ. We then employed the finite-difference time-domain method, a popular numerical tool in electromagnetics, to compute the angle-resolved light scattering properties of these representative models. Results indicated that a high degree of variability can characterize a given diagnostic category, but scattering from moderately and severely dysplastic or cancerous nuclei was generally observed to be stronger compared to scattering from normal and mildly dysplastic nuclei. Simulation results also pointed to significant intensity level variations among different epithelial depths. This suggests that intensity changes associated with dysplastic progression need to be analyzed in a depth-dependent manner.

Automatic detection of multi-level acetowhite regions in RGB color images of the uterine cervix

NASA Astrophysics Data System (ADS)

Lange, Holger

2005-04-01

Uterine cervical cancer is the second most common cancer among women worldwide. Colposcopy is a diagnostic method used to detect cancer precursors and cancer of the uterine cervix, whereby a physician (colposcopist) visually inspects the metaplastic epithelium on the cervix for certain distinctly abnormal morphologic features. A contrast agent, a 3-5% acetic acid solution, is used, causing abnormal and metaplastic epithelia to turn white. The colposcopist considers diagnostic features such as the acetowhite, blood vessel structure, and lesion margin to derive a clinical diagnosis. STI Medical Systems is developing a Computer-Aided-Diagnosis (CAD) system for colposcopy -- ColpoCAD, a complex image analysis system that at its core assesses the same visual features as used by colposcopists. The acetowhite feature has been identified as one of the most important individual predictors of lesion severity. Here, we present the details and preliminary results of a multi-level acetowhite region detection algorithm for RGB color images of the cervix, including the detection of the anatomic features: cervix, os and columnar region, which are used for the acetowhite region detection. The RGB images are assumed to be glare free, either obtained by cross-polarized image acquisition or glare removal pre-processing. The basic approach of the algorithm is to extract a feature image from the RGB image that provides a good acetowhite to cervix background ratio, to segment the feature image using novel pixel grouping and multi-stage region-growing algorithms that provide region segmentations with different levels of detail, to extract the acetowhite regions from the region segmentations using a novel region selection algorithm, and then finally to extract the multi-levels from the acetowhite regions using multiple thresholds. The performance of the algorithm is demonstrated using human subject data.

Looking for Alzheimer's Disease morphometric signatures using machine learning techniques.

PubMed

Donnelly-Kehoe, Patricio Andres; Pascariello, Guido Orlando; Gómez, Juan Carlos

2018-05-15

We present our results in the International challenge for automated prediction of MCI from MRI data. We evaluate the performance of MRI-based neuromorphometrics features (nMF) in the classification of Healthy Controls (HC), Mild Cognitive Impairment (MCI), converters MCI (cMCI) and Alzheimer's Disease (AD) patients. We propose to segregate participants in three groups according to Mini Mental State Examination score (MMSEs), searching for the main nMF in each group. Then we use them to develop a Multi Classifier System (MCS). We compare the MCS against a single classifier scheme using both MMSEs+nMF and nMF only. We repeat this comparison using three state-of-the-art classification algorithms. The MCS showed the best performance on both Accuracy and Area Under the Receiver Operating Curve (AUC) in comparison with single classifiers. The multiclass AUC for the MCS classification on Test Dataset were 0.83 for HC, 0.76 for cMCI, 0.65 for MCI and 0.95 for AD. Furthermore, MCS's optimum accuracy on Neurodegenerative Disease (ND) detection (AD+cMCI vs MCI+HC) was 81.0% (AUC=0.88), while the single classifiers got 71.3% (AUC=0.86) and 63.1% (AUC=0.79) for MMSEs+nMF and only nMF respectively. The proposed MCS showed a better performance than using all nMF into a single state-of-the-art classifier. These findings suggest that using cognitive scoring, e.g. MMSEs, in the design of a Multi Classifier System improves performance by allowing a better selection of MRI-based features. Copyright © 2017 Elsevier B.V. All rights reserved.

Diagnostic and prognostic histopathology system using morphometric indices

DOE Office of Scientific and Technical Information (OSTI.GOV)

Parvin, Bahram; Chang, Hang; Han, Ju

Determining at least one of a prognosis or a therapy for a patient based on a stained tissue section of the patient. An image of a stained tissue section of a patient is processed by a processing device. A set of features values for a set of cell-based features is extracted from the processed image, and the processed image is associated with a particular cluster of a plurality of clusters based on the set of feature values, where the plurality of clusters is defined with respect to a feature space corresponding to the set of features.

The Segmental Morphometric Properties of the Horse Cervical Spinal Cord: A Study of Cadaver

PubMed Central

Bahar, Sadullah; Bolat, Durmus; Selcuk, Muhammet Lutfi

2013-01-01

Although the cervical spinal cord (CSC) of the horse has particular importance in diseases of CNS, there is very little information about its segmental morphometry. The objective of the present study was to determine the morphometric features of the CSC segments in the horse and possible relationships among the morphometric features. The segmented CSC from five mature animals was used. Length, weight, diameter, and volume measurements of the segments were performed macroscopically. Lengths and diameters of segments were measured histologically, and area and volume measurements were performed using stereological methods. The length, weight, and volume of the CSC were 61.6 ± 3.2 cm, 107.2 ± 10.4 g, and 95.5 ± 8.3 cm3, respectively. The length of the segments was increased from C 1 to C 3, while it decreased from C 3 to C 8. The gross section (GS), white matter (WM), grey matter (GM), dorsal horn (DH), and ventral horn (VH) had the largest cross-section areas at C 8. The highest volume was found for the total segment and WM at C 4, GM, DH, and VH at C 7, and the central canal (CC) at C 3. The data obtained not only contribute to the knowledge of the normal anatomy of the CSC but may also provide reference data for veterinary pathologists and clinicians. PMID:23476145

Morphometrical differences between resectable and non-resectable pancreatic cancer: a fractal analysis.

PubMed

Vasilescu, Catalin; Giza, Dana Elena; Petrisor, Petre; Dobrescu, Radu; Popescu, Irinel; Herlea, Vlad

2012-01-01

Pancreatic cancer is a highly aggressive cancer with a rising incidence and poor prognosis despite active surgical treatment. Candidates for surgical resection should be carefully selected. In order to avoid unnecessary laparotomy it is useful to identify reliable factors that may predict resectability. Nuclear morphometry and fractal dimension of pancreatic nuclear features could provide important preoperative information in assessing pancreas resectability. Sixty-one patients diagnosed with pancreatic cancer were enrolled in this retrospective study between 2003 and 2005. Patients were divided into two groups: one resectable cancer group and one with non-resectable pancreatic cancer. Morphometric parameters measured were: nuclear area, length of minor axis and length of major axis. Nuclear shape and chromatin distribution of the pancreatic tumor cells were both estimated using fractal dimension. Morphometric measurements have shown significant differences between the nuclear area of the resectable group and the non-resectable group (61.9 ± 19.8µm vs. 42.2 ± 15.6µm). Fractal dimension of the nuclear outlines and chromatin distribution was found to have a higher value in the non-resectable group (p<0.05). Objective measurements should be performed to improve risk assessment and therapeutic decisions in pancreatic cancer. Nuclear morphometry of the pancreatic nuclear features can provide important pre-operative information in resectability assessment. The fractal dimension of the nuclear shape and chromatin distribution may be considered a new promising adjunctive tool for conventional pathological analysis.

Scaling mimesis: Morphometric and ecomorphological similarities in three sympatric plant-mimetic fish of the family Carangidae (Teleostei)

PubMed Central

de Queiroz, Alexya Cunha; Vallinoto, Marcelo; Sakai, Yoichi; Giarrizzo, Tommaso

2018-01-01

The mimetic juveniles of a number of carangid fish species resemble plant parts floating near the water surface, such as leaves, seeds and other plant debris. The present study is the first to verify the morphological similarities and ecomorphological relationships between three carangids (Oligoplites saurus, Oligoplites palometa and Trachinotus falcatus) and their associated plant models. Behavioral observations were conducted in the estuary of Curuçá River, in northeastern Pará (Brazil) between August 2015 and July 2016. Individual fishes and associated floating objects (models) were sampled for comparative analysis using both geometric and morphometric approaches. While the mimetic fish and their models retain their own distinct, intrinsic morphological features, a high degree of morphological similarity was found between each fish species and its model. The morphometric analyses revealed a general tendency of isometric development in all three fish species, probably related to their pelagic habitats, during all ontogenetic stages. PMID:29558476

Morphometric variations of laelapine mite (Acari: Mesostigmata) populations infesting small mammals (Mammalia) in Brazil.

PubMed

Martins-Hatano, F; Gettinger, D; Manhães, M L; Bergallo, H G

2012-08-01

The goal of this study was to evaluate the morphometric variation of laelapine populations (Acari, Mesostigmata) associated with neotropical oryzomyine rodents at different geographic localities in Brazil. Three nominal mite species were selected for study, all infesting the pelage of small mammals at different localities in Rio de Janeiro, Espírito Santo, Bahia, and the Federal District, Brazil. To analyse morphometric characteristics, thirty-seven morphological characters distributed across the whole body of each specimen were measured. We use the Analysis of Principal Components, extracting the three first axes and projecting each mite in these axes. Major species level changes in the taxonomy of the host mammals allows an independent examination of morphometric variation of mites infesting a set of distinctly different host species at different geographic localities. Gigantolaelaps vitzthumi and Laelaps differens are associated with oryzomyine rodents of the genus Cerradomys, and consistently showed a tendency to cluster by host phylogeny. Laelaps manguinhosi associated with Nectomys rattus in central Brazil is morphometrically distinct from mites infesting N. squamipes in the coastal restingas of Rio de Janeiro and Espírito Santo. The results obtained here indicate that laelapine mite populations can vary among geographic areas and among phylogenetically related host species. Clearly, the study of these mites at the population level can be an important tool for clarifying the taxonomy of both mites and hosts.

Multi-Modality Cascaded Convolutional Neural Networks for Alzheimer's Disease Diagnosis.

PubMed

Liu, Manhua; Cheng, Danni; Wang, Kundong; Wang, Yaping

2018-03-23

Accurate and early diagnosis of Alzheimer's disease (AD) plays important role for patient care and development of future treatment. Structural and functional neuroimages, such as magnetic resonance images (MRI) and positron emission tomography (PET), are providing powerful imaging modalities to help understand the anatomical and functional neural changes related to AD. In recent years, machine learning methods have been widely studied on analysis of multi-modality neuroimages for quantitative evaluation and computer-aided-diagnosis (CAD) of AD. Most existing methods extract the hand-craft imaging features after image preprocessing such as registration and segmentation, and then train a classifier to distinguish AD subjects from other groups. This paper proposes to construct cascaded convolutional neural networks (CNNs) to learn the multi-level and multimodal features of MRI and PET brain images for AD classification. First, multiple deep 3D-CNNs are constructed on different local image patches to transform the local brain image into more compact high-level features. Then, an upper high-level 2D-CNN followed by softmax layer is cascaded to ensemble the high-level features learned from the multi-modality and generate the latent multimodal correlation features of the corresponding image patches for classification task. Finally, these learned features are combined by a fully connected layer followed by softmax layer for AD classification. The proposed method can automatically learn the generic multi-level and multimodal features from multiple imaging modalities for classification, which are robust to the scale and rotation variations to some extent. No image segmentation and rigid registration are required in pre-processing the brain images. Our method is evaluated on the baseline MRI and PET images of 397 subjects including 93 AD patients, 204 mild cognitive impairment (MCI, 76 pMCI +128 sMCI) and 100 normal controls (NC) from Alzheimer's Disease Neuroimaging Initiative (ADNI) database. Experimental results show that the proposed method achieves an accuracy of 93.26% for classification of AD vs. NC and 82.95% for classification pMCI vs. NC, demonstrating the promising classification performance.

Geometric morphometrics in primatology: craniofacial variation in Homo sapiens and Pan troglodytes.

PubMed

Lynch, J M; Wood, C G; Luboga, S A

1996-01-01

Traditionally, morphometric studies have relied on statistical analysis of distances, angles or ratios to investigate morphometric variation among taxa. Recently, geometric techniques have been developed for the direct analysis of landmark data. In this paper, we offer a summary (with examples) of three of these newer techniques, namely shape coordinate, thin-plate spline and relative warp analyses. Shape coordinate analysis detected significant craniofacial variation between 4 modern human populations, with African and Australian Aboriginal specimens being relatively prognathous compared with their Eurasian counterparts. In addition, the Australian specimens exhibited greater basicranial flexion than all other samples. The observed relationships between size and craniofacial shape were weak. The decomposition of shape variation into affine and non-affine components is illustrated via a thin-plate spline analysis of Homo and Pan cranial landmarks. We note differences between Homo and Pan in the degree of prognathism and basicranial flexion and the position and orientation of the foramen magnum. We compare these results with previous studies of these features in higher primates and discuss the utility of geometric morphometrics as a tool in primatology and physical anthropology. We conclude that many studies of morphological variation, both within and between taxa, would benefit from the graphical nature of these techniques.

In situ Compressive Loading and Correlative Noninvasive Imaging of the Bone-periodontal Ligament-tooth Fibrous Joint

PubMed Central

Jang, Andrew T.; Lin, Jeremy D.; Seo, Youngho; Etchin, Sergey; Merkle, Arno; Fahey, Kevin; Ho, Sunita P.

2014-01-01

This study demonstrates a novel biomechanics testing protocol. The advantage of this protocol includes the use of an in situ loading device coupled to a high resolution X-ray microscope, thus enabling visualization of internal structural elements under simulated physiological loads and wet conditions. Experimental specimens will include intact bone-periodontal ligament (PDL)-tooth fibrous joints. Results will illustrate three important features of the protocol as they can be applied to organ level biomechanics: 1) reactionary force vs. displacement: tooth displacement within the alveolar socket and its reactionary response to loading, 2) three-dimensional (3D) spatial configuration and morphometrics: geometric relationship of the tooth with the alveolar socket, and 3) changes in readouts 1 and 2 due to a change in loading axis, i.e. from concentric to eccentric loads. Efficacy of the proposed protocol will be evaluated by coupling mechanical testing readouts to 3D morphometrics and overall biomechanics of the joint. In addition, this technique will emphasize on the need to equilibrate experimental conditions, specifically reactionary loads prior to acquiring tomograms of fibrous joints. It should be noted that the proposed protocol is limited to testing specimens under ex vivo conditions, and that use of contrast agents to visualize soft tissue mechanical response could lead to erroneous conclusions about tissue and organ-level biomechanics. PMID:24638035

Medial prefrontal aberrations in major depressive disorder revealed by cytoarchitectonically informed voxel-based morphometry

PubMed Central

Bludau, Sebastian; Bzdok, Danilo; Gruber, Oliver; Kohn, Nils; Riedl, Valentin; Sorg, Christian; Palomero-Gallagher, Nicola; Müller, Veronika I.; Hoffstaedter, Felix; Amunts, Katrin; Eickhoff, Simon B.

2017-01-01

Objective The heterogeneous human frontal pole has been identified as a node in the dysfunctional network of major depressive disorder. The contribution of the medial (socio-affective) versus lateral (cognitive) frontal pole to major depression pathogenesis is currently unclear. The present study performs morphometric comparison of the microstructurally informed subdivisions of human frontal pole between depressed patients and controls using both uni- and multivariate statistics. Methods Multi-site voxel- and region-based morphometric MRI analysis of 73 depressed patients and 73 matched controls without psychiatric history. Frontal pole volume was first compared between depressed patients and controls by subdivision-wise classical morphometric analysis. In a second approach, frontal pole volume was compared by subdivision-naive multivariate searchlight analysis based on support vector machines. Results Subdivision-wise morphometric analysis found a significantly smaller medial frontal pole in depressed patients with a negative correlation of disease severity and duration. Histologically uninformed multivariate voxel-wise statistics provided converging evidence for structural aberrations specific to the microstructurally defined medial area of the frontal pole in depressed patients. Conclusions Across disparate methods, we demonstrated subregion specificity in the left medial frontal pole volume in depressed patients. Indeed, the frontal pole was shown to structurally and functionally connect to other key regions in major depression pathology like the anterior cingulate cortex and the amygdala via the uncinate fasciculus. Present and previous findings consolidate the left medial portion of the frontal pole as particularly altered in major depression. PMID:26621569

Geometric morphometrics analysis of the hind wing of leaf beetles: proximal and distal parts are separate modules.

PubMed

Ren, Jing; Bai, Ming; Yang, Xing-Ke; Zhang, Run-Zhi; Ge, Si-Qin

2017-01-01

The success of beetles is mainly attributed to the possibility to hide the hindwings under the sclerotised elytra. The acquisition of the transverse folding function of the hind wing is an important event in the evolutionary history of beetles. In this study, the morphological and functional variances in the hind wings of 94 leaf beetle species (Coleoptera: Chrysomelinae) is explored using geometric morphometrics based on 36 landmarks. Principal component analysis and Canonical variate analysis indicate that changes of apical area, anal area, and middle area are three useful phylogenetic features at a subtribe level of leaf beetles. Variances of the apical area are the most obvious, which strongly influence the entire venation variance. Partial least squares analysis indicates that the proximal and distal parts of hind wings are weakly associated. Modularity tests confirm that the proximal and distal compartments of hind wings are separate modules. It is deduced that for leaf beetles, or even other beetles, the hind wing possibly exhibits significant functional divergences that occurred during the evolution of transverse folding that resulted in the proximal and distal compartments of hind wings evolving into separate functional modules.

Combining morphometrics with molecular taxonomy: how different are similar foliose keratose sponges from the Australian tropics?

PubMed

Abdul Wahab, M A; Fromont, J; Whalan, S; Webster, N; Andreakis, N

2014-04-01

Sponge taxonomy can be challenging as many groups exhibit extreme morphological plasticity induced by local environmental conditions. Foliose keratose sponges of the sub-family Phyllospongiinae (Dictyoceratida, Thorectidae: Strepsichordaia, Phyllospongia and Carteriospongia) are commonly found in intertidal and subtidal habitats of the Indo-Pacific. Lacking spicules, these sponges can be difficult to differentiate due to the lack of reliable morphological characters for species delineation. We use molecular phylogenies inferred from the nuclear Internal Transcribed Spacer 2 region (ITS2) and morphometrics (19 characters; 52 character states) to identify evolutionarily significant units (ESUs; sensu Moritz) within foliose Phyllosponginiids collected from seven geographic locations across tropical eastern and Western Australia. The ITS2 topology was congruent with the tree derived from Bayesian inference of discrete morphological characters supporting expected taxonomic relationships at the genus level and the identification of five ESUs. However, phylogenies inferred from the ITS2 marker revealed multiple sequence clusters, some of which were characterised by distinct morphological features and specific geographic ranges. Our results are discussed in light of taxonomic incongruences within this study, hidden sponge diversity and the role of vicariant events in influencing present day distribution patterns. Copyright © 2014 Elsevier Inc. All rights reserved.

Biological effects of ultraviolet irradiation on bees

DOE Office of Scientific and Technical Information (OSTI.GOV)

Es`kov, E.K.

1995-09-01

The influence of natural solar and artificial ultraviolet irradiation on developing bees was studied. Lethal exposures to irradiation at different stages of development were determined. The influence of irradiation on the variability of the morphometric features of bees was revealed. 5 refs., 1 fig.

Understanding of the Geomorphological Elements in Discrimination of Typical Mediterranean Land Cover Types

NASA Astrophysics Data System (ADS)

Elhag, Mohamed; Boteva, Silvena

2017-12-01

Quantification of geomorphometric features is the keystone concern of the current study. The quantification was based on the statistical approach in term of multivariate analysis of local topographic features. The implemented algorithm utilizes the Digital Elevation Model (DEM) to categorize and extract the geomorphometric features embedded in the topographic dataset. The morphological settings were exercised on the central pixel of 3x3 per-defined convolution kernel to evaluate the surrounding pixels under the right directional pour point model (D8) of the azimuth viewpoints. Realization of unsupervised classification algorithm in term of Iterative Self-Organizing Data Analysis Technique (ISODATA) was carried out on ASTER GDEM within the boundary of the designated study area to distinguish 10 morphometric classes. The morphometric classes expressed spatial distribution variation in the study area. The adopted methodology is successful to appreciate the spatial distribution of the geomorphometric features under investigation. The conducted results verified the superimposition of the delineated geomorphometric elements over a given remote sensing imagery to be further analyzed. Robust relationship between different Land Cover types and the geomorphological elements was established in the context of the study area. The domination and the relative association of different Land Cover types in corresponding to its geomorphological elements were demonstrated.

Directional asymmetry of upper limbs in a medieval population from Poland: A combination of linear and geometric morphometrics.

PubMed

Kubicka, Anna Maria; Lubiatowski, Przemysław; Długosz, Jan Dawid; Romanowski, Leszek; Piontek, Janusz

2016-11-01

Degrees of upper-limb bilateral asymmetry reflect habitual behavior and activity levels throughout life in human populations. The shoulder joint facilitates a wide range of combined motions due to the simultaneous motion of all three bones: clavicle, scapula, and humerus. Accordingly, we used three-dimensional geometric morphometrics to analyze shape differences in the glenoid cavity and linear morphometrics to obtain the degree of directional asymmetry in a medieval population. To calculate directional asymmetry, clavicles, humeri, and scapulae from 100 individuals (50 females, 50 males) were measured. Landmarks and semilandmarks were placed within a three-dimensional reconstruction of the glenoid cavity for analysis of shape differences between sides of the body within sexes. Linear morphometrics showed significant directional asymmetry in both sexes in all bones. Geometric morphometrics revealed significant shape differences of the glenoid cavity between sides of the body in females but not in males. Both indicators of directional asymmetry (%DA and %AA) did not show significant differences between sexes. PLS analysis revealed a significant correlation between glenoid shape and two humeral head diameters only in females on the left side of the body. The studied population, perhaps due to a high level of activity, exhibited slightly greater upper-limb bone bilateral asymmetry than other agricultural populations. Results suggest that the upper limbs were involved in similar activity patterns in both sexes but were characterized by different habitual behaviors. To obtain comprehensive results, studies should be based on sophisticated methods such as geometric morphometrics as well as standard measurements. Am. J. Hum. Biol. 28:817-824, 2016. © 2016Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Performance Evaluation of Fusing Protected Fingerprint Minutiae Templates on the Decision Level

PubMed Central

Yang, Bian; Busch, Christoph; de Groot, Koen; Xu, Haiyun; Veldhuis, Raymond N. J.

2012-01-01

In a biometric authentication system using protected templates, a pseudonymous identifier is the part of a protected template that can be directly compared. Each compared pair of pseudonymous identifiers results in a decision testing whether both identifiers are derived from the same biometric characteristic. Compared to an unprotected system, most existing biometric template protection methods cause to a certain extent degradation in biometric performance. Fusion is therefore a promising way to enhance the biometric performance in template-protected biometric systems. Compared to feature level fusion and score level fusion, decision level fusion has not only the least fusion complexity, but also the maximum interoperability across different biometric features, template protection and recognition algorithms, templates formats, and comparison score rules. However, performance improvement via decision level fusion is not obvious. It is influenced by both the dependency and the performance gap among the conducted tests for fusion. We investigate in this paper several fusion scenarios (multi-sample, multi-instance, multi-sensor, multi-algorithm, and their combinations) on the binary decision level, and evaluate their biometric performance and fusion efficiency on a multi-sensor fingerprint database with 71,994 samples. PMID:22778583

Characterizing the primary material sources and dominant erosional processes for post-fire debris-flow initiation in a headwater basin using multi-temporal terrestrial laser scanning data

USGS Publications Warehouse

Staley, Dennis M.; Waslewicz, Thad A.; Kean, Jason W.

2014-01-01

Wildfire dramatically alters the hydrologic response of a watershed such that even modest rainstorms can produce hazardous debris flows. Relative to shallow landslides, the primary sources of material and dominant erosional processes that contribute to post-fire debris-flow initiation are poorly constrained. Improving our understanding of how and where material is eroded from a watershed during a post-fire debris-flow requires (1) precise measurements of topographic change to calculate volumetric measurements of erosion and deposition, and (2) the identification of relevant morphometrically defined process domains to spatially constrain these measurements of erosion and deposition. In this study, we combine the morphometric analysis of a steep, small (0.01 km2) headwater drainage basin with measurements of topographic change using high-resolution (2.5 cm) multi-temporal terrestrial laser scanning data made before and after a post-fire debris flow. The results of the morphometric analysis are used to define four process domains: hillslope-divergent, hillslope-convergent, transitional, and channelized incision. We determine that hillslope-divergent and hillslope-convergent process domains represent the primary sources of material over the period of analysis in the study basin. From these results we conclude that raindrop-impact induced erosion, ravel, surface wash, and rilling are the primary erosional processes contributing to post-fire debris-flow initiation in the small, steep headwater basin. Further work is needed to determine (1) how these results vary with increasing drainage basin size, (2) how these data might scale upward for use with coarser resolution measurements of topography, and (3) how these results change with evolving sediment supply conditions and vegetation recovery.

An ensemble learning system for a 4-way classification of Alzheimer's disease and mild cognitive impairment.

PubMed

Yao, Dongren; Calhoun, Vince D; Fu, Zening; Du, Yuhui; Sui, Jing

2018-05-15

Discriminating Alzheimer's disease (AD) from its prodromal form, mild cognitive impairment (MCI), is a significant clinical problem that may facilitate early diagnosis and intervention, in which a more challenging issue is to classify MCI subtypes, i.e., those who eventually convert to AD (cMCI) versus those who do not (MCI). To solve this difficult 4-way classification problem (AD, MCI, cMCI and healthy controls), a competition was hosted by Kaggle to invite the scientific community to apply their machine learning approaches on pre-processed sets of T1-weighted magnetic resonance images (MRI) data and the demographic information from the international Alzheimer's disease neuroimaging initiative (ADNI) database. This paper summarizes our competition results. We first proposed a hierarchical process by turning the 4-way classification into five binary classification problems. A new feature selection technology based on relative importance was also proposed, aiming to identify a more informative and concise subset from 426 sMRI morphometric and 3 demographic features, to ensure each binary classifier to achieve its highest accuracy. As a result, about 2% of the original features were selected to build a new feature space, which can achieve the final four-way classification with a 54.38% accuracy on testing data through hierarchical grouping, higher than several alternative methods in comparison. More importantly, the selected discriminative features such as hippocampal volume, parahippocampal surface area, and medial orbitofrontal thickness, etc. as well as the MMSE score, are reasonable and consistent with those reported in AD/MCI deficits. In summary, the proposed method provides a new framework for multi-way classification using hierarchical grouping and precise feature selection. Copyright © 2018 Elsevier B.V. All rights reserved.

Effects of dietary Tenebrio molitor meal inclusion in free-range chickens.

PubMed

Biasato, I; De Marco, M; Rotolo, L; Renna, M; Lussiana, C; Dabbou, S; Capucchio, M T; Biasibetti, E; Costa, P; Gai, F; Pozzo, L; Dezzutto, D; Bergagna, S; Martínez, S; Tarantola, M; Gasco, L; Schiavone, A

2016-12-01

Insects are currently being considered as a novel protein source for animal feeds, because they contain a large amount of protein. The larvae of Tenebrio molitor (TM) have been shown to be an acceptable protein source for broiler chickens in terms of growth performance, but till now, no data on histological or intestinal morphometric features have been reported. This study has had the aim of evaluating the effects of dietary TM inclusion on the performance, welfare, intestinal morphology and histological features of free-range chickens. A total of 140 medium-growing hybrid female chickens were free-range reared and randomly allotted to two dietary treatments: (i) a control group and (ii) a TM group, in which TM meal was included at 75 g/kg. Each group consisted of five pens as replicates, with 14 chicks per pen. Growth performance, haematological and serum parameters and welfare indicators were evaluated, and the animals were slaughtered at the age of 97 days. Two birds per pen (10 birds/treatment) were submitted to histological (liver, spleen, thymus, bursa of Fabricius, kidney, heart, glandular stomach and gut) and morphometric (duodenum, jejunum and ileum) investigations. The inclusion of TM did not affect the growth performance, haematological or serum parameters. The morphometric and histological features were not significantly affected either, thus suggesting no influence on nutrient metabolization, performance or animal health. Glandular stomach alterations (chronic flogosis with epithelial squamous metaplasia) were considered paraphysiological in relation to free-range farming. The observed chronic intestinal flogosis, with concomitant activation of the lymphoid tissue, was probably due to previous parasitic infections, which are very frequently detected in free-range chickens. In conclusion, the findings of this study show that yellow mealworm inclusion does not affect the welfare, productive performances or morphological features of free-range chickens, thus confirming that TM can be used safely in poultry diets. Journal of Animal Physiology and Animal Nutrition © 2016 Blackwell Verlag GmbH.

Group-level spatio-temporal pattern recovery in MEG decoding using multi-task joint feature learning.

PubMed

Kia, Seyed Mostafa; Pedregosa, Fabian; Blumenthal, Anna; Passerini, Andrea

2017-06-15

The use of machine learning models to discriminate between patterns of neural activity has become in recent years a standard analysis approach in neuroimaging studies. Whenever these models are linear, the estimated parameters can be visualized in the form of brain maps which can aid in understanding how brain activity in space and time underlies a cognitive function. However, the recovered brain maps often suffer from lack of interpretability, especially in group analysis of multi-subject data. To facilitate the application of brain decoding in group-level analysis, we present an application of multi-task joint feature learning for group-level multivariate pattern recovery in single-trial magnetoencephalography (MEG) decoding. The proposed method allows for recovering sparse yet consistent patterns across different subjects, and therefore enhances the interpretability of the decoding model. Our experimental results demonstrate that the mutli-task joint feature learning framework is capable of recovering more meaningful patterns of varying spatio-temporally distributed brain activity across individuals while still maintaining excellent generalization performance. We compare the performance of the multi-task joint feature learning in terms of generalization, reproducibility, and quality of pattern recovery against traditional single-subject and pooling approaches on both simulated and real MEG datasets. These results can facilitate the usage of brain decoding for the characterization of fine-level distinctive patterns in group-level inference. Considering the importance of group-level analysis, the proposed approach can provide a methodological shift towards more interpretable brain decoding models. Copyright © 2017 Elsevier B.V. All rights reserved.

A multimodal image sensor system for identifying water stress in grapevines

NASA Astrophysics Data System (ADS)

Zhao, Yong; Zhang, Qin; Li, Minzan; Shao, Yongni; Zhou, Jianfeng; Sun, Hong

2012-11-01

Water stress is one of the most common limitations of fruit growth. Water is the most limiting resource for crop growth. In grapevines, as well as in other fruit crops, fruit quality benefits from a certain level of water deficit which facilitates to balance vegetative and reproductive growth and the flow of carbohydrates to reproductive structures. A multi-modal sensor system was designed to measure the reflectance signature of grape plant surfaces and identify different water stress levels in this paper. The multi-modal sensor system was equipped with one 3CCD camera (three channels in R, G, and IR). The multi-modal sensor can capture and analyze grape canopy from its reflectance features, and identify the different water stress levels. This research aims at solving the aforementioned problems. The core technology of this multi-modal sensor system could further be used as a decision support system that combines multi-modal sensory data to improve plant stress detection and identify the causes of stress. The images were taken by multi-modal sensor which could output images in spectral bands of near-infrared, green and red channel. Based on the analysis of the acquired images, color features based on color space and reflectance features based on image process method were calculated. The results showed that these parameters had the potential as water stress indicators. More experiments and analysis are needed to validate the conclusion.

An adaptive multi-feature segmentation model for infrared image

NASA Astrophysics Data System (ADS)

Zhang, Tingting; Han, Jin; Zhang, Yi; Bai, Lianfa

2016-04-01

Active contour models (ACM) have been extensively applied to image segmentation, conventional region-based active contour models only utilize global or local single feature information to minimize the energy functional to drive the contour evolution. Considering the limitations of original ACMs, an adaptive multi-feature segmentation model is proposed to handle infrared images with blurred boundaries and low contrast. In the proposed model, several essential local statistic features are introduced to construct a multi-feature signed pressure function (MFSPF). In addition, we draw upon the adaptive weight coefficient to modify the level set formulation, which is formed by integrating MFSPF with local statistic features and signed pressure function with global information. Experimental results demonstrate that the proposed method can make up for the inadequacy of the original method and get desirable results in segmenting infrared images.

Multi-Sensor Registration of Earth Remotely Sensed Imagery

NASA Technical Reports Server (NTRS)

LeMoigne, Jacqueline; Cole-Rhodes, Arlene; Eastman, Roger; Johnson, Kisha; Morisette, Jeffrey; Netanyahu, Nathan S.; Stone, Harold S.; Zavorin, Ilya; Zukor, Dorothy (Technical Monitor)

2001-01-01

Assuming that approximate registration is given within a few pixels by a systematic correction system, we develop automatic image registration methods for multi-sensor data with the goal of achieving sub-pixel accuracy. Automatic image registration is usually defined by three steps; feature extraction, feature matching, and data resampling or fusion. Our previous work focused on image correlation methods based on the use of different features. In this paper, we study different feature matching techniques and present five algorithms where the features are either original gray levels or wavelet-like features, and the feature matching is based on gradient descent optimization, statistical robust matching, and mutual information. These algorithms are tested and compared on several multi-sensor datasets covering one of the EOS Core Sites, the Konza Prairie in Kansas, from four different sensors: IKONOS (4m), Landsat-7/ETM+ (30m), MODIS (500m), and SeaWIFS (1000m).

Assessment of bronchial wall thickness and lumen diameter in human adults using multi-detector computed tomography: comparison with theoretical models

PubMed Central

Montaudon, M; Desbarats, P; Berger, P; de Dietrich, G; Marthan, R; Laurent, F

2007-01-01

A thickened bronchial wall is the morphological substratum of most diseases of the airway. Theoretical and clinical models of bronchial morphometry have so far focused on bronchial lumen diameter, and bronchial length and angles, mainly assessed from bronchial casts. However, these models do not provide information on bronchial wall thickness. This paper reports in vivo values of cross-sectional wall area, lumen area, wall thickness and lumen diameter in ten healthy subjects as assessed by multi-detector computed tomography. A validated dedicated software package was used to measure these morphometric parameters up to the 14th bronchial generation, with respect to Weibel's model of bronchial morphometry, and up to the 12th according to Boyden's classification. Measured lumen diameters and homothety ratios were compared with theoretical values obtained from previously published studies, and no difference was found when considering dichotomic division of the bronchial tree. Mean wall area, lumen area, wall thickness and lumen diameter were then provided according to bronchial generation order, and mean homothety ratios were computed for wall area, lumen area and wall thickness as well as equations giving the mean value of each parameter for a given bronchial generation with respect to its value in generation 0 (trachea). Multi-detector computed tomography measurements of bronchial morphometric parameters may help to improve our knowledge of bronchial anatomy in vivo, our understanding of the pathophysiology of bronchial diseases and the evaluation of pharmacological effects on the bronchial wall. PMID:17919291

[Features of the structure and parameters of the intra-alveolar septa in residents of Western Siberia].

PubMed

Shishkin, G S; Ustiuzhaninova, N V

1998-01-01

In inhabitants of Novosibirsk and Moscow district intraalveolar septum, the basic functional element of the lung consists of interstitial connective tissue and capillar network, limited with basement membranes, on which cells of epithelial lining are placed. There are no principal differences in septal structure between individuals from both regions. The majority of morphometric parameters are statistically similar, although certain peculiarities were noted in human subjects from Siberia, the most important of which is that air-blood barrier in them is 33% thinner than those in inhabitants of Moscow district. Majority of capillaries possess the air-blood barrier from both sides. This increases diffous capacity of the lungs and blood oxygenation level.

Correlation between three-dimensional power Doppler and morphometric measurement of endometrial vascularity at the time of embryo implantation in women with unexplained recurrent miscarriage.

PubMed

Chen, Xiaoyan; Saravelos, Sotirios H; Liu, Yingyu; Huang, Jin; Wang, Chi Chiu; Li, Tin Chiu

2017-06-01

Power Doppler in combination with three-dimensional (3D-PD) ultrasonography has been used as a noninvasive tool to evaluate the vascularity. However, it is unclear whether 3D-PD can accurately reflect endometrial vascularization and replace the invasive endometrial biopsy. This study aims to investigate the correlation between 3D-PD and micro vessel morphometric measurement of endometrial vascularity. Twenty-five women with unexplained recurrent miscarriage were recruited for 3D-PD and endometrial biopsy on precisely day LH + 7. Immunohistochemistry using vWF was employed to identify micro vessels in endometrial biopsy specimens followed by the use of morphometric technique to measure the mean vessel diameter and volume fractions. The vascularization index (VI), flow index (FI) and vascularization flow index (VFI) assessed by 3D-PD were calculated for both the endometrial and sub-endometrial regions. There were no significant correlations between any of the ultrasonographic measurements (endometrial thickness, endometrial volume, endometrial VI/FI/VFI, sub-endometrial volume, sub-endometrial VI/FI/VFI) and morphometric features (number of micro vessel, mean diameter of micro vessel and volume fraction measurement of vessel). This study indicates that endometrial vascularity assessed by 3D-PD could not be used to reflect changes in micro vessels of the endometrium at the time of embryo implantation in women with unexplained recurrent miscarriage.

TargetCrys: protein crystallization prediction by fusing multi-view features with two-layered SVM.

PubMed

Hu, Jun; Han, Ke; Li, Yang; Yang, Jing-Yu; Shen, Hong-Bin; Yu, Dong-Jun

2016-11-01

The accurate prediction of whether a protein will crystallize plays a crucial role in improving the success rate of protein crystallization projects. A common critical problem in the development of machine-learning-based protein crystallization predictors is how to effectively utilize protein features extracted from different views. In this study, we aimed to improve the efficiency of fusing multi-view protein features by proposing a new two-layered SVM (2L-SVM) which switches the feature-level fusion problem to a decision-level fusion problem: the SVMs in the 1st layer of the 2L-SVM are trained on each of the multi-view feature sets; then, the outputs of the 1st layer SVMs, which are the "intermediate" decisions made based on the respective feature sets, are further ensembled by a 2nd layer SVM. Based on the proposed 2L-SVM, we implemented a sequence-based protein crystallization predictor called TargetCrys. Experimental results on several benchmark datasets demonstrated the efficacy of the proposed 2L-SVM for fusing multi-view features. We also compared TargetCrys with existing sequence-based protein crystallization predictors and demonstrated that the proposed TargetCrys outperformed most of the existing predictors and is competitive with the state-of-the-art predictors. The TargetCrys webserver and datasets used in this study are freely available for academic use at: http://csbio.njust.edu.cn/bioinf/TargetCrys .

Multimodal biometric approach for cancelable face template generation

NASA Astrophysics Data System (ADS)

Paul, Padma Polash; Gavrilova, Marina

2012-06-01

Due to the rapid growth of biometric technology, template protection becomes crucial to secure integrity of the biometric security system and prevent unauthorized access. Cancelable biometrics is emerging as one of the best solutions to secure the biometric identification and verification system. We present a novel technique for robust cancelable template generation algorithm that takes advantage of the multimodal biometric using feature level fusion. Feature level fusion of different facial features is applied to generate the cancelable template. A proposed algorithm based on the multi-fold random projection and fuzzy communication scheme is used for this purpose. In cancelable template generation, one of the main difficulties is keeping interclass variance of the feature. We have found that interclass variations of the features that are lost during multi fold random projection can be recovered using fusion of different feature subsets and projecting in a new feature domain. Applying the multimodal technique in feature level, we enhance the interclass variability hence improving the performance of the system. We have tested the system for classifier fusion for different feature subset and different cancelable template fusion. Experiments have shown that cancelable template improves the performance of the biometric system compared with the original template.

Three new stingrays (Myliobatiformes: Dasyatidae) from the Indo-West Pacific.

PubMed

Last, Peter R; White, William T; Naylor, Gavin

2016-08-05

Three undescribed stingrays were discovered as part of a broader revision of the family Dasyatidae that formed part of the Chondrichthyan Tree of Life project. This research forms part of a sequence of papers on rays aimed at describing unnamed species for inclusion in a multi-authored guide to rays of the world. The first part of this series focused on a redefinition of genera of the family Dasyatidae. The new Indo-West Pacific taxa are represented by separate genera from three dasyatid subfamilies: Himantura australis sp. nov. (northern Australia and Papua New Guinea), Taeniura lessoni sp. nov. (Melanesia) and Telatrygon biasa sp. nov. (Indo-Malay Archipelago). Himantura australis sp. nov., which belongs to a complex of four closely related reticulate whiprays, differs subtly from its congeners in coloration, morphometrics and distribution. Taeniura lessoni sp. nov. is the second species in a genus containing the widely-distributed T. lymma, which is possibly the most abundant stingray in shallow coral-reef habitats of the Indo-Pacific, with the new species apparently restricted to Melanesia. Taeniura lessoni sp. nov. is distinguishable by the absence of a distinctive pair of vivid blue longitudinal stripes on the dorsolateral edges of the tail which is one of the most distinctive features of T. lymma. Telatrygon biasa sp. nov. belongs to a small, recently designated genus of stingrays represented by four species in the tropical Indo-West Pacific. Telatrygon biasa sp. nov. differs from these species in morphometrics. The new species differs markedly from T. zugei in its NADH2 sequence. Telatrygon crozieri is resurrected as a valid northern Indian Ocean representative of the T. zugei complex.

Morphometric analysis with open source software to explore shallow hydrogeological features in Senegal and Guinea

NASA Astrophysics Data System (ADS)

Fussi, Fabio; Di Leo, Margherita; Bonomi, Tullia; Di Mauro, Biagio; Fava, Francesco; Fumagalli, Letizia; Hamidou Kane, Cheikh; Faye, Gayane; Niang, Magatte; Wade, Souleye; Hamidou, Barry; Colombo, Roberto

2015-04-01

Water represents a vital resource for everyone on this Planet, but, for some populations, the access to potable water is not given for granted. Recently, the interest in low cost technical solutions to improve access to ground water in developing countries, especially for people located in remote areas, has increased. Manual drilling (techniques to drill boreholes for water using human or animal power) is well known and practiced for centuries in many countries and represents a valid alternative to increase water access. Lately, this practice has raised the attention of national governments and international organizations. This technique is applicable only where hydrogeological conditions are suitable, namely in presence of thick layers of unconsolidated sediments and a shallow water table Aim of this study is exploring the potential of morphometric analysis to improve the methodology to identify areas with suitable hydrogeological conditions for manual drilling, supporting the implementation of water supply programs that can have great impact on living condition of the population. The characteristics of shallow geological layers are strongly dependent from geomorphological processes and are usually reflected in the morphological characteristics of landforms. Under these hypotheses, we have been investigating the geo-statistical correlation between several morphometric variables and a set of hydrogeological variables used in the estimation of suitability for manual drilling: thickness of unconsolidated sediments, texture, hydraulic conductivity of shallow aquifer, depth of water table. The morphology of two study areas with different landscape characteristics in Guinea and Senegal has been investigated coupling the Free and Open Source Software GRASS GIS and R. Several morphometric parameters have been extracted from ASTER GDEM digital elevation model, and have been compared with a set of hydrogeological characteristics obtained from semi-automatic analysis of stratigraphic logs from water boreholes. We observed the relationships between the spatial distribution of hydrogeological features and the morphology, applying multivariate statistical analysis. The ultimate goal of this study is to infer hydrogeological information of shallow aquifers, exploiting morphometric parameters (together with other layers of information from existing thematic maps and remote sensing) and to reconstruct the geometry and the characteristic of shallow porous aquifer. This research is part of a larger project financed by NERC (National Environment Research Council, UK) in the framework of the program UPGRO (Unlocking the Potential of Groundwater for the Poors), with the collaboration of different partners from Italy, Senegal and Guinea

A semi-automatic method for analysis of landscape elements using Shuttle Radar Topography Mission and Landsat ETM+ data

NASA Astrophysics Data System (ADS)

Ehsani, Amir Houshang; Quiel, Friedrich

2009-02-01

In this paper, we demonstrate artificial neural networks—self-organizing map (SOM)—as a semi-automatic method for extraction and analysis of landscape elements in the man and biosphere reserve "Eastern Carpathians". The Shuttle Radar Topography Mission (SRTM) collected data to produce generally available digital elevation models (DEM). Together with Landsat Thematic Mapper data, this provides a unique, consistent and nearly worldwide data set. To integrate the DEM with Landsat data, it was re-projected from geographic coordinates to UTM with 28.5 m spatial resolution using cubic convolution interpolation. To provide quantitative morphometric parameters, first-order (slope) and second-order derivatives of the DEM—minimum curvature, maximum curvature and cross-sectional curvature—were calculated by fitting a bivariate quadratic surface with a window size of 9×9 pixels. These surface curvatures are strongly related to landform features and geomorphological processes. Four morphometric parameters and seven Landsat-enhanced thematic mapper (ETM+) bands were used as input for the SOM algorithm. Once the network weights have been randomly initialized, different learning parameter sets, e.g. initial radius, final radius and number of iterations, were investigated. An optimal SOM with 20 classes using 1000 iterations and a final neighborhood radius of 0.05 provided a low average quantization error of 0.3394 and was used for further analysis. The effect of randomization of initial weights for optimal SOM was also studied. Feature space analysis, three-dimensional inspection and auxiliary data facilitated the assignment of semantic meaning to the output classes in terms of landform, based on morphometric analysis, and land use, based on spectral properties. Results were displayed as thematic map of landscape elements according to form, cover and slope. Spectral and morphometric signature analysis with corresponding zoom samples superimposed by contour lines were compared in detail to clarify the role of morphometric parameters to separate landscape elements. The results revealed the efficiency of SOM to integrate SRTM and Landsat data in landscape analysis. Despite the stochastic nature of SOM, the results in this particular study are not sensitive to randomization of initial weight vectors if many iterations are used. This procedure is reproducible for the same application with consistent results.

Automated Morphological and Morphometric Analysis of Mass Spectrometry Imaging Data: Application to Biomarker Discovery

NASA Astrophysics Data System (ADS)

Picard de Muller, Gaël; Ait-Belkacem, Rima; Bonnel, David; Longuespée, Rémi; Stauber, Jonathan

2017-12-01

Mass spectrometry imaging datasets are mostly analyzed in terms of average intensity in regions of interest. However, biological tissues have different morphologies with several sizes, shapes, and structures. The important biological information, contained in this highly heterogeneous cellular organization, could be hidden by analyzing the average intensities. Finding an analytical process of morphology would help to find such information, describe tissue model, and support identification of biomarkers. This study describes an informatics approach for the extraction and identification of mass spectrometry image features and its application to sample analysis and modeling. For the proof of concept, two different tissue types (healthy kidney and CT-26 xenograft tumor tissues) were imaged and analyzed. A mouse kidney model and tumor model were generated using morphometric - number of objects and total surface - information. The morphometric information was used to identify m/z that have a heterogeneous distribution. It seems to be a worthwhile pursuit as clonal heterogeneity in a tumor is of clinical relevance. This study provides a new approach to find biomarker or support tissue classification with more information. [Figure not available: see fulltext.

Phenotypes of intermediate forms of Fasciola hepatica and F. gigantica in buffaloes from Central Punjab, Pakistan.

PubMed

Afshan, K; Valero, M A; Qayyum, M; Peixoto, R V; Magraner, A; Mas-Coma, S

2014-12-01

Fascioliasis is an important food-borne parasitic disease caused by the two trematode species, Fasciola hepatica and Fasciola gigantica. The phenotypic features of fasciolid adults and eggs infecting buffaloes inhabiting the Central Punjab area, Pakistan, have been studied to characterize fasciolid populations involved. Morphometric analyses were made with a computer image analysis system (CIAS) applied on the basis of standardized measurements. Since it is the first study of this kind undertaken in Pakistan, the results are compared to pure fasciolid populations: (a) F. hepatica from the European Mediterranean area; and (b) F. gigantica from Burkina Faso; i.e. geographical areas where both species do not co-exist. Only parasites obtained from bovines were used. The multivariate analysis showed that the characteristics, including egg morphometrics, of fasciolids from Central Punjab, Pakistan, are between F. hepatica and F. gigantica standard populations. Similarly, the morphometric measurements of fasciolid eggs from Central Punjab are also between F. hepatica and F. gigantica standard populations. These results demonstrate the existence of fasciolid intermediate forms in endemic areas in Pakistan.

Aneurysms of the anterior and posterior cerebral circulation: comparison of the morphometric features.

PubMed

Tykocki, Tomasz; Kostkiewicz, Bogusław

2014-09-01

Intracranial aneurysms (IAs) located in the posterior circulation are considered to have higher annual bleed rates than those in the anterior circulation. The aim of the study was to compare the morphometric factors differentiating between IAs located in the anterior and posterior cerebral circulation. A total number of 254 IAs diagnosed between 2009 and 2012 were retrospectively analyzed. All patients qualified for diagnostic, three-dimensional rotational angiography. IAs were assigned to either the anterior or posterior cerebral circulation subsets for the analysis. Means were compared with a t-test. The univariate and stepwise logistic regression analyses were used to determine the predictors of morphometric differences between the groups. For the defined predictors, ROC (receiver-operating characteristic) curves and interactive dot diagrams were calculated with the cutoff values of the morphometric factors. The number of anterior cerebral circulation IAs was 179 (70.5 %); 141 (55.5 %) aneurysms were ruptured. Significant differences between anterior and posterior circulation IAs were found for: the parent artery size (5.08 ± 1.8 mm vs. 3.95 ± 1.5 mm; p < 0.05), size ratio (2.22 ± 0.9 vs. 3.19 ± 1.8; p < 0.045) and aspect ratio (AR) (1.91 ± 0.8 vs. 2.75 ± 1.8; p = 0.02). Predicting factors differentiating anterior and posterior circulation IAs were: the AR (OR = 2.20; 95 % CI 1.80-270; Is 270 correct or should it be 2.70 and parent artery size (OR = 0.44; 95 % CI 0.38-0.54). The cutoff point in the ROC curve was 2.185 for the AR and 4.89 mm for parent artery size. Aspect ratio and parent artery size were found to be predictive morphometric factors in differentiating between anterior and posterior cerebral IAs.

An Adaptive Multi-Sensor Data Fusion Method Based on Deep Convolutional Neural Networks for Fault Diagnosis of Planetary Gearbox

PubMed Central

Jing, Luyang; Wang, Taiyong; Zhao, Ming; Wang, Peng

2017-01-01

A fault diagnosis approach based on multi-sensor data fusion is a promising tool to deal with complicated damage detection problems of mechanical systems. Nevertheless, this approach suffers from two challenges, which are (1) the feature extraction from various types of sensory data and (2) the selection of a suitable fusion level. It is usually difficult to choose an optimal feature or fusion level for a specific fault diagnosis task, and extensive domain expertise and human labor are also highly required during these selections. To address these two challenges, we propose an adaptive multi-sensor data fusion method based on deep convolutional neural networks (DCNN) for fault diagnosis. The proposed method can learn features from raw data and optimize a combination of different fusion levels adaptively to satisfy the requirements of any fault diagnosis task. The proposed method is tested through a planetary gearbox test rig. Handcraft features, manual-selected fusion levels, single sensory data, and two traditional intelligent models, back-propagation neural networks (BPNN) and a support vector machine (SVM), are used as comparisons in the experiment. The results demonstrate that the proposed method is able to detect the conditions of the planetary gearbox effectively with the best diagnosis accuracy among all comparative methods in the experiment. PMID:28230767

The potential of statistical shape modelling for geometric morphometric analysis of human teeth in archaeological research

PubMed Central

Fernee, Christianne; Browne, Martin; Zakrzewski, Sonia

2017-01-01

This paper introduces statistical shape modelling (SSM) for use in osteoarchaeology research. SSM is a full field, multi-material analytical technique, and is presented as a supplementary geometric morphometric (GM) tool. Lower mandibular canines from two archaeological populations and one modern population were sampled, digitised using micro-CT, aligned, registered to a baseline and statistically modelled using principal component analysis (PCA). Sample material properties were incorporated as a binary enamel/dentin parameter. Results were assessed qualitatively and quantitatively using anatomical landmarks. Finally, the technique’s application was demonstrated for inter-sample comparison through analysis of the principal component (PC) weights. It was found that SSM could provide high detail qualitative and quantitative insight with respect to archaeological inter- and intra-sample variability. This technique has value for archaeological, biomechanical and forensic applications including identification, finite element analysis (FEA) and reconstruction from partial datasets. PMID:29216199

A new multi-spectral feature level image fusion method for human interpretation

NASA Astrophysics Data System (ADS)

Leviner, Marom; Maltz, Masha

2009-03-01

Various different methods to perform multi-spectral image fusion have been suggested, mostly on the pixel level. However, the jury is still out on the benefits of a fused image compared to its source images. We present here a new multi-spectral image fusion method, multi-spectral segmentation fusion (MSSF), which uses a feature level processing paradigm. To test our method, we compared human observer performance in a three-task experiment using MSSF against two established methods: averaging and principle components analysis (PCA), and against its two source bands, visible and infrared. The three tasks that we studied were: (1) simple target detection, (2) spatial orientation, and (3) camouflaged target detection. MSSF proved superior to the other fusion methods in all three tests; MSSF also outperformed the source images in the spatial orientation and camouflaged target detection tasks. Based on these findings, current speculation about the circumstances in which multi-spectral image fusion in general and specific fusion methods in particular would be superior to using the original image sources can be further addressed.

Medical image classification based on multi-scale non-negative sparse coding.

PubMed

Zhang, Ruijie; Shen, Jian; Wei, Fushan; Li, Xiong; Sangaiah, Arun Kumar

2017-11-01

With the rapid development of modern medical imaging technology, medical image classification has become more and more important in medical diagnosis and clinical practice. Conventional medical image classification algorithms usually neglect the semantic gap problem between low-level features and high-level image semantic, which will largely degrade the classification performance. To solve this problem, we propose a multi-scale non-negative sparse coding based medical image classification algorithm. Firstly, Medical images are decomposed into multiple scale layers, thus diverse visual details can be extracted from different scale layers. Secondly, for each scale layer, the non-negative sparse coding model with fisher discriminative analysis is constructed to obtain the discriminative sparse representation of medical images. Then, the obtained multi-scale non-negative sparse coding features are combined to form a multi-scale feature histogram as the final representation for a medical image. Finally, SVM classifier is combined to conduct medical image classification. The experimental results demonstrate that our proposed algorithm can effectively utilize multi-scale and contextual spatial information of medical images, reduce the semantic gap in a large degree and improve medical image classification performance. Copyright © 2017 Elsevier B.V. All rights reserved.

Morphometric Analysis to Prioritize Sub-Watershed for Flood Risk Assessment in Central Karakoram National Park Using Gis/rs Approach

NASA Astrophysics Data System (ADS)

Syed, N. H.; Rehman, A. A.; Hussain, D.; Ishaq, S.; Khan, A. A.

2017-11-01

Morphometric analysis is vital for any watershed investigation and it is inevitable for flood risk assessment in sub-watershed basins. Present study undertaken to carry out critical evaluation and assessment of sub watershed morphological parameters for flood risk assessment of Central Karakorum National Park (CKNP), where Geographical information system and remote sensing (GIS & RS) approach used for quantifying the parameter and mapping of sub watershed units. ASTER DEM used as a geo-spatial data for watershed delineation and stream network. Morphometric analysis carried out using spatial analyst tool of ArcGIS 10.2. The parameters included were bifurcation ratio (Rb), Drainage Texture (Rt), Circulatory ratio (Rc), Elongated ratio (Re), Drainage density (Dd), Stream Length (Lu), Stream order (Su), Slope and Basin length (Lb) have calculated separately. The analysis revealed that the stream order varies from order 1 to 6 and the total numbers of stream segments of all orders were 52. Multi criteria analysis process used to calculate the risk factor. As an accomplished result, map of sub watershed prioritization developed using weighted standardized risk factor. These results helped to understand sensitivity of flush floods in different sub watersheds of the study area and leaded to better management of the mountainous regions in prospect of flush floods.

Genetic and morphological data supporting the hypothesis of adaptive radiation in the endemic fish of Lake Matano.

PubMed

Roy, D; Docker, M F; Hehanussa, P; Heath, D D; Haffner, G D

2004-11-01

Adaptive radiation resulting from differential selection acting on functional features is believed to be an important source of biodiversity. In this study, morphometric measures and mitochondrial DNA are used to test for adaptive radiation within four fish genera (Glossogobius, Oryzias, Dermogenys and Telmatherina) endemic to an ancient island lake (Lake Matano, Sulawesi, Indonesia), using the framework proposed by Schluter (The Ecology of Adaptive Radiation, Oxford University Press, 2000). We demonstrate common ancestry and rapid divergence in one genus (Telmatherina) based on 560 bp of 16S sequence data. We found higher levels of variation in feeding-related traits (N = 8) for Telmatherina relative to the other genera, while no differences were found for sexual display traits (N = 8) or neutral morphological traits (N = 8). Telmatherina also had the highest number of distinct colouration patterns among the four genera. These data, combined with the very low productivity of the lake, are indicative of selection driving adaptive radiation. The morphometric divergence in the Telmatherina likely results from selection acting on feeding traits in this low productivity lake, leading to trophic specialization among closely related morphotypes. These results provide indirect but compelling data supporting the adaptive radiation of Telmatherina in this system.

Molecular characterization and species delimiting of plant-parasitic nematodes of the genus Pratylenchus from the penetrans group (Nematoda: Pratylenchidae).

PubMed

Janssen, Toon; Karssen, Gerrit; Orlando, Valeria; Subbotin, Sergei A; Bert, Wim

2017-12-01

Root-lesion nematodes of the genus Pratylenchus are an important pest parasitizing a wide range of vascular plants including several economically important crops. However, morphological diagnosis of the more than 100 species is problematic due to the low number of diagnostic features, high morphological plasticity and incomplete taxonomic descriptions. In order to employ barcoding based diagnostics, a link between morphology and species specific sequences has to be established. In this study, we reconstructed a multi-gene phylogeny of the Penetrans group using nuclear ribosomal and mitochondrial gene sequences. A combination of this phylogenetic framework with molecular species delineation analysis, population genetics, morphometric information and sequences from type location material allowed us to establish the species boundaries within the Penetrans group and as such clarify long-standing controversies about the taxonomic status of P. penetrans, P. fallax and P. convallariae. Our study also reveals a remarkable amount of cryptic biodiversity within the genus Pratylenchus confirming that identification on morphology alone can be inconclusive in this taxonomically confusing genus. Copyright © 2017 Elsevier Inc. All rights reserved.

Clinical, morphologic, and morphometric features of cranial thoracic spinal stenosis in large and giant breed dogs.

PubMed

Johnson, Philippa; De Risio, Luisa; Sparkes, Andrew; McConnell, Fraser; Holloway, Andrew

2012-01-01

The clinical, morphologic, and morphometric features of cranial thoracic spinal stenosis were investigated in large and giant breed dogs. Seventy-nine magnetic resonance imaging studies of the cranial thoracic spine were assessed. Twenty-six were retrieved retrospectively and 53 were acquired prospectively using the same inclusion criteria. Images were evaluated using a modified compression scale as: no osseous stenosis (grade 0), osseous stenosis without spinal cord compression (grade 1), and osseous stenosis with spinal cord compression (grade 2). Morphometric analysis was performed and compared to the subjective grading system. Grades 1 and 2 cranial thoracic spinal stenosis were identified on 24 imaging studies in 23 dogs. Sixteen of 23 dogs had a conformation typified by Molosser breeds and 21/23 were male. The most common sites of stenosis were T2-3 and T3-4. The articular process joints were enlarged with abnormal oblique orientation. Stenosis was dorsolateral, lateralized, or dorsoventral. Concurrent osseous cervical spondylomyelopathy was recognized in six dogs and other neurologic disease in five dogs. Cranial thoracic spinal stenosis was the only finding in 12 dogs. In 9 of these 12 dogs (all grade 2) neurolocalization was to the T3-L3 spinal segment. The median age of these dogs was 9.5 months. In the remaining three dogs neurologic signs were not present. Stenosis ratios were of limited benefit in detecting stenotic sites. Grade 2 cranial thoracic spinal stenosis causing direct spinal cord compression may lead to neurologic signs, however milder stenosis (grade 1) is likely to be subclinical or incidental. © 2012 Veterinary Radiology & Ultrasound.

Learning discriminative functional network features of schizophrenia

NASA Astrophysics Data System (ADS)

Gheiratmand, Mina; Rish, Irina; Cecchi, Guillermo; Brown, Matthew; Greiner, Russell; Bashivan, Pouya; Polosecki, Pablo; Dursun, Serdar

2017-03-01

Associating schizophrenia with disrupted functional connectivity is a central idea in schizophrenia research. However, identifying neuroimaging-based features that can serve as reliable "statistical biomarkers" of the disease remains a challenging open problem. We argue that generalization accuracy and stability of candidate features ("biomarkers") must be used as additional criteria on top of standard significance tests in order to discover more robust biomarkers. Generalization accuracy refers to the utility of biomarkers for making predictions about individuals, for example discriminating between patients and controls, in novel datasets. Feature stability refers to the reproducibility of the candidate features across different datasets. Here, we extracted functional connectivity network features from fMRI data at both high-resolution (voxel-level) and a spatially down-sampled lower-resolution ("supervoxel" level). At the supervoxel level, we used whole-brain network links, while at the voxel level, due to the intractably large number of features, we sampled a subset of them. We compared statistical significance, stability and discriminative utility of both feature types in a multi-site fMRI dataset, composed of schizophrenia patients and healthy controls. For both feature types, a considerable fraction of features showed significant differences between the two groups. Also, both feature types were similarly stable across multiple data subsets. However, the whole-brain supervoxel functional connectivity features showed a higher cross-validation classification accuracy of 78.7% vs. 72.4% for the voxel-level features. Cross-site variability and heterogeneity in the patient samples in the multi-site FBIRN dataset made the task more challenging compared to single-site studies. The use of the above methodology in combination with the fully data-driven approach using the whole brain information have the potential to shed light on "biomarker discovery" in schizophrenia.

Sequence-based genotyping clarifies conflicting historical morphometric and biological data for 5 Eimeria species infecting turkeys.

PubMed

El-Sherry, S; Ogedengbe, M E; Hafeez, M A; Sayf-Al-Din, M; Gad, N; Barta, J R

2015-02-01

Unlike with Eimeria species infecting chickens, specific identification and nomenclature of Eimeria species infecting turkeys is complicated, and in the absence of molecular data, imprecise. In an attempt to reconcile contradictory data reported on oocyst morphometrics and biological descriptions of various Eimeria species infecting turkey, we established single oocyst derived lines of 5 important Eimeria species infecting turkeys, Eimeria meleagrimitis (USMN08-01 strain), Eimeria adenoeides (Guelph strain), Eimeria gallopavonis (Weybridge strain), Eimeria meleagridis (USAR97-01 strain), and Eimeria dispersa (Briston strain). Short portions (514 bp) of mitochondrial cytochrome c oxidase subunit I gene (mt COI) from each were amplified and sequenced. Comparison of these sequences showed sufficient species-specific sequence variation to recommend these short mt COI sequences as species-specific markers. Uniformity of oocyst features (dimensions and oocyst structure) of each pure line was observed. Additional morphological features of the oocysts of these species are described as useful for the microscopic differentiation of these Eimeria species. Combined molecular and morphometric data on these single species lines compared with the original species descriptions and more recent data have helped to clarify some confusing, and sometimes conflicting, features associated with these Eimeria spp. For example, these new data suggest that the KCH and KR strains of E. adenoeides reported previously represent 2 distinct species, E. adenoeides and E. meleagridis, respectively. Likewise, analysis of the Weybridge strain of E. adenoeides, which has long been used as a reference strain in various studies conducted on the pathogenicity of E. adenoeides, indicates that this coccidium is actually a strain of E. gallopavonis. We highly recommend mt COI sequence-based genotyping be incorporated into all studies using Eimeria spp. of turkeys to confirm species identifications and so that any resulting data can be associated correctly with a single named Eimeria species. © 2015 Poultry Science Association Inc.

Classification of grass pollen through the quantitative analysis of surface ornamentation and texture.

PubMed

Mander, Luke; Li, Mao; Mio, Washington; Fowlkes, Charless C; Punyasena, Surangi W

2013-11-07

Taxonomic identification of pollen and spores uses inherently qualitative descriptions of morphology. Consequently, identifications are restricted to categories that can be reliably classified by multiple analysts, resulting in the coarse taxonomic resolution of the pollen and spore record. Grass pollen represents an archetypal example; it is not routinely identified below family level. To address this issue, we developed quantitative morphometric methods to characterize surface ornamentation and classify grass pollen grains. This produces a means of quantifying morphological features that are traditionally described qualitatively. We used scanning electron microscopy to image 240 specimens of pollen from 12 species within the grass family (Poaceae). We classified these species by developing algorithmic features that quantify the size and density of sculptural elements on the pollen surface, and measure the complexity of the ornamentation they form. These features yielded a classification accuracy of 77.5%. In comparison, a texture descriptor based on modelling the statistical distribution of brightness values in image patches yielded a classification accuracy of 85.8%, and seven human subjects achieved accuracies between 68.33 and 81.67%. The algorithmic features we developed directly relate to biologically meaningful features of grass pollen morphology, and could facilitate direct interpretation of unsupervised classification results from fossil material.

Closed depressions in the European loess belt - Natural or anthropogenic origin?

NASA Astrophysics Data System (ADS)

Kołodyńska-Gawrysiak, Renata; Poesen, Jean

2017-07-01

Closed depressions (CDs) are typical geomorphological features of the loess belt in Europe. CDs have been reported in several regions of the European loess belt, where they are described as hollows, mardeles, wymoki, crovuri, bludtsa and zapadiny. The natural and anthropogenic origins of CDs are debated in literature. Moreover, no comprehensive review of the geomorphic properties or the evolution of these depressions exists. Therefore this paper reviews the characteristics of CDs in the European loess belt and attempts to better understand their genesis based on detailed case studies. The main morphometric features as well as sediment deposits within CDs in several sub-regions of Europe were analysed and compared. Morphometric properties of CDs from the West European and East European loess belt were investigated through a comparison of CDs from two representative regions, i.e. East Poland and Central Belgium. In both study areas, CDs under cropland are similar. However, a comparison of morphological features of CDs under forest, revealed clear differences, suggesting a different origin of CDs from both regions. Infilled sediments in CDs show various litho-genetical features in different regions of the European loess belt. The morphometric features, ages and stratigraphy of infillings clearly indicate that both anthropogenic and natural processes have shaped these landforms within the loess belt of Europe. CDs observed in Eastern Europe may have a very different origin than those documented in Western Europe. Detailed analysis of CDs in Poland and in neighbouring regions of East Europe, suggest that CDs are natural landforms: thermokarst, deflation and dissolution of loess are reported as probable genetic processes. In contrast, several studies in Western Europe indicate a dominant anthropogenic origin (i.e. digging of calcareous loess or marls, bomb and mining craters, collapse of underground limestone quarries), although CDs formed by natural processes (i.e. piping, dissolution of limestone and salt lenses below the loess cover) are reported as well. CDs act as important archives, allowing one to reconstruct both natural and anthropogenic processes operating in the past. As CDs store most sediments eroded within their catchment they provide ideal sediment traps to assess long-term erosion rates in these environments which have hitherto been under-researched. More research is needed to unravel the genesis and evolution of these depressions to better understand the importance of the Late Glacial and Holocene stages for the morphogenesis of the loess belt in Europe.

The massive fossil humerus from the Oldowan horizon of Gombore I, Melka Kunture (Ethiopia, >1.39 Ma)

NASA Astrophysics Data System (ADS)

Di Vincenzo, Fabio; Rodriguez, Laura; Carretero, José Miguel; Collina, Carmine; Geraads, Denis; Piperno, Marcello; Manzi, Giorgio

2015-08-01

A well-preserved distal portion of a left humerus was discovered in 1976 during excavations directed by J. Chavaillon at the Gombore I site, in the Melka Kunture area (Ethiopia). The specimen, labelled Gombore IB-7594 (formally Melka Kunture 3, or MK3), was found in situ within unit 2 of level B, which is dated to >1.39 Ma and includes a rich Oldowan Paleolithic assemblage. Although MK3 has never been described in detail, it appeared in the literature several times and, from a taxonomic point of view, has been alternatively regarded as Homo, Australopithecus or Paranthropus. According to our analysis, MK3 exhibits a suite of features that fit the variability of the genus Homo and does not display any clear Australopithecus/Paranthropus affinity. Nevertheless, MK3 adds a great deal of variability to the genus Homo, at least as far as the Early Pleistocene fossil record is concerned. In particular, our quantitative approach, which combines traditional morphometric analyses and geometric morphometrics, highlights traits that are uncommon among the Plio-Pleistocene fossil record, while affinities with Mid-to-Late Pleistocene representatives of Homo are observed. In addition, the large size of MK3 suggests that this humerus belonged to an individual whose body weight approached 90 kg, far from the range of body size known for Homo representatives in the Early Pleistocene and as big as those of extant humans or even gorillas. We suggest that such peculiar features are of interest when regarded from an ecological perspective; thus, dimension and morphology of MK3 may be considered as an exaptation that became useful when early humans dispersed to high altitudes such as those of the upper Awash basin on the Ethiopian plateau, at heights above 2000 m.

A Multi-Modal Face Recognition Method Using Complete Local Derivative Patterns and Depth Maps

PubMed Central

Yin, Shouyi; Dai, Xu; Ouyang, Peng; Liu, Leibo; Wei, Shaojun

2014-01-01

In this paper, we propose a multi-modal 2D + 3D face recognition method for a smart city application based on a Wireless Sensor Network (WSN) and various kinds of sensors. Depth maps are exploited for the 3D face representation. As for feature extraction, we propose a new feature called Complete Local Derivative Pattern (CLDP). It adopts the idea of layering and has four layers. In the whole system, we apply CLDP separately on Gabor features extracted from a 2D image and depth map. Then, we obtain two features: CLDP-Gabor and CLDP-Depth. The two features weighted by the corresponding coefficients are combined together in the decision level to compute the total classification distance. At last, the probe face is assigned the identity with the smallest classification distance. Extensive experiments are conducted on three different databases. The results demonstrate the robustness and superiority of the new approach. The experimental results also prove that the proposed multi-modal 2D + 3D method is superior to other multi-modal ones and CLDP performs better than other Local Binary Pattern (LBP) based features. PMID:25333290

Protective Effects of Trehalose on the Corneal Epithelial Cells

PubMed Central

Aragona, Pasquale; Colosi, Pietro; Colosi, Francesca; Pisani, Antonina; Puzzolo, Domenico; Micali, Antonio

2014-01-01

Purpose. Aim of the present work was to evaluate the effects of the trehalose on the corneal epithelium undergoing alcohol delamination. Methods. Twelve patients undergoing laser subepithelial keratomileusis (LASEK) were consecutively included in the study. The right eyes were pretreated with 3% trehalose eye drops, whilst left eyes were used as control. Epithelial specimens were processed for cells vitality assessment, apoptosis, and light and transmission electron microscopy; a morphometric analysis was performed in both groups. Results. In both trehalose-untreated eyes (TUE) and trehalose-treated eyes (TTE), the percentage of vital cells was similar and no apoptotic cells were observed. In TUE, the corneal epithelium showed superficial cells with reduced microfolds, wing cells with vesicles and dilated intercellular spaces, and dark basal cells with vesicles and wide clefts. In TTE, superficial and wing cells were better preserved, and basal cells were generally clear with intracytoplasmatic vesicles. The morphometric analysis showed statistically significant differences between the two groups: the TTE epithelial height was higher, the basal cells showed larger area and clearer cytoplasm. The distribution of desmosomes and hemidesmosomes was significantly different between the groups. Conclusions. Trehalose administration better preserved morphological and morphometric features of alcohol-treated corneal epithelium, when compared to controls. PMID:25045743

Protective effects of trehalose on the corneal epithelial cells.

PubMed

Aragona, Pasquale; Colosi, Pietro; Rania, Laura; Colosi, Francesca; Pisani, Antonina; Puzzolo, Domenico; Micali, Antonio

2014-01-01

Aim of the present work was to evaluate the effects of the trehalose on the corneal epithelium undergoing alcohol delamination. Twelve patients undergoing laser subepithelial keratomileusis (LASEK) were consecutively included in the study. The right eyes were pretreated with 3% trehalose eye drops, whilst left eyes were used as control. Epithelial specimens were processed for cells vitality assessment, apoptosis, and light and transmission electron microscopy; a morphometric analysis was performed in both groups. In both trehalose-untreated eyes (TUE) and trehalose-treated eyes (TTE), the percentage of vital cells was similar and no apoptotic cells were observed. In TUE, the corneal epithelium showed superficial cells with reduced microfolds, wing cells with vesicles and dilated intercellular spaces, and dark basal cells with vesicles and wide clefts. In TTE, superficial and wing cells were better preserved, and basal cells were generally clear with intracytoplasmatic vesicles. The morphometric analysis showed statistically significant differences between the two groups: the TTE epithelial height was higher, the basal cells showed larger area and clearer cytoplasm. The distribution of desmosomes and hemidesmosomes was significantly different between the groups. Trehalose administration better preserved morphological and morphometric features of alcohol-treated corneal epithelium, when compared to controls.

A Descriptive Study of Multi-Age Art Education in Florida

ERIC Educational Resources Information Center

Broome, Jeffrey L.

2009-01-01

Multi-age classrooms feature the purposeful grouping of students from two or more grade levels in order to form communities of learners. During the past 40 years, multi-age education has been examined in literature and research in many different ways and contexts. In the subject area of visual art, however, little literature can be found that…

The Art Teacher and Multi-Age Homeroom Teachers: Qualitative Observations and Comparisons

ERIC Educational Resources Information Center

Broome, Jeffrey L.

2016-01-01

Multi-age classrooms feature the intentional grouping of students from consecutive grade levels for the purpose of fostering a nurturing classroom atmosphere. While an abundance of research on multi-age education has been produced throughout the past 50 years, only recent efforts have seen researchers turn their attention to the experiences of art…

Application of Basin Morphometry Laws in catchments of the south-western quadrangle of south-eastern Nigeria

NASA Astrophysics Data System (ADS)

Aisuebeogun, A. O.; Ezekwe, I. C.

2013-09-01

The relationship between process and form has been at the core of research in fluvial geomorphology. Form-process relationships of a natural river basin are strongly influenced by its hydrologic and sedimentologic processes as basin morphometric properties of length, shape, and relief, change in response to various hydrologic stimuli from the environment, but usually in line with well established laws. In the four river basins (Orashi, Otamiri, Sombreiro, New Calabar) examined in this study, however, empirical evidence does not conform neatly with theoretical postulates. Remarkable variations are noted in the morphometric properties of the catchments, when compared with established morphometric laws. The most varied in conformity are the Orashi and New Calabar basins, although the Sombreiro and Otamiri catchments also show some level of variation. Prime explanation for the morphometric and topographic non-conformity is caused by the nature of surficial material and the profoundly shallow relief of much of the study area, especially the alluvial flood and deltaic plains to the south and south-west of the study area.

Subtle changes in myelination due to childhood experiences: label-free microscopy to infer nerve fibers morphology and myelination in brain (Conference Presentation)

NASA Astrophysics Data System (ADS)

Gasecka, Alicja; Tanti, Arnaud; Lutz, Pierre-Eric; Mechawar, Naguib; Cote, Daniel C.

2017-02-01

Adverse childhood experiences have lasting detrimental effects on mental health and are strongly associated with impaired cognition and increased risk of developing psychopathologies. Preclinical and neuroimaging studies have suggested that traumatic events during brain development can affect cerebral myelination particularly in areas and tracts implicated in mood and emotion. Although current neuroimaging techniques are quite powerful, they lack the resolution to infer myelin integrity at the cellular level. Recently demonstrated coherent Raman microscopy has accomplished cellular level imaging of myelin sheaths in the nervous system. However, a quantitative morphometric analysis of nerve fibers still remains a challenge. In particular, in brain, where fibres exhibit small diameters and varying local orientation. In this work, we developed an automated myelin identification and analysis method that is capable of providing a complete picture of axonal myelination and morphology in brain samples. This method performs three main procedures 1) detects molecular anisotropy of membrane phospholipids based on polarization resolved coherent Raman microscopy, 2) identifies regions of different molecular organization, 3) calculates morphometric features of myelinated axons (e.g. myelin thickness, g-ratio). We applied this method to monitor white matter areas from suicides adults that suffered from early live adversity and depression compared to depressed suicides adults and psychiatrically healthy controls. We demonstrate that our method allows for the rapid acquisition and automated analysis of neuronal networks morphology and myelination. This is especially useful for clinical and comparative studies, and may greatly enhance the understanding of processes underlying the neurobiological and psychopathological consequences of child abuse.

Quantitative Image Informatics for Cancer Research (QIICR) | Informatics Technology for Cancer Research (ITCR)

Cancer.gov

Imaging has enormous untapped potential to improve cancer research through software to extract and process morphometric and functional biomarkers. In the era of non-cytotoxic treatment agents, multi- modality image-guided ablative therapies and rapidly evolving computational resources, quantitative imaging software can be transformative in enabling minimally invasive, objective and reproducible evaluation of cancer treatment response. Post-processing algorithms are integral to high-throughput analysis and fine- grained differentiation of multiple molecular targets.

Scaling laws for coastal overwash morphology

NASA Astrophysics Data System (ADS)

Lazarus, Eli D.

2016-12-01

Overwash is a physical process of coastal sediment transport driven by storm events and is essential to landscape resilience in low-lying barrier environments. This work establishes a comprehensive set of scaling laws for overwash morphology: unifying quantitative descriptions with which to compare overwash features by their morphological attributes across case examples. Such scaling laws also help relate overwash features to other morphodynamic phenomena. Here morphometric data from a physical experiment are compared with data from natural examples of overwash features. The resulting scaling relationships indicate scale invariance spanning several orders of magnitude. Furthermore, these new relationships for overwash morphology align with classic scaling laws for fluvial drainages and alluvial fans.

Multi-level gene/MiRNA feature selection using deep belief nets and active learning.

PubMed

Ibrahim, Rania; Yousri, Noha A; Ismail, Mohamed A; El-Makky, Nagwa M

2014-01-01

Selecting the most discriminative genes/miRNAs has been raised as an important task in bioinformatics to enhance disease classifiers and to mitigate the dimensionality curse problem. Original feature selection methods choose genes/miRNAs based on their individual features regardless of how they perform together. Considering group features instead of individual ones provides a better view for selecting the most informative genes/miRNAs. Recently, deep learning has proven its ability in representing the data in multiple levels of abstraction, allowing for better discrimination between different classes. However, the idea of using deep learning for feature selection is not widely used in the bioinformatics field yet. In this paper, a novel multi-level feature selection approach named MLFS is proposed for selecting genes/miRNAs based on expression profiles. The approach is based on both deep and active learning. Moreover, an extension to use the technique for miRNAs is presented by considering the biological relation between miRNAs and genes. Experimental results show that the approach was able to outperform classical feature selection methods in hepatocellular carcinoma (HCC) by 9%, lung cancer by 6% and breast cancer by around 10% in F1-measure. Results also show the enhancement in F1-measure of our approach over recently related work in [1] and [2].

Heterogeneous variances in multi-environment yield trials for corn hybrids

USDA-ARS?s Scientific Manuscript database

Recent developments in statistics and computing have enabled much greater levels of complexity in statistical models of multi-environment yield trial data. One particular feature of interest to breeders is simultaneously modeling heterogeneity of variances among environments and cultivars. Our obj...

A ℓ2, 1 norm regularized multi-kernel learning for false positive reduction in Lung nodule CAD.

PubMed

Cao, Peng; Liu, Xiaoli; Zhang, Jian; Li, Wei; Zhao, Dazhe; Huang, Min; Zaiane, Osmar

2017-03-01

The aim of this paper is to describe a novel algorithm for False Positive Reduction in lung nodule Computer Aided Detection(CAD). In this paper, we describes a new CT lung CAD method which aims to detect solid nodules. Specially, we proposed a multi-kernel classifier with a ℓ 2, 1 norm regularizer for heterogeneous feature fusion and selection from the feature subset level, and designed two efficient strategies to optimize the parameters of kernel weights in non-smooth ℓ 2, 1 regularized multiple kernel learning algorithm. The first optimization algorithm adapts a proximal gradient method for solving the ℓ 2, 1 norm of kernel weights, and use an accelerated method based on FISTA; the second one employs an iterative scheme based on an approximate gradient descent method. The results demonstrates that the FISTA-style accelerated proximal descent method is efficient for the ℓ 2, 1 norm formulation of multiple kernel learning with the theoretical guarantee of the convergence rate. Moreover, the experimental results demonstrate the effectiveness of the proposed methods in terms of Geometric mean (G-mean) and Area under the ROC curve (AUC), and significantly outperforms the competing methods. The proposed approach exhibits some remarkable advantages both in heterogeneous feature subsets fusion and classification phases. Compared with the fusion strategies of feature-level and decision level, the proposed ℓ 2, 1 norm multi-kernel learning algorithm is able to accurately fuse the complementary and heterogeneous feature sets, and automatically prune the irrelevant and redundant feature subsets to form a more discriminative feature set, leading a promising classification performance. Moreover, the proposed algorithm consistently outperforms the comparable classification approaches in the literature. Copyright © 2016 Elsevier Ireland Ltd. All rights reserved.

Recommendations for level-determined sampling in wells

NASA Astrophysics Data System (ADS)

Lerner, David N.; Teutsch, Georg

1995-10-01

Level-determined samples of groundwater are increasingly important for hydrogeological studies. The techniques for collecting them range from the use of purpose drilled wells, sometimes with sophisticated dedicated multi-level samplers in them, to a variety of methods used in open wells. Open, often existing, wells are frequently used on cost grounds, but there are risks of obtaining poor and unrepresentative samples. Alternative approaches to level-determined sampling incorporate seven concepts: depth sampling; packer systems; individual wells; dedicated multi-level systems; separation pumping; baffle systems; multi-port sock samplers. These are outlined and evaluated in terms of the environment to be sampled, and the features and performance of the methods. Recommendations are offered to match methods to sampling problems.

Morphological characters of the thickbody skate Amblyraja frerichsi (Krefft 1968) (Rajiformes: Rajidae), with notes on its biology.

PubMed

Bustamante, Carlos; Lamilla, Julio; Concha, Francisco; Ebert, David A; Bennett, Michael B

2012-01-01

Detailed descriptions of morphological features, morphometrics, neurocranium anatomy, clasper structure and egg case descriptions are provided for the thickbody skate Amblyraja frerichsi; a rare, deep-water species from Chile, Argentina and Falkland Islands. The species diagnosis is complemented from new observations and aspects such as colour, size and distribution are described. Geographic and bathymetric distributional ranges are discussed as relevant features of this taxońs biology. Additionally, the conservation status is assessed including bycatch records from Chilean fisheries.

Morphological Characters of the Thickbody Skate Amblyraja frerichsi (Krefft 1968) (Rajiformes: Rajidae), with Notes on Its Biology

PubMed Central

Bustamante, Carlos; Lamilla, Julio; Concha, Francisco; Ebert, David A.; Bennett, Michael B.

2012-01-01

Detailed descriptions of morphological features, morphometrics, neurocranium anatomy, clasper structure and egg case descriptions are provided for the thickbody skate Amblyraja frerichsi; a rare, deep-water species from Chile, Argentina and Falkland Islands. The species diagnosis is complemented from new observations and aspects such as colour, size and distribution are described. Geographic and bathymetric distributional ranges are discussed as relevant features of this taxońs biology. Additionally, the conservation status is assessed including bycatch records from Chilean fisheries. PMID:22768186

Interspecific variation in the tetradactyl manus of modern tapirs (Perissodactyla: Tapirus) exposed using geometric morphometrics.

PubMed

MacLaren, Jamie A; Nauwelaerts, Sandra

2017-11-01

The distal forelimb (autopodium) of quadrupedal mammals is a key morphological unit involved in locomotion, body support, and interaction with the substrate. The manus of the tapir (Perissodactyla: Tapirus) is unique within modern perissodactyls, as it retains the plesiomorphic tetradactyl (four-toed) condition also exhibited by basal equids and rhinoceroses. Tapirs are known to exhibit anatomical mesaxonic symmetry in the manus, although interspecific differences and biomechanical mesaxony have yet to be rigorously tested. Here, we investigate variation in the manus morphology of four modern tapir species (Tapirus indicus, Tapirus bairdii, Tapirus pinchaque, and Tapirus terrestris) using a geometric morphometric approach. Autopodial bones were laser scanned to capture surface shape and morphology was quantified using 3D-landmark analysis. Landmarks were aligned using Generalised Procrustes Analysis, with discriminant function and partial least square analyses performed on aligned coordinate data to identify features that significantly separate tapir species. Overall, our results support the previously held hypothesis that T. indicus is morphologically separate from neotropical tapirs; however, previous conclusions regarding function from morphological differences are shown to require reassessment. We find evidence indicating that T. bairdii exhibits reduced reliance on the lateral fifth digit compared to other tapirs. Morphometric assessment of the metacarpophalangeal joint and the morphology of the distal facets of the lunate lend evidence toward high loading on the lateral digits of both the large T. indicus (large body mass) and the small, long limbed T. pinchaque (ground impact). Our results support other recent studies on T. pinchaque, suggesting subtle but important adaptations to a compliant but inclined habitat. In conclusion, we demonstrate further evidence that the modern tapir forelimb is a variable locomotor unit with a range of interspecific features tailored to habitual and biomechanical needs of each species. © 2017 Wiley Periodicals, Inc.

Adult Neandertal clavicles from the El Sidrón site (Asturias, Spain) in the context of Homo pectoral girdle evolution.

PubMed

Rosas, Antonio; Rodriguez-Perez, Francisco Javier; Bastir, Markus; Estalrrich, Almudena; Huguet, Rosa; García-Tabernero, Antonio; Pastor, Juan Francisco; de la Rasilla, Marco

2016-06-01

We undertook a three-dimensional geometric morphometric (3DGM) analysis on 12 new Neandertal clavicle specimens from the El Sidrón site (Spain), dated to 49,000 years ago. The 3DGM methods were applied in a comparative framework in order to improve our understanding of trait polarity in features related to Homo pectoral girdle evolution, using other Neandertals, Homo sapiens, Pan, ATD6-50 (Homo antecessor), and KNM-WT 15000 (Homo ergaster/erectus) in the reference collection. Twenty-nine homologous landmarks were measured for each clavicle. Variation and morphological similarities were assessed through principal component analysis, conducted separately for the complete clavicle and the diaphysis. On average, Neandertal clavicles had significantly larger muscular entheses, double dorsal curvature, clavicle torsion, and cranial orientation of the acromial end than non-Neandertal clavicles; the El Sidrón clavicles fit this pattern. Variation within the samples was large, with extensive overlap between Homo species; only chimpanzee specimens clearly differed from the other specimens in morphometric terms. Taken together, our morphometric analyses are consistent with the following phylogenetic sequence. The primitive condition of the clavicle is manifest in the cranial orientation of both the acromial and sternal ends. The derived condition expressed in the H. sapiens + Neandertal clade is defined by caudal rotation of both the sternal and acromial ends, but with variation in the number of acromia remaining in a certain cranial orientation. Finally, the autapomorphic Neandertal condition is defined by secondarily acquired primitive cranial re-orientation of the acromial end, which varies from individual to individual. These results suggest that the pace of phylogenetic change in the pectoral girdle does not seem to follow that of other postcranial skeletal features. Copyright © 2016 Elsevier Ltd. All rights reserved.

Comprehensive evolutionary analysis of the Anthroherpon radiation (Coleoptera, Leiodidae, Leptodirini).

PubMed

Njunjić, Iva; Perrard, Adrien; Hendriks, Kasper; Schilthuizen, Menno; Perreau, Michel; Merckx, Vincent; Baylac, Michel; Deharveng, Louis

2018-01-01

The genus Anthroherpon Reitter, 1889 exhibits the most pronounced troglomorphic characters among Coleoptera, and represents one of the most spectacular radiations of subterranean beetles. However, radiation, diversification, and biogeography of this genus have never been studied in a phylogenetic context. This study provides a comprehensive evolutionary analysis of the Anthroherpon radiation, using a dated molecular phylogeny as a framework for understanding Anthroherpon diversification, reconstructing the ancestral range, and exploring troglomorphic diversity. Based on 16 species and 22 subspecies, i.e. the majority of Anthroherpon diversity, we reconstructed the phylogeny using Bayesian analysis of six loci, both mitochondrial and nuclear, comprising a total of 4143 nucleotides. In parallel, a morphometric analysis was carried out with 79 landmarks on the body that were subjected to geometric morphometrics. We optimized morphometric features to phylogeny, in order to recognize the way troglomorphy was expressed in different clades of the tree, and did character evolution analyses. Finally, we reconstructed the ancestral range of the genus using BioGeoBEARS. Besides further elucidating the suprageneric classification of the East-Mediterranean Leptodirini, our main findings also show that Anthroherpon dates back to the Early Miocene (ca. 22 MYA) and that the genus diversified entirely underground. Biogeographic reconstruction of the ancestral range shows the origin of the genus in the area comprising three high mountains in western Montenegro, which is in the accordance with the available data on the paleogeography of the Balkan Peninsula. Character evolution analysis indicates that troglomorphic morphometric traits in Anthroherpon mostly evolve neutrally but may diverge adaptively under syntopic competition.

Hystricognathy vs Sciurognathy in the Rodent Jaw: A New Morphometric Assessment of Hystricognathy Applied to the Living Fossil Laonastes (Diatomyidae)

PubMed Central

Hautier, Lionel; Lebrun, Renaud; Saksiri, Soonchan; Michaux, Jacques; Vianey-Liaud, Monique; Marivaux, Laurent

2011-01-01

While exceptional for an intense diversification of lineages, the evolutionary history of the order Rodentia comprises only a limited number of morphological morphotypes for the mandible. This situation could partly explain the intense debates about the taxonomic position of the latest described member of this clade, the Laotian rock rat Laonastes aenigmamus (Diatomyidae). This discovery has re-launched the debate on the definition of the Hystricognathi suborder identified using the angle of the jaw relative to the plane of the incisors. Our study aims to end this ambiguity. For clarity, it became necessary to revisit the entire morphological diversity of the mandible in extant and extinct rodents. However, current and past rodent diversity brings out the limitations of the qualitative descriptive approach and highlights the need for a quantitative approach. Here, we present the first descriptive comparison of the masticatory apparatus within the Ctenohystrica clade, in combining classic comparative anatomy with morphometrical methods. First, we quantified the shape of the mandible in rodents using 3D landmarks. Then, the analysis of osteological features was compared to myological features in order to understand the biomechanical origin of this morphological diversity. Among the morphological variation observed, the mandible of Laonastes aenigmamus displays an intermediate association of features that could be considered neither as sciurognathous nor as hystricognathous. PMID:21490933

Sexual dimorphic features within extant great ape faciodental skeletal anatomy and testing the single species hypothesis.

PubMed

Cameron, D W

1997-01-01

This paper examines sexually dimorphic skeletal characters within the face and upper dentition of extant hominids (great ape), not including members of the Hominini. Specimens of Pan paniscus, Pan troglodytes, Gorilla gorilla, and Pongo pygmaeus are used to help identify likely sex specific characters for the Hominidae. The aim of this paper is to identify extant hominid faciodental sexual features which can be used to help sex fossil specimens. A morphometric and skeletal study of sexual variability demonstrates relatively diverse patterns of sexual variability within the extant hominids. In terms of morphometrics, P. paniscus is relatively non-dimorphic, while P. troglodytes, Gorilla and Pongo display a large degree of sexual dimorphism. In their respective skeletal anatomies, however, each has specific characters which tend to differentiate between the sexes. Some faciodental sex features are shown to be common amongst all four taxa and as such are likely to be important criteria for determining the sex of Miocene and Plio-Pleistocene fossil hominid specimens. The construction of extant great ape sexual ranges of variability are also important in helping to test the fossil ape single species hypotheses. The testing of sex and species ranges of variability should employ range based statistics not only because they are sample size independent, (relative to C.V.) but also because they are of low power.

Relationship Between the Risk of Suffering a First-Time Noncontact ACL Injury and Geometry of the Femoral Notch and ACL: A Prospective Cohort Study With a Nested Case-Control Analysis.

PubMed

Whitney, Darryl C; Sturnick, Daniel R; Vacek, Pamela M; DeSarno, Mike J; Gardner-Morse, Mack; Tourville, Timothy W; Smith, Helen C; Slauterbeck, James R; Johnson, Robert J; Shultz, Sandra J; Hashemi, Javad; Beynnon, Bruce D

2014-08-01

The morphometric characteristics of the anterior cruciate ligament (ACL) and the femoral intercondylar notch within which it resides have been implicated as risk factors for injuries to this important stabilizer of the knee. Prior research has produced equivocal results with differing methodologies, and consequently, it is unclear how these characteristics affect the injury risk in male and female patients. The morphometric characteristics of the ACL and femoral intercondylar notch are individually and independently associated with the risk of suffering a noncontact ACL injury, and these relationships are different in male and female patients. Case-control study; Level of evidence, 3. Magnetic resonance imaging scans of the bilateral knees were obtained on 88 case-control pairs (27 male, 61 female) matched for age, sex, and participation on the same sports team. Patients had suffered a grade III, first-time, noncontact ACL tear. The femoral notch width at 4 locations, the thickness of the bony ridge at the anteromedial outlet of the femoral notch, the femoral notch volume, ACL volume, and ACL cross-sectional area were measured. Multivariate analysis of combined data from male and female patients revealed that decreased ACL volume (odds ratio [OR], 0.829), decreased femoral notch width (OR, 0.700), and increased bony ridge thickness at the anteromedial outlet of the femoral notch (OR, 1.614) were significant independent predictors of an ACL injury. Separate analyses of male and female patients indicated that the femoral notch ridge may be more strongly associated with a risk in female patients, while ACL volume is more strongly associated with a risk in male patients. However, statistical analysis performed with an adjustment for body weight strengthened the association between ACL volume and the risk of injuries in female patients. Morphometric features of both the ACL and femoral notch combine to influence the risk of suffering a noncontact ACL injury. When included together in a multivariate model that adjusts for body weight, the effects of the morphometric measurements are similar in male and female patients. If body weight is not taken into consideration, ACL volume is not associated with a risk in female patients. © 2014 The Author(s).

[The forensic medical evaluation of the injuries inflicted inside the passenger compartment of a moving car equipped with the modern personal safety systems].

PubMed

Pigolkin, Yu I; Dubrovin, I A; Mosoyan, A S; Bychkov, A A

The objective of the present study was to elucidate the characteristic features of the injuries inflicted to the victims of a road traffic accident inside the passenger compartment of a moving car equipped with the modern personal safety systems. The materials available for the present work included the lesions documented in 210 drivers and 150 occupants of the car passenger compartments. Both comparative, morphometric and statistical methods were used to analyze the data obtained. The morphometric analysis included identification of the form of the injury, such as extravasation, wounds, fractures, and lesions of the internal organs (e.g. hemorrhages, ruptures, etc.), their number and localization. Special attention was given to the specific features of the injuries to the occupants of the cars equipped with the modern personal safety systems. The study has demonstrated that the form, frequency, and localization of the injuries inflicted to the victims of a road traffic accident inside the passenger car compartment (including the drivers and other occupants) can be used for determining the positions of the victims at the moment of the accident.

A 3-D morphometric analysis of erosional features in a contourite drift from offshore SE Brazil

NASA Astrophysics Data System (ADS)

Alves, Tiago M.

2010-12-01

A contourite drift from offshore Brazil is mapped in detail and investigated using state-of-the-art 3-D seismic data. The aim was to review the relevance of erosional features in contourite drifts accumulated on continental slopes. Topographically confined by growing salt diapirs, the mapped contourite ridge is limited by two erosional features, a contourite moat and a turbidite channel, showing multiple slide scars on it flanks. Associated with the latter features are thick accumulations of high-amplitude strata, probably comprising sandy/silty sediment of Miocene to Holocene age. The erosional unconformities are mostly observed in a region averaging 3.75km away from the axes of a channel and a moat, whose deposits interfinger with continuous strata in central parts of the contourite drift. The multiple unconformities observed are mostly related to slide scars and local erosion on the flanks of the drift. This work demonstrates that the existence of widespread unconformities within contourite drifts on continental slopes: (1) may not be as prominent as often documented, (2) are often diachronic and interfinger with correlative hiatuses or aggraded strata in axial regions of contourite drifts. Although less widespread than regional, or ocean-scale unconformities, these diachronous features result in significant hiatuses within contourite drifts and are, therefore, potentially mappable as relevant (regional-scale) unconformities on 2-D/3-D seismic data. Thus, without a full 3-D morphometric analysis of contourite drifts, significant errors may occur when estimating major changes in the dynamics of principal geostrophic currents based on single-site core data, or on direct correlations between stratigraphic surfaces of distinct contourite bodies.

Morphometric MRI Imaging Study of the Corridor for the Oblique Lumbar Interbody Fusion Technique at L1-L5.

PubMed

Julian Li, Jia Xi; Mobbs, Ralph J; Phan, Kevin

2018-03-01

Anterior lumbar interbody fusion and lateral lumbar interbody fusion are associated with approach-related disadvantages. Oblique lumbar interbody fusion (OLIF) is the proposed solution, especially for upper lumbar levels. We analyzed the size and regional anatomy of the corridor used in the OLIF technique between levels L1 and L5. This is a morphometric study of 200 randomly selected magnetic resonance imaging (MRI) studies with features of lumbar degenerative disease. On MRI, the oblique corridor was defined as the smallest distance between the psoas major muscle and aorta or inferior vena cava (or common iliac artery) and measured at the L1/L2, L2/L3, L3/L4, and L4/L5 disc levels on both the left and right on the axial images at the mid-disc level. Mean distances of the oblique corridor on the left side were L1/L2 = 18.90 mm, L2/L3 = 15.50 mm; L3/L4 = 12.75 mm, and L4/L5 = 8.92 mm; on the right side, they were L1/L2 = 14.80 mm, L2/L3 = 5.50 mm, L3/L4 = 3.00 mm, and L4/L5 = 1.46 mm. For both sides, the corridor size was not significantly affected by sex, and it increased with age and decreased at the inferior lumbar disc levels. The L1/L2 and L2/L3 levels may be obstructed by the ipsilateral kidney and renal vasculature on both sides and the liver on the right side. A left-sided OLIF approach is viable for both sexes. Oblique access to the L1/L2 and L2/L3 disc levels is feasible regardless of age, whereas the L3/L4 and L4/L5 levels may be more suitable in older patients, especially for male patients. The right-sided approach is less likely to be performed effectively. Copyright © 2018 Elsevier Inc. All rights reserved.

Why should we investigate the morphological disparity of plant clades?

PubMed Central

Oyston, Jack W.; Hughes, Martin; Gerber, Sylvain; Wills, Matthew A.

2016-01-01

Background Disparity refers to the morphological variation in a sample of taxa, and is distinct from diversity or taxonomic richness. Diversity and disparity are fundamentally decoupled; many groups attain high levels of disparity early in their evolution, while diversity is still comparatively low. Diversity may subsequently increase even in the face of static or declining disparity by increasingly fine sub-division of morphological ‘design’ space (morphospace). Many animal clades reached high levels of disparity early in their evolution, but there have been few comparable studies of plant clades, despite their profound ecological and evolutionary importance. This study offers a prospective and some preliminary macroevolutionary analyses. Methods Classical morphometric methods are most suitable when there is reasonable conservation of form, but lose traction where morphological differences become greater (e.g. in comparisons across higher taxa). Discrete character matrices offer one means to compare a greater diversity of forms. This study explores morphospaces derived from eight discrete data sets for major plant clades, and discusses their macroevolutionary implications. Key Results Most of the plant clades in this study show initial, high levels of disparity that approach or attain the maximum levels reached subsequently. These plant clades are characterized by an initial phase of evolution during which most regions of their empirical morphospaces are colonized. Angiosperms, palms, pines and ferns show remarkably little variation in disparity through time. Conifers furnish the most marked exception, appearing at relatively low disparity in the latest Carboniferous, before expanding incrementally with the radiation of successive, tightly clustered constituent sub-clades. Conclusions Many cladistic data sets can be repurposed for investigating the morphological disparity of plant clades through time, and offer insights that are complementary to more focused morphometric studies. The unique structural and ecological features of plants make them ideally suited to investigating intrinsic and extrinsic constraints on disparity. PMID:26658292

Why should we investigate the morphological disparity of plant clades?

PubMed

Oyston, Jack W; Hughes, Martin; Gerber, Sylvain; Wills, Matthew A

2016-04-01

Disparity refers to the morphological variation in a sample of taxa, and is distinct from diversity or taxonomic richness. Diversity and disparity are fundamentally decoupled; many groups attain high levels of disparity early in their evolution, while diversity is still comparatively low. Diversity may subsequently increase even in the face of static or declining disparity by increasingly fine sub-division of morphological 'design' space (morphospace). Many animal clades reached high levels of disparity early in their evolution, but there have been few comparable studies of plant clades, despite their profound ecological and evolutionary importance. This study offers a prospective and some preliminary macroevolutionary analyses. Classical morphometric methods are most suitable when there is reasonable conservation of form, but lose traction where morphological differences become greater (e.g. in comparisons across higher taxa). Discrete character matrices offer one means to compare a greater diversity of forms. This study explores morphospaces derived from eight discrete data sets for major plant clades, and discusses their macroevolutionary implications. Most of the plant clades in this study show initial, high levels of disparity that approach or attain the maximum levels reached subsequently. These plant clades are characterized by an initial phase of evolution during which most regions of their empirical morphospaces are colonized. Angiosperms, palms, pines and ferns show remarkably little variation in disparity through time. Conifers furnish the most marked exception, appearing at relatively low disparity in the latest Carboniferous, before expanding incrementally with the radiation of successive, tightly clustered constituent sub-clades. Many cladistic data sets can be repurposed for investigating the morphological disparity of plant clades through time, and offer insights that are complementary to more focused morphometric studies. The unique structural and ecological features of plants make them ideally suited to investigating intrinsic and extrinsic constraints on disparity. © The Author 2015. Published by Oxford University Press on behalf of the Annals of Botany Company. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Effects of chronic tramadol administration on testicular tissue in rats: an experimental study.

PubMed

Abdellatief, R B; Elgamal, D A; Mohamed, E E M

2015-08-01

In a prospective experimental study, the effects of chronic tramadol administration on gonadotrophic and sex hormones, histopathological and morphometrical alterations in rat testicular tissue were investigated in a laboratory setting. Tramadol was given alone to adult male albino rats. Gonadotrophic and serum sex hormone levels were measured and testicular pathological and morphometric changes were observed in treated vs. After 30 days of treatment, tramadol induced a decrease in LH, FSH and testosterone serum levels. Histologically, degenerative changes in the seminiferous tubules were observed. They showed shrinkage, separation of tubular basement membrane, disorganisation and vacuolisation of spermatogenic layers. Morphometric analysis revealed significant decrease in the mean values of the tubular diameter and epithelial height. Ultrastructural abnormalities were detected in all cells of spermatogenic lineage in addition to the appearance of apoptotic cells. Sertoli cell vacuolation, huge lipid droplets and disrupted Sertoli cell junctions were observed. Leydig cells showed euchromatic nuclei and dilated smooth endoplasmic reticulum. In view of these findings, it is concluded that tramadol induces alterations in sex hormonal levels in conjunction with disruption of the normal histological structure of rat testis. This might lead to the risk of male infertility. Therefore, tramadol should be used with caution with appropriate dose monitoring. © 2014 Blackwell Verlag GmbH.

Neandertal talus bones from El Sidrón site (Asturias, Spain): A 3D geometric morphometrics analysis.

PubMed

Rosas, Antonio; Ferrando, Anabel; Bastir, Markus; García-Tabernero, Antonio; Estalrrich, Almudena; Huguet, Rosa; García-Martínez, Daniel; Pastor, Juan Francisco; de la Rasilla, Marco

2017-10-01

The El Sidrón tali sample is assessed in an evolutionary framework. We aim to explore the relationship between Neandertal talus morphology and body size/shape. We test the hypothesis 1: talar Neandertal traits are influenced by body size, and the hypothesis 2: shape variables independent of body size correspond to inherited primitive features. We quantify 35 landmarks through 3D geometric morphometrics techniques to describe H. neanderthalensis-H. sapiens shape variation, by Mean Shape Comparisons, Principal Component, Phenetic Clusters, Minimum spanning tree analyses and partial least square and regression of talus shape on body variables. Shape variation correlated to body size is compared to Neandertals-Modern Humans (MH) evolutionary shape variation. The Neandertal sample is compared to early hominins. Neandertal talus presents trochlear hypertrophy, a larger equality of trochlear rims, a shorter neck, a more expanded head, curvature and an anterior location of the medial malleolar facet, an expanded and projected lateral malleolar facet and laterally expanded posterior calcaneal facet compared to MH. The Neandertal talocrural joint morphology is influenced by body size. The other Neandertal talus traits do not co-vary with it or not follow the same co-variation pattern as MH. Besides, the trochlear hypertrophy, the trochlear rims equality and the short neck could be inherited primitive features; the medial malleolar facet morphology could be an inherited primitive feature or a secondarily primitive trait; and the calcaneal posterior facet would be an autapomorphic feature of the Neandertal lineage. © 2017 Wiley Periodicals, Inc.

Effective Multi-Query Expansions: Collaborative Deep Networks for Robust Landmark Retrieval.

PubMed

Wang, Yang; Lin, Xuemin; Wu, Lin; Zhang, Wenjie

2017-03-01

Given a query photo issued by a user (q-user), the landmark retrieval is to return a set of photos with their landmarks similar to those of the query, while the existing studies on the landmark retrieval focus on exploiting geometries of landmarks for similarity matches between candidate photos and a query photo. We observe that the same landmarks provided by different users over social media community may convey different geometry information depending on the viewpoints and/or angles, and may, subsequently, yield very different results. In fact, dealing with the landmarks with low quality shapes caused by the photography of q-users is often nontrivial and has seldom been studied. In this paper, we propose a novel framework, namely, multi-query expansions, to retrieve semantically robust landmarks by two steps. First, we identify the top- k photos regarding the latent topics of a query landmark to construct multi-query set so as to remedy its possible low quality shape. For this purpose, we significantly extend the techniques of Latent Dirichlet Allocation. Then, motivated by the typical collaborative filtering methods, we propose to learn a collaborative deep networks-based semantically, nonlinear, and high-level features over the latent factor for landmark photo as the training set, which is formed by matrix factorization over collaborative user-photo matrix regarding the multi-query set. The learned deep network is further applied to generate the features for all the other photos, meanwhile resulting into a compact multi-query set within such space. Then, the final ranking scores are calculated over the high-level feature space between the multi-query set and all other photos, which are ranked to serve as the final ranking list of landmark retrieval. Extensive experiments are conducted on real-world social media data with both landmark photos together with their user information to show the superior performance over the existing methods, especially our recently proposed multi-query based mid-level pattern representation method [1].

Quantitative analysis of histopathological findings using image processing software.

PubMed

Horai, Yasushi; Kakimoto, Tetsuhiro; Takemoto, Kana; Tanaka, Masaharu

2017-10-01

In evaluating pathological changes in drug efficacy and toxicity studies, morphometric analysis can be quite robust. In this experiment, we examined whether morphometric changes of major pathological findings in various tissue specimens stained with hematoxylin and eosin could be recognized and quantified using image processing software. Using Tissue Studio, hypertrophy of hepatocytes and adrenocortical cells could be quantified based on the method of a previous report, but the regions of red pulp, white pulp, and marginal zones in the spleen could not be recognized when using one setting condition. Using Image-Pro Plus, lipid-derived vacuoles in the liver and mucin-derived vacuoles in the intestinal mucosa could be quantified using two criteria (area and/or roundness). Vacuoles derived from phospholipid could not be quantified when small lipid deposition coexisted in the liver and adrenal cortex. Mononuclear inflammatory cell infiltration in the liver could be quantified to some extent, except for specimens with many clustered infiltrating cells. Adipocyte size and the mean linear intercept could be quantified easily and efficiently using morphological processing and the macro tool equipped in Image-Pro Plus. These methodologies are expected to form a base system that can recognize morphometric features and analyze quantitatively pathological findings through the use of information technology.

[The morphometric characteristics of the main structural components of renal nephrons in the white rats with experimentally induced acute and chronic alcohol intoxication].

PubMed

Shcherbakova, V M

2016-01-01

The objective of the present work was to study the morphometric characteristics of the main structural components of renal nephrons in the white rats with the experimentally induced acute and chronic alcohol intoxication. We undertook the morphometric examination of the structural elements of rat kidneys with the subsequent statistical analysis of the data obtained. The results of the study give evidence of the toxic action of ethanol on all structural components of the nephron in the case of both acute and chronic alcohol intoxication. The study revealed some specific features of the development of pathological process in the renal tissue structures at different stages of alcohol intoxication. The most pronounced morphological changes were observed in the renal proximal tubules and the least pronounced ones in the structure of the renal glomeruli. The earliest morphological changes become apparent in distal convoluted tubules of the nephron; in the case of persistent alcoholemia, they first develop in the renal corpuscles and thereafter in the distal proximal tubules. The maximum changes occur in the case of acute alcohol intoxication and between 2 weeks and 2 months of chronic intoxication; they become less conspicuous during a later period.

First metatarsophalangeal joint motion in Homo sapiens: theoretical association of two-axis kinematics and specific morphometrics.

PubMed

Durrant, Michael N; McElroy, Tucker; Durrant, Lara

2012-01-01

The metatarsal head and proximal phalanx exhibit considerable asymmetry in their shape and geometry, but there is little documentation in the literature regarding the prevalence of structural characteristics that occur in a given population. Although there is a considerable volume of in vivo and in vitro experiments demonstrating first metatarsal inversion around its longitudinal axis with dorsiflexion, little is known regarding the applicability of specific morphometrics to these motions. Nine distinctive osseous characteristics in the metatarsal head and phalanx were selected based on their location, geometry, and perceived functional relationship to previous studies describing metatarsal motion as inversion with dorsiflexion. The prevalences of the chosen characteristics were determined in a cohort of 21 randomly selected skeletal specimens, 19 of which were provided by the anatomical preparation office at the University of California, San Diego, and two of which were in the possession of one of us (M.D.). The frequency of occurrence of each selected morphological characteristic in this sample and the relevant summary statistics confirm a strong association between the selected features and a conceptual two-axis kinematic model of the metatarsophalangeal joint. The selected morphometrics are consistent with inversion of the metatarsal around its longitudinal axis as it dorsiflexes.

Differential diagnosis of neurodegenerative diseases using structural MRI data

PubMed Central

Koikkalainen, Juha; Rhodius-Meester, Hanneke; Tolonen, Antti; Barkhof, Frederik; Tijms, Betty; Lemstra, Afina W.; Tong, Tong; Guerrero, Ricardo; Schuh, Andreas; Ledig, Christian; Rueckert, Daniel; Soininen, Hilkka; Remes, Anne M.; Waldemar, Gunhild; Hasselbalch, Steen; Mecocci, Patrizia; van der Flier, Wiesje; Lötjönen, Jyrki

2016-01-01

Different neurodegenerative diseases can cause memory disorders and other cognitive impairments. The early detection and the stratification of patients according to the underlying disease are essential for an efficient approach to this healthcare challenge. This emphasizes the importance of differential diagnostics. Most studies compare patients and controls, or Alzheimer's disease with one other type of dementia. Such a bilateral comparison does not resemble clinical practice, where a clinician is faced with a number of different possible types of dementia. Here we studied which features in structural magnetic resonance imaging (MRI) scans could best distinguish four types of dementia, Alzheimer's disease, frontotemporal dementia, vascular dementia, and dementia with Lewy bodies, and control subjects. We extracted an extensive set of features quantifying volumetric and morphometric characteristics from T1 images, and vascular characteristics from FLAIR images. Classification was performed using a multi-class classifier based on Disease State Index methodology. The classifier provided continuous probability indices for each disease to support clinical decision making. A dataset of 504 individuals was used for evaluation. The cross-validated classification accuracy was 70.6% and balanced accuracy was 69.1% for the five disease groups using only automatically determined MRI features. Vascular dementia patients could be detected with high sensitivity (96%) using features from FLAIR images. Controls (sensitivity 82%) and Alzheimer's disease patients (sensitivity 74%) could be accurately classified using T1-based features, whereas the most difficult group was the dementia with Lewy bodies (sensitivity 32%). These results were notable better than the classification accuracies obtained with visual MRI ratings (accuracy 44.6%, balanced accuracy 51.6%). Different quantification methods provided complementary information, and consequently, the best results were obtained by utilizing several quantification methods. The results prove that automatic quantification methods and computerized decision support methods are feasible for clinical practice and provide comprehensive information that may help clinicians in the diagnosis making. PMID:27104138

A new interpretation of the bee fossil Melitta willardi Cockerell (Hymenoptera, Melittidae) based on geometric morphometrics of the wing.

PubMed

Dewulf, Alexandre; De Meulemeester, Thibaut; Dehon, Manuel; Engel, Michael S; Michez, Denis

2014-01-01

Although bees are one of the major lineages of pollinators and are today quite diverse, few well-preserved fossils are available from which to establish the tempo of their diversification/extinction since the Early Cretaceous. Here we present a reassessment of the taxonomic affinities of Melitta willardiCockerell 1909, preserved as a compression fossil from the Florissant shales of Colorado, USA. Based on geometric morphometric wing shape analyses M. willardi cannot be confidently assigned to the genus Melitta Kirby (Anthophila, Melittidae). Instead, the species exhibits phenotypic affinity with the subfamily Andreninae (Anthophila, Andrenidae), but does not appear to belong to any of the known genera therein. Accordingly, we describe a new genus, Andrenopteryx gen. n., based on wing shape as well as additional morphological features and to accommodate M. willardi. The new combination Andrenopteryx willardi (Cockerell) is established.

A new interpretation of the bee fossil Melitta willardi Cockerell (Hymenoptera, Melittidae) based on geometric morphometrics of the wing

PubMed Central

Dewulf, Alexandre; De Meulemeester, Thibaut; Dehon, Manuel; Engel, Michael S.; Michez, Denis

2014-01-01

Abstract Although bees are one of the major lineages of pollinators and are today quite diverse, few well-preserved fossils are available from which to establish the tempo of their diversification/extinction since the Early Cretaceous. Here we present a reassessment of the taxonomic affinities of Melitta willardi Cockerell 1909, preserved as a compression fossil from the Florissant shales of Colorado, USA. Based on geometric morphometric wing shape analyses M. willardi cannot be confidently assigned to the genus Melitta Kirby (Anthophila, Melittidae). Instead, the species exhibits phenotypic affinity with the subfamily Andreninae (Anthophila, Andrenidae), but does not appear to belong to any of the known genera therein. Accordingly, we describe a new genus, Andrenopteryx gen. n., based on wing shape as well as additional morphological features and to accommodate M. willardi. The new combination Andrenopteryx willardi (Cockerell) is established. PMID:24715773

Morphometric changes in boar spermatozoa induced by cryopreservation.

PubMed

García-Herreros, M; Barón, F J; Aparicio, I M; Santos, A J; García-Marín, L J; Gil, M C

2008-09-01

Computer-assisted sperm morphometry analysis was used to determine the effects of cryopreservation on boar sperm head and midpiece morphometry. Sperm-rich fractions were collected from five mature boars. Three microscope slides were prepared from single extended sperm samples prior freezing and post-thawing. All slides were stained with Hemacolor, and 250 sperm images were obtained from each slide. The sperm head dimensions for length, width, area, perimeter and four shape factors and sperm-midpiece dimensions for area, width, angle and distance were determined in each spermatozoa. The effects of sperm freezing on sperm dimensions within and among boars were determined. A previous discriminant analysis of the results was able to correctly classify a 78.3 and 82% of fresh and frozen-thawed spermatozoa respectively. Sperm heads were significantly smaller in cryopreserved spermatozoa than in the companion extended samples for length, width, area and perimeter. Sperm midpieces were also significantly smaller in cryopreserved spermatozoa for width and area. The highest changes in morphometric dimensions after the freeze-thawing process were found in the midpiece of spermatozoa. The variability of morphometric measurements only was significantly different between fresh and thawed samples for head rugosity and midpiece area. The effects of cryopreservation on morphometric parameters were similar in the boars, which allow us to conclude that cryopreservation process does not have a different effect in each individual boar. In summary, morphometric changes associated with the cryopreservation process on boar spermatozoa do not apparently depends on an effect at individual level.

Agent-based model with multi-level herding for complex financial systems

NASA Astrophysics Data System (ADS)

Chen, Jun-Jie; Tan, Lei; Zheng, Bo

2015-02-01

In complex financial systems, the sector structure and volatility clustering are respectively important features of the spatial and temporal correlations. However, the microscopic generation mechanism of the sector structure is not yet understood. Especially, how to produce these two features in one model remains challenging. We introduce a novel interaction mechanism, i.e., the multi-level herding, in constructing an agent-based model to investigate the sector structure combined with volatility clustering. According to the previous market performance, agents trade in groups, and their herding behavior comprises the herding at stock, sector and market levels. Further, we propose methods to determine the key model parameters from historical market data, rather than from statistical fitting of the results. From the simulation, we obtain the sector structure and volatility clustering, as well as the eigenvalue distribution of the cross-correlation matrix, for the New York and Hong Kong stock exchanges. These properties are in agreement with the empirical ones. Our results quantitatively reveal that the multi-level herding is the microscopic generation mechanism of the sector structure, and provide new insight into the spatio-temporal interactions in financial systems at the microscopic level.

Agent-based model with multi-level herding for complex financial systems

PubMed Central

Chen, Jun-Jie; Tan, Lei; Zheng, Bo

2015-01-01

In complex financial systems, the sector structure and volatility clustering are respectively important features of the spatial and temporal correlations. However, the microscopic generation mechanism of the sector structure is not yet understood. Especially, how to produce these two features in one model remains challenging. We introduce a novel interaction mechanism, i.e., the multi-level herding, in constructing an agent-based model to investigate the sector structure combined with volatility clustering. According to the previous market performance, agents trade in groups, and their herding behavior comprises the herding at stock, sector and market levels. Further, we propose methods to determine the key model parameters from historical market data, rather than from statistical fitting of the results. From the simulation, we obtain the sector structure and volatility clustering, as well as the eigenvalue distribution of the cross-correlation matrix, for the New York and Hong Kong stock exchanges. These properties are in agreement with the empirical ones. Our results quantitatively reveal that the multi-level herding is the microscopic generation mechanism of the sector structure, and provide new insight into the spatio-temporal interactions in financial systems at the microscopic level. PMID:25669427

Histomorphometric analysis of collagen architecture of auricular keloids in an Asian population.

PubMed

Chong, Yosep; Park, Tae Hwan; Seo, Sang won; Chang, Choong Hyun

2015-03-01

Keloids are a pathologic condition of the reparative process, which present as excessive scar formation that involves various cells and cytokines. Many studies focusing on the histologic feature of keloids, however, have shown discordant results without consideration of architectural aspect of collagen structure. The purpose of this study was to demonstrate a schematic illustration of collagen architecture of keloids, specifically auricular keloids, and to analyze each part on the histomorphologic and morphometric basis. Thirty-nine surgically excised auricular keloids were retrieved from the file of Kangbuk Samsung Hospital. After exhaustive histomorphologic analysis, 3 distinctive structural parts, keloidal collagen, organizing collagen, and proliferating core collagen, were identified and mapped in every case. Cellularity of fibroblasts, blood vessel density, degree of inflammatory cell infiltration, and mast cells counts using Masson trichrome stain, Van Gieson stain, toluidine blue stain, and immunohistochemical stains for CD31 and smooth muscle actin were analyzed in each part of each case. Morphometric analysis on these parameters using ImageJ software was performed using 3 representative images of each part. Three parts were histomorphologically distinct by shape and array of collagen bundles, fibroblasts cellularity, blood vessel density, degree of inflammatory cells, and mast cell infiltration. Morphometric analysis revealed statistically significant difference between each part in fibroblasts cellularity, blood vessel density, degree of inflammatory cell infiltration, and mast cells count. All parameters were exceedingly high in whorling hypercellular fibrous nodules in proliferating core collagen showing simultaneous changes in other parts. Morphologically and morphometrically, 3 distinctive parts were identified in auricular keloids. Mast cell infiltrations, blood vessel density, and fibroblast cellularity are simultaneously increased or decreased according to these parts. Proliferating core collagen might serve as a proliferating center of keloids and might be a key portion for tumor growth and recurrence.

Vehicle logo recognition using multi-level fusion model

NASA Astrophysics Data System (ADS)

Ming, Wei; Xiao, Jianli

2018-04-01

Vehicle logo recognition plays an important role in manufacturer identification and vehicle recognition. This paper proposes a new vehicle logo recognition algorithm. It has a hierarchical framework, which consists of two fusion levels. At the first level, a feature fusion model is employed to map the original features to a higher dimension feature space. In this space, the vehicle logos become more recognizable. At the second level, a weighted voting strategy is proposed to promote the accuracy and the robustness of the recognition results. To evaluate the performance of the proposed algorithm, extensive experiments are performed, which demonstrate that the proposed algorithm can achieve high recognition accuracy and work robustly.

Computer Based Behavioral Biometric Authentication via Multi-Modal Fusion

DTIC Science & Technology

2013-03-01

the decisions made by each individual modality. Fusion of features is the simple concatenation of feature vectors from multiple modalities to be...of Features BayesNet MDL 330 LibSVM PCA 80 J48 Wrapper Evaluator 11 3.5.3 Ensemble Based Decision Level Fusion. In ensemble learning multiple ...The high fusion percentages validate our hypothesis that by combining features from multiple modalities, classification accuracy can be improved. As

Knowledge boosting: a graph-based integration approach with multi-omics data and genomic knowledge for cancer clinical outcome prediction

PubMed Central

Kim, Dokyoon; Joung, Je-Gun; Sohn, Kyung-Ah; Shin, Hyunjung; Park, Yu Rang; Ritchie, Marylyn D; Kim, Ju Han

2015-01-01

Objective Cancer can involve gene dysregulation via multiple mechanisms, so no single level of genomic data fully elucidates tumor behavior due to the presence of numerous genomic variations within or between levels in a biological system. We have previously proposed a graph-based integration approach that combines multi-omics data including copy number alteration, methylation, miRNA, and gene expression data for predicting clinical outcome in cancer. However, genomic features likely interact with other genomic features in complex signaling or regulatory networks, since cancer is caused by alterations in pathways or complete processes. Methods Here we propose a new graph-based framework for integrating multi-omics data and genomic knowledge to improve power in predicting clinical outcomes and elucidate interplay between different levels. To highlight the validity of our proposed framework, we used an ovarian cancer dataset from The Cancer Genome Atlas for predicting stage, grade, and survival outcomes. Results Integrating multi-omics data with genomic knowledge to construct pre-defined features resulted in higher performance in clinical outcome prediction and higher stability. For the grade outcome, the model with gene expression data produced an area under the receiver operating characteristic curve (AUC) of 0.7866. However, models of the integration with pathway, Gene Ontology, chromosomal gene set, and motif gene set consistently outperformed the model with genomic data only, attaining AUCs of 0.7873, 0.8433, 0.8254, and 0.8179, respectively. Conclusions Integrating multi-omics data and genomic knowledge to improve understanding of molecular pathogenesis and underlying biology in cancer should improve diagnostic and prognostic indicators and the effectiveness of therapies. PMID:25002459

Knowledge boosting: a graph-based integration approach with multi-omics data and genomic knowledge for cancer clinical outcome prediction.

PubMed

Kim, Dokyoon; Joung, Je-Gun; Sohn, Kyung-Ah; Shin, Hyunjung; Park, Yu Rang; Ritchie, Marylyn D; Kim, Ju Han

2015-01-01

Cancer can involve gene dysregulation via multiple mechanisms, so no single level of genomic data fully elucidates tumor behavior due to the presence of numerous genomic variations within or between levels in a biological system. We have previously proposed a graph-based integration approach that combines multi-omics data including copy number alteration, methylation, miRNA, and gene expression data for predicting clinical outcome in cancer. However, genomic features likely interact with other genomic features in complex signaling or regulatory networks, since cancer is caused by alterations in pathways or complete processes. Here we propose a new graph-based framework for integrating multi-omics data and genomic knowledge to improve power in predicting clinical outcomes and elucidate interplay between different levels. To highlight the validity of our proposed framework, we used an ovarian cancer dataset from The Cancer Genome Atlas for predicting stage, grade, and survival outcomes. Integrating multi-omics data with genomic knowledge to construct pre-defined features resulted in higher performance in clinical outcome prediction and higher stability. For the grade outcome, the model with gene expression data produced an area under the receiver operating characteristic curve (AUC) of 0.7866. However, models of the integration with pathway, Gene Ontology, chromosomal gene set, and motif gene set consistently outperformed the model with genomic data only, attaining AUCs of 0.7873, 0.8433, 0.8254, and 0.8179, respectively. Integrating multi-omics data and genomic knowledge to improve understanding of molecular pathogenesis and underlying biology in cancer should improve diagnostic and prognostic indicators and the effectiveness of therapies. © The Author 2014. Published by Oxford University Press on behalf of the American Medical Informatics Association.

MultiMiTar: a novel multi objective optimization based miRNA-target prediction method.

PubMed

Mitra, Ramkrishna; Bandyopadhyay, Sanghamitra

2011-01-01

Machine learning based miRNA-target prediction algorithms often fail to obtain a balanced prediction accuracy in terms of both sensitivity and specificity due to lack of the gold standard of negative examples, miRNA-targeting site context specific relevant features and efficient feature selection process. Moreover, all the sequence, structure and machine learning based algorithms are unable to distribute the true positive predictions preferentially at the top of the ranked list; hence the algorithms become unreliable to the biologists. In addition, these algorithms fail to obtain considerable combination of precision and recall for the target transcripts that are translationally repressed at protein level. In the proposed article, we introduce an efficient miRNA-target prediction system MultiMiTar, a Support Vector Machine (SVM) based classifier integrated with a multiobjective metaheuristic based feature selection technique. The robust performance of the proposed method is mainly the result of using high quality negative examples and selection of biologically relevant miRNA-targeting site context specific features. The features are selected by using a novel feature selection technique AMOSA-SVM, that integrates the multi objective optimization technique Archived Multi-Objective Simulated Annealing (AMOSA) and SVM. MultiMiTar is found to achieve much higher Matthew's correlation coefficient (MCC) of 0.583 and average class-wise accuracy (ACA) of 0.8 compared to the others target prediction methods for a completely independent test data set. The obtained MCC and ACA values of these algorithms range from -0.269 to 0.155 and 0.321 to 0.582, respectively. Moreover, it shows a more balanced result in terms of precision and sensitivity (recall) for the translationally repressed data set as compared to all the other existing methods. An important aspect is that the true positive predictions are distributed preferentially at the top of the ranked list that makes MultiMiTar reliable for the biologists. MultiMiTar is now available as an online tool at www.isical.ac.in/~bioinfo_miu/multimitar.htm. MultiMiTar software can be downloaded from www.isical.ac.in/~bioinfo_miu/multimitar-download.htm.

Geometric morphometrics as a tool for improving the comparative study of behavioural postures

NASA Astrophysics Data System (ADS)

Fureix, Carole; Hausberger, Martine; Seneque, Emilie; Morisset, Stéphane; Baylac, Michel; Cornette, Raphaël; Biquand, Véronique; Deleporte, Pierre

2011-07-01

Describing postures has always been a central concern when studying behaviour. However, attempts to compare postures objectively at phylogenetical, populational, inter- or intra-individual levels generally either rely upon a few key elements or remain highly subjective. Here, we propose a novel approach, based on well-established geometric morphometrics, to describe and to analyse postures globally (i.e. considering the animal's body posture in its entirety rather than focusing only on a few salient elements, such as head or tail position). Geometric morphometrics is concerned with describing and comparing variation and changes in the form (size and shape) of organisms using the coordinates of a series of homologous landmarks (i.e. positioned in relation to skeletal or muscular cues that are the same for different species for every variety of form and function and that have derived from a common ancestor, i.e. they have a common evolutionary ancestry, e.g. neck, wings, flipper/hand). We applied this approach to horses, using global postures (1) to characterise behaviours that correspond to different arousal levels, (2) to test potential impact of environmental changes on postures. Our application of geometric morphometrics to horse postures showed that this method can be used to characterise behavioural categories, to evaluate the impact of environmental factors (here human actions) and to compare individuals and groups. Beyond its application to horses, this promising approach could be applied to all questions involving the analysis of postures (evolution of displays, expression of emotions, stress and welfare, behavioural repertoires…) and could lead to a whole new line of research.

Artificial neural network model to distinguish follicular adenoma from follicular carcinoma on fine needle aspiration of thyroid.

PubMed

Savala, Rajiv; Dey, Pranab; Gupta, Nalini

2018-03-01

To distinguish follicular adenoma (FA) and follicular carcinoma (FC) of thyroid in fine needle aspiration cytology (FNAC) is a challenging problem. In this article, we attempted to build an artificial neural network (ANN) model from the cytological and morphometric features of the FNAC smears of thyroid to distinguish FA from FC. The cytological features and morphometric analysis were done on the FNAC smears of histology proven cases of FA (26) and FC (31). The cytological features were analysed semi-quantitatively by two independent observers (RS and PD). These data were used to make an ANN model to differentiate FA versus FC on FNAC material. The performance of this ANN model was assessed by analysing the confusion matrix and receiving operator curve. There were 39 cases in training set, 9 cases each in validation and test sets. In the test group, ANN model successfully distinguished all cases (9/9) of FA and FC. The area under receiver operating curve was 1. The present ANN model is efficient to diagnose follicular adenoma and carcinoma cases on cytology smears without any error. In future, this ANN model will be able to diagnose follicular adenoma and carcinoma cases on thyroid aspirate. This study has immense potential in future. This is an open ended ANN model and more parameters and more cases can be included to make the model much stronger. © 2017 Wiley Periodicals, Inc.

[Intracellular Protein Degradation in Growth of Atlantic Salmon, Salmo salar L].

PubMed

Lysenko, L A; Kantserova, N P; Krupnova, M Yu; Veselov, A E; Nemova, N N

2015-01-01

A brief review on the common characteristics and specific features of proteolytic machinery in fish skeletal muscles (based on Atlantic salmon, Salmo salar L., Salmonidae) has been given. Among a variety of proteases in the muscle tissue, those determining protein degradation level in developing and intensively growing muscles in salmon young and by this way regulating protein retention intensity and growth at all namely lysosomal cathepsins B and D and calcium-dependent proteases (calpains) were comprehensively studied. Revealed age-related differences in intracellular protease activity in salmon skeletal muscles indicate the role of proteolysis regulation in growth in general and a specific role of the individual proteolytic enzymes in particular. The data on negative correlation of cathepsin D and calpain activity levels in muscles and the rate of weight increase in juvenile salmon were obtained. A revealed positive correlation of cathepsin B activity and morphometric parameters in fish young presumably indicates its primary contribution to non-myofibrillar protein turnover.

Working towards integrated community care for older people: empowering organisational features from a professional perspective.

PubMed

Janssen, Bienke M; Snoeren, Miranda W C; Van Regenmortel, Tine; Abma, Tineke A

2015-01-01

Although multi-disciplinary cooperation between professionals is a prerequisite to provide integrated care in the community, this seems hard to realise in practice. Yet, little is known about the experiences of professionals who implement it nor about the organisational features professionals identify as empowering during this cooperation process. Therefore, a case study of a multi-disciplinary geriatric team was performed. The data-collection included observations of meetings, in-depth interviews and focus groups with professionals (N = 12). Data were analysed inductively and related to the three organisational levels within the model of organisational empowerment of Peterson and Zimmerman. Signs of empowering organisational features on the intraorganisational level were mutual trust and clear working routines. On the interorganisational level important features included improved linkages between participating organisations and increased insight into each other's tasks. Tensions occurred relating to the inter- and the extraorganisational level. Professionals felt that the commitment of the management of involved organisations should be improved just as the capacity of the team to influence (local) policy. It is recommended that policymakers should not determine the nature of professional cooperation in advance, but to leave that to the local context as well as to the judgement of involved professionals. Copyright © 2014 Elsevier Ireland Ltd. All rights reserved.

Improvement of Insulin Secretion and Pancreatic β-cell Function in Streptozotocin-induced Diabetic Rats Treated with Aloe vera Extract

PubMed Central

Noor, Ayesha; Gunasekaran, S.; Vijayalakshmi, M. A.

2017-01-01

Background: Diabetes mellitus is a metabolic disorder characterized by chronic hyperglycemia. Plant extracts and their products are being used as an alternative system of medicine for the treatment of diabetes. Aloe vera has been traditionally used to treat several diseases and it exhibits antioxidant, anti-inflammatory, and wound-healing effects. Streptozotocin (STZ)-induced Wistar diabetic rats were used in this study to understand the potential protective effect of A. vera extract on the pancreatic islets. Objective: The aim of the present study was to evaluate the A. vera extract on improvement of insulin secretion and pancreatic β-cell function by morphometric analysis of pancreatic islets in STZ-induced diabetic Wistar rats. Materials and Methods: After acclimatization, male Wistar rats, maintained as per the Committee for the Purpose of Control and Supervision of Experiments on Animals guidelines, were randomly divided into four groups of six rats each. Fasting plasma glucose and insulin levels were assessed. The effect of A. vera extract in STZ-induced diabetic rats on the pancreatic islets by morphometric analysis was evaluated. Results: Oral administration of A. vera extract (300 mg/kg) daily to diabetic rats for 3 weeks showed restoration of blood glucose levels to normal levels with a concomitant increase in insulin levels upon feeding with A. vera extract in STZ-induced diabetic rats. Morphometric analysis of pancreatic sections revealed quantitative and qualitative gain in terms of number, diameter, volume, and area of the pancreatic islets of diabetic rats treated with A. vera extract when compared to the untreated diabetic rats. Conclusion: A. vera extract exerts antidiabetic effects by improving insulin secretion and pancreatic β-cell function by restoring pancreatic islet mass in STZ-induced diabetic Wistar rats. SUMMARY Fasting plasma glucose (FPG) and insulin levels were restored to normal levels in diabetic rats treated with Aloe vera extractIslets of pancreas were qualitatively and quantitatively restored to normalcy leading to restoration of FPG and insulin levels of diabetic rats treated with Aloe vera extractMorphometric analysis of pancreatic sections revealed quantitative and qualitative gain in terms of number, diameter, volume, and area of the pancreatic islets of diabetic rats treated with Aloe vera extract when compared to the untreated diabetic rats. Abbreviations Used: A. vera, FPG: Fasting plasma glucose, STZ: Streptozotocin, BW: Body weight PMID:29333050

Multi-modal imaging predicts memory performance in normal aging and cognitive decline.

PubMed

Walhovd, K B; Fjell, A M; Dale, A M; McEvoy, L K; Brewer, J; Karow, D S; Salmon, D P; Fennema-Notestine, C

2010-07-01

This study (n=161) related morphometric MR imaging, FDG-PET and APOE genotype to memory scores in normal controls (NC), mild cognitive impairment (MCI) and Alzheimer's disease (AD). Stepwise regression analyses focused on morphometric and metabolic characteristics of the episodic memory network: hippocampus, entorhinal, parahippocampal, retrosplenial, posterior cingulate, precuneus, inferior parietal, and lateral orbitofrontal cortices. In NC, hippocampal metabolism predicted learning; entorhinal metabolism predicted recognition; and hippocampal metabolism predicted recall. In MCI, thickness of the entorhinal and precuneus cortices predicted learning, while parahippocampal metabolism predicted recognition. In AD, posterior cingulate cortical thickness predicted learning, while APOE genotype predicted recognition. In the total sample, hippocampal volume and metabolism, cortical thickness of the precuneus, and inferior parietal metabolism predicted learning; hippocampal volume and metabolism, parahippocampal thickness and APOE genotype predicted recognition. Imaging methods appear complementary and differentially sensitive to memory in health and disease. Medial temporal and parietal metabolism and morphometry best explained memory variance. Medial temporal characteristics were related to learning, recall and recognition, while parietal structures only predicted learning. Copyright 2008. Published by Elsevier Inc.

Morphometric Study of the Lumbar Posterior Longitudinal Ligament

PubMed Central

Lee, Sang Beom; Chang, Jae Chil; Lee, Gwang Soo; Hwang, Jae Chan; Bae, Hack Gun; Doh, Jae Won

2018-01-01

Objective Morphometric data for the lumbar posterior longitudinal ligament (PLL) was investigated to identify whether there is a difference in the morphometry of the PLL of the lumbar spine at each level with respect to the pattern of intervertebral disc displacement. Methods In 14 formalin-fixed adult cadavers (12 males and 2 females), from L1 to L5, the authors measured the width and height of the PLL and compared them with other landmarks such as the disc and the pedicle. Results Horizontally, at the upper margin of the disc, the central portion of the superficial PLL covered 17.8–36.9% of the disc width and the fan-like portion of the PLL covered 63.9–76.7% of the disc width. At the level of the median portion of the disc, the PLL covered 69.1–74.5% of the disc width. Vertically, at the level of the medial margin of the pedicle, the fan-like portion of the PLL covered 23.5–29.9% of the disc height. In general, a significant difference in length was not found in the right-left and male-female comparisons. Conclusion This study presents the morphometric data on the pattern of intervertebral disc displacement and helps to improve the knowledge of the surgical anatomy of the lumbar PLL. PMID:29354240

Object-Based Paddy Rice Mapping Using HJ-1A/B Data and Temporal Features Extracted from Time Series MODIS NDVI Data

PubMed Central

Singha, Mrinal; Wu, Bingfang; Zhang, Miao

2016-01-01

Accurate and timely mapping of paddy rice is vital for food security and environmental sustainability. This study evaluates the utility of temporal features extracted from coarse resolution data for object-based paddy rice classification of fine resolution data. The coarse resolution vegetation index data is first fused with the fine resolution data to generate the time series fine resolution data. Temporal features are extracted from the fused data and added with the multi-spectral data to improve the classification accuracy. Temporal features provided the crop growth information, while multi-spectral data provided the pattern variation of paddy rice. The achieved overall classification accuracy and kappa coefficient were 84.37% and 0.68, respectively. The results indicate that the use of temporal features improved the overall classification accuracy of a single-date multi-spectral image by 18.75% from 65.62% to 84.37%. The minimum sensitivity (MS) of the paddy rice classification has also been improved. The comparison showed that the mapped paddy area was analogous to the agricultural statistics at the district level. This work also highlighted the importance of feature selection to achieve higher classification accuracies. These results demonstrate the potential of the combined use of temporal and spectral features for accurate paddy rice classification. PMID:28025525

Object-Based Paddy Rice Mapping Using HJ-1A/B Data and Temporal Features Extracted from Time Series MODIS NDVI Data.

PubMed

Singha, Mrinal; Wu, Bingfang; Zhang, Miao

2016-12-22

Accurate and timely mapping of paddy rice is vital for food security and environmental sustainability. This study evaluates the utility of temporal features extracted from coarse resolution data for object-based paddy rice classification of fine resolution data. The coarse resolution vegetation index data is first fused with the fine resolution data to generate the time series fine resolution data. Temporal features are extracted from the fused data and added with the multi-spectral data to improve the classification accuracy. Temporal features provided the crop growth information, while multi-spectral data provided the pattern variation of paddy rice. The achieved overall classification accuracy and kappa coefficient were 84.37% and 0.68, respectively. The results indicate that the use of temporal features improved the overall classification accuracy of a single-date multi-spectral image by 18.75% from 65.62% to 84.37%. The minimum sensitivity (MS) of the paddy rice classification has also been improved. The comparison showed that the mapped paddy area was analogous to the agricultural statistics at the district level. This work also highlighted the importance of feature selection to achieve higher classification accuracies. These results demonstrate the potential of the combined use of temporal and spectral features for accurate paddy rice classification.

Homo floresiensis Contextualized: A Geometric Morphometric Comparative Analysis of Fossil and Pathological Human Samples

PubMed Central

Baab, Karen L.; McNulty, Kieran P.; Harvati, Katerina

2013-01-01

The origin of hominins found on the remote Indonesian island of Flores remains highly contentious. These specimens may represent a new hominin species, Homo floresiensis, descended from a local population of Homo erectus or from an earlier (pre-H. erectus) migration of a small-bodied and small-brained hominin out of Africa. Alternatively, some workers suggest that some or all of the specimens recovered from Liang Bua are pathological members of a small-bodied modern human population. Pathological conditions proposed to explain their documented anatomical features include microcephaly, myxoedematous endemic hypothyroidism (“cretinism”) and Laron syndrome (primary growth hormone insensitivity). This study evaluates evolutionary and pathological hypotheses through comparative analysis of cranial morphology. Geometric morphometric analyses of landmark data show that the sole Flores cranium (LB1) is clearly distinct from healthy modern humans and from those exhibiting hypothyroidism and Laron syndrome. Modern human microcephalic specimens converge, to some extent, on crania of extinct species of Homo. However in the features that distinguish these two groups, LB1 consistently groups with fossil hominins and is most similar to H. erectus. Our study provides further support for recognizing the Flores hominins as a distinct species, H. floresiensis, whose affinities lie with archaic Homo. PMID:23874886

Exploring Eucladoceros ecomorphology using geometric morphometrics.

PubMed

Curran, Sabrina C

2015-01-01

An increasingly common method for reconstructing paleoenvironmental parameters of hominin sites is ecological functional morphology (ecomorphology). This study provides a geometric morphometric study of cervid rearlimb morphology as it relates to phylogeny, size, and ecomorphology. These methods are then applied to an extinct Pleistocene cervid, Eucladoceros, which is found in some of the earliest hominin-occupied sites in Eurasia. Variation in cervid postcranial functional morphology associated with different habitats can be summarized as trade-offs between joint stability versus mobility and rapid movement versus power-generation. Cervids in open habitats emphasize limb stability to avoid joint dislocation during rapid flight from predators. Closed-adapted cervids require more joint mobility to rapidly switch directions in complex habitats. Two skeletal features (of the tibia and calcaneus) have significant phylogenetic signals, while two (the femur and third phalanx) do not. Additionally, morphology of two of these features (tibia and third phalanx) were correlated with body size. For the tibial analysis (but not the third phalanx) this correlation was ameliorated when phylogeny was taken into account. Eucladoceros specimens from France and Romania fall on the more open side of the habitat continuum, a result that is at odds with reconstructions of their diet as browsers, suggesting that they may have had a behavioral regime unlike any extant cervid. © 2014 Wiley Periodicals, Inc.

Morphometry Based on Effective and Accurate Correspondences of Localized Patterns (MEACOLP)

PubMed Central

Wang, Hu; Ren, Yanshuang; Bai, Lijun; Zhang, Wensheng; Tian, Jie

2012-01-01

Local features in volumetric images have been used to identify correspondences of localized anatomical structures for brain morphometry. However, the correspondences are often sparse thus ineffective in reflecting the underlying structures, making it unreliable to evaluate specific morphological differences. This paper presents a morphometry method (MEACOLP) based on correspondences with improved effectiveness and accuracy. A novel two-level scale-invariant feature transform is used to enhance the detection repeatability of local features and to recall the correspondences that might be missed in previous studies. Template patterns whose correspondences could be commonly identified in each group are constructed to serve as the basis for morphometric analysis. A matching algorithm is developed to reduce the identification errors by comparing neighboring local features and rejecting unreliable matches. The two-sample t-test is finally adopted to analyze specific properties of the template patterns. Experiments are performed on the public OASIS database to clinically analyze brain images of Alzheimer's disease (AD) and normal controls (NC). MEACOLP automatically identifies known morphological differences between AD and NC brains, and characterizes the differences well as the scaling and translation of underlying structures. Most of the significant differences are identified in only a single hemisphere, indicating that AD-related structures are characterized by strong anatomical asymmetry. In addition, classification trials to differentiate AD subjects from NC confirm that the morphological differences are reliably related to the groups of interest. PMID:22540000

Pollen and stomata morphometrics and polyploidy in Eriotheca (Malvaceae-Bombacoideae).

PubMed

Marinho, R C; Mendes-Rodrigues, C; Bonetti, A M; Oliveira, P E

2014-03-01

Approximately 70% of the angiosperm species are polyploid, an important phenomenon in the evolution of those plants. But ploidy estimates have often been hindered because of the small size and large number of chromosomes in many tropical groups. Since polyploidy affects cell size, morphometric analyses of pollen grains and stomata have been used to infer ploidy level. Polyploidy is present in many species of the Cerrado, the Neotropical savanna region in Central Brazil, and has been linked to apomixis in some taxa. Eriotheca gracilipes and Eriotheca pubescens are common tree species in this region, and present cytotypes that form reproductive mosaics. Hexaploid individuals (2n = 6x = 276) are polyembryonic and apomictic, while tetraploid and diploid individuals (2n = 2x = 92, 2n = 4x = 184) are sexual and monoembryonic. We tested whether morphometric analysis can be used to estimate ploidy levels in E. gracilipes and E. pubescens individuals. Pollen material from diploid and hexaploid individuals of E. gracilipes, and tetraploid and hexaploid individuals of E. pubescens, were fixed in 50% FAA, and expanded leaves were dried in silica gel. Pollen grains and stomata of at least five individuals from each population were measured. The results demonstrate that all measures were significantly different among cytotypes. Individuals with higher levels of ploidy (hexaploid) all presented measurements that were higher than those with lower levels (diploid and tetraploid). There was no overlap between ploidy levels in each species at 95% confidence interval. Thus, the size of the pollen grains and stomata are effective parameters for analysis of ploidy levels in E. gracilipes and E. pubescens. © 2013 German Botanical Society and The Royal Botanical Society of the Netherlands.

Deconvolution single shot multibox detector for supermarket commodity detection and classification

NASA Astrophysics Data System (ADS)

Li, Dejian; Li, Jian; Nie, Binling; Sun, Shouqian

2017-07-01

This paper proposes an image detection model to detect and classify supermarkets shelves' commodity. Based on the principle of the features directly affects the accuracy of the final classification, feature maps are performed to combine high level features with bottom level features. Then set some fixed anchors on those feature maps, finally the label and the position of commodity is generated by doing a box regression and classification. In this work, we proposed a model named Deconvolutiuon Single Shot MultiBox Detector, we evaluated the model using 300 images photographed from real supermarket shelves. Followed the same protocol in other recent methods, the results showed that our model outperformed other baseline methods.

Model of human recurrent respiratory papilloma on chicken embryo chorioallantoic membrane for tumor angiogenesis research.

PubMed

Uloza, Virgilijus; Kuzminienė, Alina; Palubinskienė, Jolita; Balnytė, Ingrida; Ulozienė, Ingrida; Valančiūtė, Angelija

2017-07-01

We aimed to develop a chick embryo chorioallantoic membrane (CAM) model of recurrent respiratory papilloma (RPP) and to evaluate its morphological and morphometric characteristics, together with angiogenic features. Fresh RRP tissue samples obtained from 13 patients were implanted in 174 chick embryo CAMs. Morphological, morphometric, and angiogenic changes in the CAM and chorionic epithelium were evaluated up until 7 days after the implantation. Immunohistochemical analysis (34βE12, Ki-67, MMP-9, PCNA, and Sambucus nigra staining) was performed to detect cytokeratins and endothelial cells and to evaluate proliferative capacity of the RRP before and after implantation on the CAM. The implanted RRP tissue samples survived on CAM in 73% of cases while retaining their essential morphologic characteristics and proliferative capacity of the original tumor. Implants induced thickening of both the CAM (241-560%, p=0.001) and the chorionic epithelium (107-151%, p=0.001), while the number of blood vessels (37-85%, p=0.001) in the CAM increased. The results of the present study confirmed that chick embryo CAM is a relevant host for serving as a medium for RRP fresh tissue implantation. The CAM assay demonstrated the specific RRP tumor growth pattern after implantation and provided the first morphological and morphometric characterization of the RRP CAM model that opens new horizons in studying this disease.

A minimally invasive methodology based on morphometric parameters for day 2 embryo quality assessment.

PubMed

Molina, Inmaculada; Lázaro-Ibáñez, Elisa; Pertusa, Jose; Debón, Ana; Martínez-Sanchís, Juan Vicente; Pellicer, Antonio

2014-10-01

The risk of multiple pregnancy to maternal-fetal health can be minimized by reducing the number of embryos transferred. New tools for selecting embryos with the highest implantation potential should be developed. The aim of this study was to evaluate the ability of morphological and morphometric variables to predict implantation by analysing images of embryos. This was a retrospective study of 135 embryo photographs from 112 IVF-ICSI cycles carried out between January and March 2011. The embryos were photographed immediately before transfer using Cronus 3 software. Their images were analysed using the public program ImageJ. Significant effects (P < 0.05), and higher discriminant power to predict implantation were observed for the morphometric embryo variables compared with morphological ones. The features for successfully implanted embryos were as follows: four cells on day 2 of development; all blastomeres with circular shape (roundness factor greater than 0.9), an average zona pellucida thickness of 13 µm and an average of 17695.1 µm² for the embryo area. Embryo size, which is described by its area and the average roundness factor for each cell, provides two objective variables to consider when predicting implantation. This approach should be further investigated for its potential ability to improve embryo scoring. Copyright © 2014 Reproductive Healthcare Ltd. Published by Elsevier Ltd. All rights reserved.

Pyramidal neurons in the septal and temporal CA1 field of the human and hedgehog tenrec hippocampus.

PubMed

Liagkouras, Ioannis; Michaloudi, Helen; Batzios, Christos; Psaroulis, Dimitrios; Georgiadis, Marios; Künzle, Heinz; Papadopoulos, Georgios C

2008-07-07

The present study examines comparatively the cellular density of disector-counted/Nissl-stained CA1 pyramidal neurons and the morphometric characteristics (dendritic number/length, spine number/density and Sholl-counted dendritic branch points/20 microm) of the basal and apical dendritic systems of Golgi-impregnated CA1 neurons, in the septal and temporal hippocampus of the human and hedgehog tenrec brain. The obtained results indicate that in both hippocampal parts the cellular density of the CA1 pyramidal neurons is lower in human than in tenrec. However, while the human pyramidal cell density is higher in the septal hippocampal part than in the temporal one, in the tenrec the density of these cells is higher in the temporal part. The dendritic tree of the CA1 pyramidal cells, more developed in the septal than in temporal hippocampus in both species studied, is in general more complex in the human hippocampus. The basal and the apical dendritic systems exhibit species related morphometric differences, while dendrites of different orders exhibit differences in their number and length, and in their spine density. Finally, in both species, as well as hippocampal parts and dendritic systems, changes of dendritic morphometric features along ascending dendritic orders fluctuate in a similar way, as do the number of dendritic branch points in relation to the distance from the neuron soma.

Distribution and predictors of wing shape and size variability in three sister species of solitary bees

PubMed Central

Prunier, Jérôme G.; Dewulf, Alexandre; Kuhlmann, Michael; Michez, Denis

2017-01-01

Morphological traits can be highly variable over time in a particular geographical area. Different selective pressures shape those traits, which is crucial in evolutionary biology. Among these traits, insect wing morphometry has already been widely used to describe phenotypic variability at the inter-specific level. On the contrary, fewer studies have focused on intra-specific wing morphometric variability. Yet, such investigations are relevant to study potential convergences of variation that could highlight micro-evolutionary processes. The recent sampling and sequencing of three solitary bees of the genus Melitta across their entire species range provides an excellent opportunity to jointly analyse genetic and morphometric variability. In the present study, we first aim to analyse the spatial distribution of the wing shape and centroid size (used as a proxy for body size) variability. Secondly, we aim to test different potential predictors of this variability at both the intra- and inter-population levels, which includes genetic variability, but also geographic locations and distances, elevation, annual mean temperature and precipitation. The comparison of spatial distribution of intra-population morphometric diversity does not reveal any convergent pattern between species, thus undermining the assumption of a potential local and selective adaptation at the population level. Regarding intra-specific wing shape differentiation, our results reveal that some tested predictors, such as geographic and genetic distances, are associated with a significant correlation for some species. However, none of these predictors are systematically identified for the three species as an important factor that could explain the intra-specific morphometric variability. As a conclusion, for the three solitary bee species and at the scale of this study, our results clearly tend to discard the assumption of the existence of a common pattern of intra-specific signal/structure within the intra-specific wing shape and body size variability. PMID:28273178

A web system of virtual morphometric globes for Mars and the Moon

NASA Astrophysics Data System (ADS)

Florinsky, I. V.; Garov, A. S.; Karachevtseva, I. P.

2018-09-01

We developed a web system of virtual morphometric globes for Mars and the Moon. As the initial data, we used 15-arc-minutes gridded global digital elevation models (DEMs) extracted from the Mars Orbiter Laser Altimeter (MOLA) and the Lunar Orbiter Laser Altimeter (LOLA) gridded archives. We derived global digital models of sixteen morphometric variables including horizontal, vertical, minimal, and maximal curvatures, as well as catchment area and topographic index. The morphometric models were integrated into the web system developed as a distributed application consisting of a client front-end and a server back-end. The following main functions are implemented in the system: (1) selection of a morphometric variable; (2) two-dimensional visualization of a calculated global morphometric model; (3) 3D visualization of a calculated global morphometric model on the sphere surface; (4) change of a globe scale; and (5) globe rotation by an arbitrary angle. Free, real-time web access to the system is provided. The web system of virtual morphometric globes can be used for geological and geomorphological studies of Mars and the Moon at the global, continental, and regional scales.

Statistical Distribution Analysis of Lineated Bands on Europa

NASA Astrophysics Data System (ADS)

Chen, T.; Phillips, C. B.; Pappalardo, R. T.

2016-12-01

Tina Chen, Cynthia B. Phillips, Robert T. Pappalardo Europa's surface is covered with intriguing linear and disrupted features, including lineated bands that range in scale and size. Previous studies have shown the possibility of an icy shell at the surface that may be concealing a liquid ocean with the potential to harboring life (Pappalardo et al., 1999). Utilizing the high-resolution imaging data from the Galileo spacecraft, we examined bands through a morphometric and morphologic approach. Greeley et al. (2000) and Procktor et al. (2002) have defined bands as wide, hummocky to lineated features that have distinctive surface texture and albedo compared to its surrounding terrain. We took morphometric measurements of lineated bands to find correlations in properties such as size, location, and orientation, and to shed light on formation models. We will present our measurements of over 100 bands on Europa that was mapped on the USGS Europa Global Mosaic Base Map (2002). We also conducted a statistical analysis to understand the distribution of lineated bands globally, and whether the widths of the bands differ by location. Our preliminary analysis from our statistical distribution evaluation, combined with the morphometric measurements, supports a uniform ice shell thickness for Europa rather than one that varies geographically. References: Greeley, Ronald, et al. "Geologic mapping of Europa." Journal of Geophysical Research: Planets 105.E9 (2000): 22559-22578.; Pappalardo, R. T., et al. "Does Europa have a subsurface ocean? Evaluation of the geological evidence." Journal of Geophysical Research: Planets 104.E10 (1999): 24015-24055.; Prockter, Louise M., et al. "Morphology of Europan bands at high resolution: A mid-ocean ridge-type rift mechanism." Journal of Geophysical Research: Planets 107.E5 (2002).; U.S. Geological Survey, 2002, Controlled photomosaic map of Europa, Je 15M CMN: U.S. Geological Survey Geologic Investigations Series I-2757, available at http://pubs.usgs.gov/imap/i2757/

Prevalence, topographic and morphometric features of femoral cam-type deformity: changes in relation to age and gender.

PubMed

Morales-Avalos, R; Leyva-Villegas, J I; Sánchez-Mejorada, G; Reynaga-Obregón, J; Galindo-de León, S; Vílchez-Cavazos, F; Espinosa-Uribe, A G; Acosta-Olivo, C; de la Garza-Castro, O; Guzmán-Avilan, R I; Elizondo-Omaña, R E; Guzmán-López, S

2016-09-01

Femoroacetabular impingement (FAI) syndrome is a frequent cause of pain and in recent years considered to be a precursor of premature hip osteoarthritis. The structural abnormalities which characterize FAI syndrome, such as the cam-type deformity, are associated with morphological alterations that may lead to hip osteoarthritis. The aim of this study was to determine the prevalence and topographic and morphometric features of the cam deformity in a series of 326 femur specimens obtained from a Mexican population, as well as changes in prevalence in relation to age and gender. The specimens were subdivided into groups according to gender and age. A standardized photograph of the proximal femur of each specimen was taken, and the photograph was used to determine the alpha angle using a computer program; the location of the lesion was determined by quadrant and the morphometric characteristics were determined by direct observation. The overall prevalence of cam deformities in the femur specimens was 29.8 % (97/326), with a prevalence by gender of 35.2 % (64/182) in men and 22.9 % (33/144) in women. The mean alpha angle was 54.6° ± 8.5° in all of the osteological specimens and 65.6° ± 7.5° in those specimens exhibiting a cam deformity. Cam deformities were found topographically in the anterior-superior quadrant of the femoral head-neck junction in 86.6 % (84/97) of the femurs. Deformities were found in 28.2 % of the right femurs and 31.3 % of the left femurs. The prevalence of cam deformity was higher in the femur specimens of young men and in those of middle-aged and older women. There were no significant differences in this deformity in relation to the alpha angle according to age and gender.

Predicting multi-level drug response with gene expression profile in multiple myeloma using hierarchical ordinal regression.

PubMed

Zhang, Xinyan; Li, Bingzong; Han, Huiying; Song, Sha; Xu, Hongxia; Hong, Yating; Yi, Nengjun; Zhuang, Wenzhuo

2018-05-10

Multiple myeloma (MM), like other cancers, is caused by the accumulation of genetic abnormalities. Heterogeneity exists in the patients' response to treatments, for example, bortezomib. This urges efforts to identify biomarkers from numerous molecular features and build predictive models for identifying patients that can benefit from a certain treatment scheme. However, previous studies treated the multi-level ordinal drug response as a binary response where only responsive and non-responsive groups are considered. It is desirable to directly analyze the multi-level drug response, rather than combining the response to two groups. In this study, we present a novel method to identify significantly associated biomarkers and then develop ordinal genomic classifier using the hierarchical ordinal logistic model. The proposed hierarchical ordinal logistic model employs the heavy-tailed Cauchy prior on the coefficients and is fitted by an efficient quasi-Newton algorithm. We apply our hierarchical ordinal regression approach to analyze two publicly available datasets for MM with five-level drug response and numerous gene expression measures. Our results show that our method is able to identify genes associated with the multi-level drug response and to generate powerful predictive models for predicting the multi-level response. The proposed method allows us to jointly fit numerous correlated predictors and thus build efficient models for predicting the multi-level drug response. The predictive model for the multi-level drug response can be more informative than the previous approaches. Thus, the proposed approach provides a powerful tool for predicting multi-level drug response and has important impact on cancer studies.

A new species of Aspidoras Ihering (Siluriformes: Callichthyidae: Corydoradinae) from the Rio Xingu Basin, Pará, Brazil.

PubMed

Leão, Manuela D V; Britto, Marcelo R; Wosiacki, Wolmar B

2015-07-21

A new species of Aspidoras is described from an unnamed stream in the Rio Xingu Basin, Castelo de Sonhos municipality, Pará State, representing the northernmost record of the genus along the edge of the Brazilian Shield in the Amazon Basin. Aspidoras marianae is easily distinguished from all congeners in having minute odontode-bearing platelets scattered over the surface of the snout region, minute platelets between the parieto-supraoccipital process and the nuchal plate, and other shared features related to color pattern, morphometrics, meristics and morphological data. Comments about exclusive and shared features are presented.

Somatostatinoma: collision with neurofibroma and ultrastructural features.

PubMed

Varikatt, W; Yong, J L C; Killingsworth, M C

2006-11-01

The clinical presentation, histopathology and immunoelectron microscopic features of two cases of duodenal somatostatinoma are described, one of which is a hitherto unreported example of a collision tumour with a neurofibroma. Ultrastructural morphometric immunoelectron microscopy studies revealed the presence of four types of cells in both tumours, but there was no difference in the proportions of these cells between the collision tumour and the non-collision tumour. Neurosecretory granules ranging in size from 255-815 nm were generally larger than those previously reported for somatostatinomas and somatostatin was identified in granules of all sizes across this range. Neither tumour was associated with the somatostatinoma syndrome comprising associated diabetes mellitis, steatorrhoea and cholelithiasis.

Fusion of infrared polarization and intensity images based on improved toggle operator

NASA Astrophysics Data System (ADS)

Zhu, Pan; Ding, Lei; Ma, Xiaoqing; Huang, Zhanhua

2018-01-01

Integration of infrared polarization and intensity images has been a new topic in infrared image understanding and interpretation. The abundant infrared details and target from infrared image and the salient edge and shape information from polarization image should be preserved or even enhanced in the fused result. In this paper, a new fusion method is proposed for infrared polarization and intensity images based on the improved multi-scale toggle operator with spatial scale, which can effectively extract the feature information of source images and heavily reduce redundancy among different scale. Firstly, the multi-scale image features of infrared polarization and intensity images are respectively extracted at different scale levels by the improved multi-scale toggle operator. Secondly, the redundancy of the features among different scales is reduced by using spatial scale. Thirdly, the final image features are combined by simply adding all scales of feature images together, and a base image is calculated by performing mean value weighted method on smoothed source images. Finally, the fusion image is obtained by importing the combined image features into the base image with a suitable strategy. Both objective assessment and subjective vision of the experimental results indicate that the proposed method obtains better performance in preserving the details and edge information as well as improving the image contrast.

Multi-scale curvature for automated identification of glaciated mountain landscapes

NASA Astrophysics Data System (ADS)

Prasicek, Günther; Otto, Jan-Christoph; Montgomery, David; Schrott, Lothar

2014-05-01

Automated morphometric interpretation of digital terrain data based on impartial rule sets holds substantial promise for large dataset processing and objective landscape classification. However, the geomorphological realm presents tremendous complexity in the translation of qualitative descriptions into geomorphometric semantics. Here, the simple, conventional distinction of V-shaped fluvial and U-shaped glacial valleys is analyzed quantitatively using the relation of multi-scale curvature and drainage area. Glacial and fluvial erosion shapes mountain landscapes in a long-recognized and characteristic way. Valleys incised by fluvial processes typically have V-shaped cross-sections with uniform and moderately steep slopes, whereas glacial valleys tend to have U-shaped profiles and topographic gradients steepening with distance from valley floor. On a DEM, thalweg cells are determined by a drainage area cutoff and multiple moving window sizes are used to derive per-cell curvature over a variety of scales ranging from the vicinity of the flow path at the valley bottom to catchment sections fully including valley sides. The relation of the curvatures calculated for the user-defined minimum scale and the automatically detected maximum scale is presented as a novel morphometric variable termed Difference of Minimum Curvature (DMC). DMC thresholds determined from typical glacial and fluvial sample catchments are employed to identify quadrats of glaciated and non-glaciated mountain landscapes and the distinctions are validated by field-based geological and geomorphological maps. A first test of the novel algorithm at three study sites in the western United States and a subsequent application to Europe and western Asia demonstrate the transferability of the approach.

Limited genomic heterogeneity of circulating melanoma cells in advanced stage patients

NASA Astrophysics Data System (ADS)

Ruiz, Carmen; Li, Julia; Luttgen, Madelyn S.; Kolatkar, Anand; Kendall, Jude T.; Flores, Edna; Topp, Zheng; Samlowski, Wolfram E.; McClay, Edward; Bethel, Kelly; Ferrone, Soldano; Hicks, James; Kuhn, Peter

2015-02-01

Purpose. Circulating melanoma cells (CMCs) constitute a potentially important representation of time-resolved tumor biology in patients. To date, genomic characterization of CMCs has been limited due to the lack of a robust methodology capable of identifying them in a format suitable for downstream characterization. Here, we have developed a methodology to detect intact CMCs that enables phenotypic, morphometric and genomic analysis at the single cell level. Experimental design. Blood samples from 40 metastatic melanoma patients and 10 normal blood donors were prospectively collected. A panel of 7 chondroitin sulfate proteoglycan 4 (CSPG4)-specific monoclonal antibodies (mAbs) was used to immunocytochemically label CMCs. Detection was performed by automated digital fluorescence microscopy and multi-parametric computational analysis. Individual CMCs were captured by micromanipulation for whole genome amplification and copy number variation (CNV) analysis. Results. Based on CSPG4 expression and nuclear size, 1-250 CMCs were detected in 22 (55%) of 40 metastatic melanoma patients (0.5-371.5 CMCs ml-1). Morphometric analysis revealed that CMCs have a broad spectrum of morphologies and sizes but exhibit a relatively homogeneous nuclear size that was on average 1.5-fold larger than that of surrounding PBMCs. CNV analysis of single CMCs identified deletions of CDKN2A and PTEN, and amplification(s) of TERT, BRAF, KRAS and MDM2. Furthermore, novel chromosomal amplifications in chr12, 17 and 19 were also found. Conclusions. Our findings show that CSPG4 expressing CMCs can be found in the majority of advanced melanoma patients. High content analysis of this cell population may contribute to the design of effective personalized therapies in patients with melanoma.

Analysis of the human female foot in two different measurement systems: from geometric morphometrics to functional morphology.

PubMed

Bookstein, Fred L; Domjanić, Jacqueline

2014-09-01

The relationship of geometric morphometrics (GMM) to functional analysis of the same morphological resources is currently a topic of active interest among functional morphologists. Although GMM is typically advertised as free of prior assumptions about shape features or morphological theories, it is common for GMM findings to be concordant with findings from studies based on a-priori lists of shape features whenever prior insights or theories have been properly accounted for in the study design. The present paper demonstrates this happy possibility by revisiting a previously published GMM analysis of footprint outlines for which there is also functionally relevant information in the form of a-pri-ori foot measurements. We show how to convert the conventional measurements into the language of shape, thereby affording two parallel statistical analyses. One is the classic multivariate analysis of "shape features", the other the equally classic GMM of semilandmark coordinates. In this example, the two data sets, analyzed by protocols that are remarkably different in both their geometry and their algebra, nevertheless result in one common biometrical summary: wearing high heels is bad for women inasmuch as it leads to the need for orthotic devices to treat the consequently flattened arch. This concordance bears implications for other branches of applied anthropology. To carry out a good biomedical analysis of applied anthropometric data it may not matter whether one uses GMM or instead an adequate assortment of conventional measurements. What matters is whether the conventional measurements have been selected in order to match the natural spectrum of functional variation.

Unveiling the neurotoxicity of methylmercury in fish (Diplodus sargus) through a regional morphometric analysis of brain and swimming behavior assessment.

PubMed

Puga, Sónia; Pereira, Patrícia; Pinto-Ribeiro, Filipa; O'Driscoll, Nelson J; Mann, Erin; Barata, Marisa; Pousão-Ferreira, Pedro; Canário, João; Almeida, Armando; Pacheco, Mário

2016-11-01

The current study aims to shed light on the neurotoxicity of MeHg in fish (white seabream - Diplodus sargus) by the combined assessment of: (i) MeHg toxicokinetics in the brain, (ii) brain morphometry (volume and number of neurons plus glial cells in specific brain regions) and (iii) fish swimming behavior (endpoints associated with the motor performance and the fear/anxiety-like status). Fish were surveyed for all the components after 7 (E7) and 14 (E14) days of dietary exposure to MeHg (8.7μgg -1 ), as well as after a post-exposure period of 28days (PE28). MeHg was accumulated in the brain of D. sargus after a short time (E7) and reached a maximum at the end of the exposure period (E14), suggesting an efficient transport of this toxicant into fish brain. Divalent inorganic Hg was also detected in fish brain along the experiment (indicating demethylation reactions), although levels were 100-200 times lower than MeHg, which pinpoints the organic counterpart as the great liable for the recorded effects. In this regard, a decreased number of cells in medial pallium and optic tectum, as well as an increased hypothalamic volume, occurred at E7. Such morphometric alterations were followed by an impairment of fish motor condition as evidenced by a decrease in the total swimming time, while the fear/anxiety-like status was not altered. Moreover, at E14 fish swam a greater distance, although no morphometric alterations were found in any of the brain areas, probably due to compensatory mechanisms. Additionally, although MeHg decreased almost two-fold in the brain during post-exposure, the levels were still high and led to a loss of cells in the optic tectum at PE28. This is an interesting result that highlights the optic tectum as particularly vulnerable to MeHg exposure in fish. Despite the morphometric alterations reported in the optic tectum at PE28, no significant changes were found in fish behavior. Globally, the effects of MeHg followed a multiphasic profile, where homeostatic mechanisms prevented circumstantially morphometric alterations in the brain and behavioral shifts. Although it has become clear the complexity of matching brain morphometric changes and behavioral shifts, motor-related alterations induced by MeHg seem to depend on a combination of disruptions in different brain regions. Copyright © 2016 Elsevier B.V. All rights reserved.

High throughput, detailed, cell-specific neuroanatomy of dendritic spines using microinjection and confocal microscopy

PubMed Central

Dumitriu, Dani; Rodriguez, Alfredo; Morrison, John H.

2012-01-01

Morphological features such as size, shape and density of dendritic spines have been shown to reflect important synaptic functional attributes and potential for plasticity. Here we describe in detail a protocol for obtaining detailed morphometric analysis of spines using microinjection of fluorescent dyes, high resolution confocal microscopy, deconvolution and image analysis using NeuronStudio. Recent technical advancements include better preservation of tissue resulting in prolonged ability to microinject, and algorithmic improvements that compensate for the residual Z-smear inherent in all optical imaging. Confocal imaging parameters were probed systematically for the identification of both optimal resolution as well as highest efficiency. When combined, our methods yield size and density measurements comparable to serial section transmission electron microscopy in a fraction of the time. An experiment containing 3 experimental groups with 8 subjects in each can take as little as one month if optimized for speed, or approximately 4 to 5 months if the highest resolution and morphometric detail is sought. PMID:21886104

Karstic terrain in the equatorial layered deposits within a crater in northern Sinus Meridiani, Mars.

NASA Astrophysics Data System (ADS)

Baioni, Davide

2017-04-01

This work investigates the equatorial layered deposits (ELDs) located within a crater located in northern Sinus Meridiani, Mars (4.430 N, 3.320 W), which display traits that are consistent with formation by karst-driven processes. Here, shallow depressions showing a variety of plan forms ranging from rounded, circular, elongated, polygonal and drop-like to elliptical can be observed. The morphologic and morphometric analyses performed, highlight that these depressions display strong morphometric (sizes) and morphologic (shapes, bottoms, walls) similarities with the karst depressions that are common on limestone and evaporite terrains on the Earth and other regions on Mars. On the basis of the characteristics of the investigated landforms and the similarities of features on Earth and Mars, and after discarding other possible origins such as, aeolian, periglacial, volcanic or impact related processes, it has been inferred that the depressions are karstic dolines formed polygenetically by corrosion and solution-related intra-crater processes.

Semantic classification of business images

NASA Astrophysics Data System (ADS)

Erol, Berna; Hull, Jonathan J.

2006-01-01

Digital cameras are becoming increasingly common for capturing information in business settings. In this paper, we describe a novel method for classifying images into the following semantic classes: document, whiteboard, business card, slide, and regular images. Our method is based on combining low-level image features, such as text color, layout, and handwriting features with high-level OCR output analysis. Several Support Vector Machine Classifiers are combined for multi-class classification of input images. The system yields 95% accuracy in classification.

Lung morphometry using hyperpolarized 129 Xe multi-b diffusion MRI with compressed sensing in healthy subjects and patients with COPD.

PubMed

Zhang, Huiting; Xie, Junshuai; Xiao, Sa; Zhao, Xiuchao; Zhang, Ming; Shi, Lei; Wang, Ke; Wu, Guangyao; Sun, Xianping; Ye, Chaohui; Zhou, Xin

2018-05-04

To demonstrate the feasibility of compressed sensing (CS) to accelerate the acquisition of hyperpolarized (HP) 129 Xe multi-b diffusion MRI for quantitative assessments of lung microstructural morphometry. Six healthy subjects and six chronic obstructive pulmonary disease (COPD) subjects underwent HP 129 Xe multi-b diffusion MRI (b = 0, 10, 20, 30, and 40 s/cm 2 ). First, a fully sampled (FS) acquisition of HP 129 Xe multi-b diffusion MRI was conducted in one healthy subject. The acquired FS dataset was retrospectively undersampled in the phase encoding direction, and an optimal twofold undersampled pattern was then obtained by minimizing mean absolute error (MAE) between retrospective CS (rCS) and FS MR images. Next, the FS and CS acquisitions during separate breath holds were performed on five healthy subjects (including the above one). Additionally, the FS and CS synchronous acquisitions during a single breath hold were performed on the sixth healthy subject and one COPD subject. However, only CS acquisitions were conducted in the rest of the five COPD subjects. Finally, all the acquired FS, rCS and CS MR images were used to obtain morphometric parameters, including acinar duct radius (R), acinar lumen radius (r), alveolar sleeve depth (h), mean linear intercept (L m ), and surface-to-volume ratio (SVR). The Wilcoxon signed-rank test and the Bland-Altman plot were employed to assess the fidelity of the CS reconstruction. Moreover, the t-test was used to demonstrate the effectiveness of the multi-b diffusion MRI with CS in clinical applications. The retrospective results demonstrated that there was no statistically significant difference between rCS and FS measurements using the Wilcoxon signed-rank test (P > 0.05). Good agreement between measurements obtained with the CS and FS acquisitions during separate breath holds was demonstrated in Bland-Altman plots of slice differences. Specifically, the mean biases of the R, r, h, L m , and SVR between the CS and FS acquisitions were 1.0%, 2.6%, -0.03%, 1.5%, and -5.5%, respectively. Good agreement between measurements with the CS and FS acquisitions was also observed during the single breath-hold experiments. Furthermore, there were significant differences between the morphometric parameters for the healthy and COPD subjects (P < 0.05). Our study has shown that HP 129 Xe multi-b diffusion MRI with CS could be beneficial in lung microstructural assessments by acquiring less data while maintaining the consistent results with the FS acquisitions. © 2018 American Association of Physicists in Medicine.

Morphometric Assessment of Convergent Tool Technology and Function during the Early Middle Palaeolithic: The Case of Payre, France

PubMed Central

Détroit, Florent; Coudenneau, Aude; Moncel, Marie-Hélène

2016-01-01

There appears to be little doubt as to the existence of an intentional technological resolve to produce convergent tools during the Middle Palaeolithic. However, the use of these pieces as pointed tools is still subject to debate: i.e., handheld tool vs. hafted tool. Present-day technological analysis has begun to apply new methodologies in order to quantify shape variability and to decipher the role of the morphology of these pieces in relation to function; for instance, geometric morphometric analyses have recently been applied with successful results. This paper presents a study of this type of analysis on 37 convergent tools from level Ga of Payre site (France), dated to MIS 8–7. These pieces are non-standardized knapping products produced by discoidal and orthogonal core technologies. Moreover, macro-wear studies attest to various activities on diverse materials with no evidence of hafting or projectile use. The aim of this paper is to test the geometric morphometric approach on non-standardized artefacts applying the Elliptical Fourier analysis (EFA) to 3D contours and to assess the potential relationship between size and shape, technology and function. This study is innovative in that it is the first time that this method, considered to be a valuable complement for describing technological and functional attributes, is applied to 3D contours of lithic products. Our results show that this methodology ensures a very good degree of accuracy in describing shape variations of the sharp edges of technologically non-standardized convergent tools. EFA on 3D contours indicates variations in deviations of the outline along the third dimension (i.e., dorso-ventrally) and yields quantitative and insightful information on the actual shape variations of tools. Several statistically significant relationships are found between shape variation and use-wear attributes, though the results emphasize the large variability of the shape of the convergent tools, which, in general, does not show a strong direct association with technological features and function. This is in good agreement with the technological context of this chronological period, characterized by a wide diversity of non-standardized tools adapted to multipurpose functions for varied subsistence activities. PMID:27191164

Morphometric Assessment of Convergent Tool Technology and Function during the Early Middle Palaeolithic: The Case of Payre, France.

PubMed

Chacón, M Gema; Détroit, Florent; Coudenneau, Aude; Moncel, Marie-Hélène

2016-01-01

There appears to be little doubt as to the existence of an intentional technological resolve to produce convergent tools during the Middle Palaeolithic. However, the use of these pieces as pointed tools is still subject to debate: i.e., handheld tool vs. hafted tool. Present-day technological analysis has begun to apply new methodologies in order to quantify shape variability and to decipher the role of the morphology of these pieces in relation to function; for instance, geometric morphometric analyses have recently been applied with successful results. This paper presents a study of this type of analysis on 37 convergent tools from level Ga of Payre site (France), dated to MIS 8-7. These pieces are non-standardized knapping products produced by discoidal and orthogonal core technologies. Moreover, macro-wear studies attest to various activities on diverse materials with no evidence of hafting or projectile use. The aim of this paper is to test the geometric morphometric approach on non-standardized artefacts applying the Elliptical Fourier analysis (EFA) to 3D contours and to assess the potential relationship between size and shape, technology and function. This study is innovative in that it is the first time that this method, considered to be a valuable complement for describing technological and functional attributes, is applied to 3D contours of lithic products. Our results show that this methodology ensures a very good degree of accuracy in describing shape variations of the sharp edges of technologically non-standardized convergent tools. EFA on 3D contours indicates variations in deviations of the outline along the third dimension (i.e., dorso-ventrally) and yields quantitative and insightful information on the actual shape variations of tools. Several statistically significant relationships are found between shape variation and use-wear attributes, though the results emphasize the large variability of the shape of the convergent tools, which, in general, does not show a strong direct association with technological features and function. This is in good agreement with the technological context of this chronological period, characterized by a wide diversity of non-standardized tools adapted to multipurpose functions for varied subsistence activities.

Geometric morphometric analysis of Colombian Anopheles albimanus (Diptera: Culicidae) reveals significant effect of environmental factors on wing traits and presence of a metapopulation

PubMed Central

Gómez, Giovan F.; Márquez, Edna J.; Gutiérrez, Lina A.; Conn, Jan E.; Correa, Margarita M.

2015-01-01

Anopheles albimanus is a major malaria mosquito vector in Colombia. In the present study, wing variability (size and shape) in An. albimanus populations from Colombian Maracaibo and Chocó bio-geographical eco-regions and the relationship of these phenotypic traits with environmental factors were evaluated. Microsatellite and morphometric data facilitated a comparison of the genetic and phenetic structure of this species. Wing size was influenced by elevation and relative humidity, whereas wing shape was affected by these two variables and also by rainfall, latitude, temperature and eco-region. Significant differences in mean shape between populations and eco-regions were detected, but they were smaller than those at the intra-population level. Correct assignment based on wing shape was low at the population level (<58%) and only slightly higher (>70%) at the eco-regional level, supporting the low population structure inferred from microsatellite data. Wing size was similar among populations with no significant differences between eco-regions. Population relationships in the genetic tree did not agree with those from the morphometric data; however, both datasets consistently reinforced a panmictic population of An. albimanus. Overall, site-specific population differentiation is not strongly supported by wing traits or genotypic data. We hypothesize that the metapopulation structure of An. albimanus throughout these Colombian eco-regions is favoring plasticity in wing traits, a relevant characteristic of species living under variable environmental conditions and colonizing new habitats. PMID:24704285

Creation of a virtual cutaneous tissue bank

NASA Astrophysics Data System (ADS)

LaFramboise, William A.; Shah, Sujal; Hoy, R. W.; Letbetter, D.; Petrosko, P.; Vennare, R.; Johnson, Peter C.

2000-04-01

Cellular and non-cellular constituents of skin contain fundamental morphometric features and structural patterns that correlate with tissue function. High resolution digital image acquisitions performed using an automated system and proprietary software to assemble adjacent images and create a contiguous, lossless, digital representation of individual microscope slide specimens. Serial extraction, evaluation and statistical analysis of cutaneous feature is performed utilizing an automated analysis system, to derive normal cutaneous parameters comprising essential structural skin components. Automated digital cutaneous analysis allows for fast extraction of microanatomic dat with accuracy approximating manual measurement. The process provides rapid assessment of feature both within individual specimens and across sample populations. The images, component data, and statistical analysis comprise a bioinformatics database to serve as an architectural blueprint for skin tissue engineering and as a diagnostic standard of comparison for pathologic specimens.

Combining morphometric features and convolutional networks fusion for glaucoma diagnosis

NASA Astrophysics Data System (ADS)

Perdomo, Oscar; Arevalo, John; González, Fabio A.

2017-11-01

Glaucoma is an eye condition that leads to loss of vision and blindness. Ophthalmoscopy exam evaluates the shape, color and proportion between the optic disc and physiologic cup, but the lack of agreement among experts is still the main diagnosis problem. The application of deep convolutional neural networks combined with automatic extraction of features such as: the cup-to-disc distance in the four quadrants, the perimeter, area, eccentricity, the major radio, the minor radio in optic disc and cup, in addition to all the ratios among the previous parameters may help with a better automatic grading of glaucoma. This paper presents a strategy to merge morphological features and deep convolutional neural networks as a novel methodology to support the glaucoma diagnosis in eye fundus images.

Long-term penile morphometric alterations in patients treated with robot-assisted versus open radical prostatectomy.

PubMed

Capogrosso, P; Ventimiglia, E; Cazzaniga, W; Stabile, A; Pederzoli, F; Boeri, L; Gandaglia, G; Dehò, F; Briganti, A; Montorsi, F; Salonia, A

2018-01-01

Neglected side effects after radical prostatectomy have been previously reported. In this context, the prevalence of penile morphometric alterations has never been assessed in robot-assisted radical prostatectomy series. We aimed to assess prevalence of and predictors of penile morphometric alterations (i.e. penile shortening or penile morphometric deformation) at long-term follow-up in patients submitted to either robot-assisted (robot-assisted radical prostatectomy) or open radical prostatectomy. Sexually active patients after either robot-assisted radical prostatectomy or open radical prostatectomy prospectively completed a 28-item questionnaire, with sensitive issues regarding sexual function, namely orgasmic functioning, climacturia and changes in morphometric characteristics of the penis. Only patients with a post-operative follow-up ≥ 24 months were included. Patients submitted to either adjuvant or salvage therapies or those who refused to comprehensively complete the questionnaire were excluded from the analyses. A propensity-score matching analysis was implemented to control for baseline differences between groups. Logistic regression models tested potential predictors of penile morphometric alterations at long-term post-operative follow-up. Overall, 67 (50%) and 67 (50%) patients were included after open radical prostatectomy or robot-assisted radical prostatectomy, respectively. Self-rated post-operative penile shortening and penile morphometric deformation were reported by 75 (56%) and 29 (22.8%) patients, respectively. Rates of penile shortening and penile morphometric deformation were not different after open radical prostatectomy and robot-assisted radical prostatectomy [all p > 0.5]. At univariable analysis, self-reported penile morphometric alterations (either penile shortening or penile morphometric deformation) were significantly associated with baseline international index of erectile function-erectile function scores, body mass index, post-operative erectile function recovery, year of surgery and type of surgery (all p < 0.05). At multivariable analysis, robot-assisted radical prostatectomy was independently associated with a lower risk of post-operative penile morphometric alterations (OR: 0.38; 95% CI: 0.16-0.93). Self-perceived penile morphometric alterations were reported in one of two patients after radical prostatectomy at long-term follow-up, with open surgery associated with a potential higher risk of this self-perception. © 2017 American Society of Andrology and European Academy of Andrology.

Towards a system level understanding of non-model organisms sampled from the environment: a network biology approach.

PubMed

Williams, Tim D; Turan, Nil; Diab, Amer M; Wu, Huifeng; Mackenzie, Carolynn; Bartie, Katie L; Hrydziuszko, Olga; Lyons, Brett P; Stentiford, Grant D; Herbert, John M; Abraham, Joseph K; Katsiadaki, Ioanna; Leaver, Michael J; Taggart, John B; George, Stephen G; Viant, Mark R; Chipman, Kevin J; Falciani, Francesco

2011-08-01

The acquisition and analysis of datasets including multi-level omics and physiology from non-model species, sampled from field populations, is a formidable challenge, which so far has prevented the application of systems biology approaches. If successful, these could contribute enormously to improving our understanding of how populations of living organisms adapt to environmental stressors relating to, for example, pollution and climate. Here we describe the first application of a network inference approach integrating transcriptional, metabolic and phenotypic information representative of wild populations of the European flounder fish, sampled at seven estuarine locations in northern Europe with different degrees and profiles of chemical contaminants. We identified network modules, whose activity was predictive of environmental exposure and represented a link between molecular and morphometric indices. These sub-networks represented both known and candidate novel adverse outcome pathways representative of several aspects of human liver pathophysiology such as liver hyperplasia, fibrosis, and hepatocellular carcinoma. At the molecular level these pathways were linked to TNF alpha, TGF beta, PDGF, AGT and VEGF signalling. More generally, this pioneering study has important implications as it can be applied to model molecular mechanisms of compensatory adaptation to a wide range of scenarios in wild populations.

Towards a System Level Understanding of Non-Model Organisms Sampled from the Environment: A Network Biology Approach

PubMed Central

Williams, Tim D.; Turan, Nil; Diab, Amer M.; Wu, Huifeng; Mackenzie, Carolynn; Bartie, Katie L.; Hrydziuszko, Olga; Lyons, Brett P.; Stentiford, Grant D.; Herbert, John M.; Abraham, Joseph K.; Katsiadaki, Ioanna; Leaver, Michael J.; Taggart, John B.; George, Stephen G.; Viant, Mark R.; Chipman, Kevin J.; Falciani, Francesco

2011-01-01

The acquisition and analysis of datasets including multi-level omics and physiology from non-model species, sampled from field populations, is a formidable challenge, which so far has prevented the application of systems biology approaches. If successful, these could contribute enormously to improving our understanding of how populations of living organisms adapt to environmental stressors relating to, for example, pollution and climate. Here we describe the first application of a network inference approach integrating transcriptional, metabolic and phenotypic information representative of wild populations of the European flounder fish, sampled at seven estuarine locations in northern Europe with different degrees and profiles of chemical contaminants. We identified network modules, whose activity was predictive of environmental exposure and represented a link between molecular and morphometric indices. These sub-networks represented both known and candidate novel adverse outcome pathways representative of several aspects of human liver pathophysiology such as liver hyperplasia, fibrosis, and hepatocellular carcinoma. At the molecular level these pathways were linked to TNF alpha, TGF beta, PDGF, AGT and VEGF signalling. More generally, this pioneering study has important implications as it can be applied to model molecular mechanisms of compensatory adaptation to a wide range of scenarios in wild populations. PMID:21901081

EP Profiles Inventor Mark Sherron

ERIC Educational Resources Information Center

Williams, John M.

2006-01-01

This article profiles Mark Jerome Sherron, inventor of the ALLIES Line of electronic sensors for blind and visually-impaired people. Featuring the American Liquid Level Indicator electronic sensor (ALLI), Sherron's ALLIES product line also includes the Light Intensity Level Indicator (LILI), a multi-function electronic light sensor for electronic…

Identification of Novel Pro-Migratory, Cancer-Associated Genes Using Quantitative, Microscopy-Based Screening

PubMed Central

Naffar-Abu-Amara, Suha; Shay, Tal; Galun, Meirav; Cohen, Naomi; Isakoff, Steven J.; Kam, Zvi; Geiger, Benjamin

2008-01-01

Background Cell migration is a highly complex process, regulated by multiple genes, signaling pathways and external stimuli. To discover genes or pharmacological agents that can modulate the migratory activity of cells, screening strategies that enable the monitoring of diverse migratory parameters in a large number of samples are necessary. Methodology In the present study, we describe the development of a quantitative, high-throughput cell migration assay, based on a modified phagokinetic tracks (PKT) procedure, and apply it for identifying novel pro-migratory genes in a cancer-related gene library. In brief, cells are seeded on fibronectin-coated 96-well plates, covered with a monolayer of carboxylated latex beads. Motile cells clear the beads, located along their migratory paths, forming tracks that are visualized using an automated, transmitted-light screening microscope. The tracks are then segmented and characterized by multi-parametric, morphometric analysis, resolving a variety of morphological and kinetic features. Conclusions In this screen we identified 4 novel genes derived from breast carcinoma related cDNA library, whose over-expression induces major alteration in the migration of the stationary MCF7 cells. This approach can serve for high throughput screening for novel ways to modulate cellular migration in pathological states such as tumor metastasis and invasion. PMID:18213366

Qudit hypergraph states and their properties

NASA Astrophysics Data System (ADS)

Xiong, Fei-Lei; Zhen, Yi-Zheng; Cao, Wen-Fei; Chen, Kai; Chen, Zeng-Bing

2018-01-01

Hypergraph states, a generalization of graph states, constitute a large class of quantum states with intriguing nonlocal properties, and they have promising applications in quantum information science and technology. In this paper, we study some features of an independently proposed generalization of hypergraph states to qudit hypergraph states, i.e., each vertex in the generalized hypergraph (multi-hypergraph) represents a d -level system instead of a two-level one. It is shown that multi-hypergraphs and d -level hypergraph states have a one-to-one correspondence, and the structure of a multi-hypergraph exhibits the entanglement property of the corresponding quantum state. We discuss their relationship with some well-known state classes, e.g., real equally weighted states and stabilizer states. The Bell nonlocality, an important resource in fulfilling many quantum information tasks, is also investigated.

Large Margin Multi-Modal Multi-Task Feature Extraction for Image Classification.

PubMed

Yong Luo; Yonggang Wen; Dacheng Tao; Jie Gui; Chao Xu

2016-01-01

The features used in many image analysis-based applications are frequently of very high dimension. Feature extraction offers several advantages in high-dimensional cases, and many recent studies have used multi-task feature extraction approaches, which often outperform single-task feature extraction approaches. However, most of these methods are limited in that they only consider data represented by a single type of feature, even though features usually represent images from multiple modalities. We, therefore, propose a novel large margin multi-modal multi-task feature extraction (LM3FE) framework for handling multi-modal features for image classification. In particular, LM3FE simultaneously learns the feature extraction matrix for each modality and the modality combination coefficients. In this way, LM3FE not only handles correlated and noisy features, but also utilizes the complementarity of different modalities to further help reduce feature redundancy in each modality. The large margin principle employed also helps to extract strongly predictive features, so that they are more suitable for prediction (e.g., classification). An alternating algorithm is developed for problem optimization, and each subproblem can be efficiently solved. Experiments on two challenging real-world image data sets demonstrate the effectiveness and superiority of the proposed method.

Choice matters: incipient speciation in Gyrodactylus corydori (Monogenoidea: Gyrodactylidae).

PubMed

Bueno-Silva, Marlus; Boeger, Walter A; Pie, Marcio R

2011-05-01

We investigated how Gyrodactylus corydoriBueno-Silva and Boeger, 2009 exploits two sympatric host species, Corydoras paleatus (Jenyns, 1842) and Corydoras ehrhardti Steindachner, 1910. Specimens of G. corydori were collected from the Piraquara and Miringuava Rivers, State of Paraná, Brazil, between 2005 and 2006. A total of 167 parasites was measured from both host species. Nine morphometric features of the haptoral sclerites were measured and analyzed by discriminant analysis, cluster analysis and multivariate analysis of variance. A fragment of the mitochondrial cytochrome oxidase I gene (COI) (∼740 bp) and the rDNA internal transcribed spacers (ITS) (∼1200 bp) of G. corydori were sequenced. Bayesian and parsimony analyses of COI recognized two genetically structured clades of G. corydori, which corresponded closely with the two species of Corydoras. Twenty-eight haplotypes were detected (18 were exclusive to C. ehrhardti and seven were exclusive to C. paleatus). The same general pattern between parasites and host species was observed in the morphometric analyses. Nevertheless, poor correlation of genetic and morphometric variation strongly supports the plastic nature of the morphological variation of haptoral sclerites. The existence of two clades with limited gene flow would suggest that G. corydori already represents two cryptic species. However, the morphometric and molecular data showed that there is insufficient evidence to support two valid species. The low COI (0.1-6.2%) and ITS (0.09-3.5%) divergence within G. corydori suggest a recent separation of the lineages between distinct host species (less than 1 million years). As the hypothesis of secondary contact of the parasite demographic history was rejected, our results point to the possibility of sympatric incipient ongoing speciation of G. corydori to form distinct parasite lineages adapted to C. ehrhardti and C. paleatus. This may be a common event within the Gyrodactylidae, adding a yet unreported mode of adaptive speciation that helps to understand its rate of diversification. Copyright © 2011 Australian Society for Parasitology Inc. Published by Elsevier Ltd. All rights reserved.

Computer-assisted sperm morphometry fluorescence-based analysis has potential to determine progeny sex.

PubMed

Santolaria, Pilar; Pauciullo, Alfredo; Silvestre, Miguel A; Vicente-Fiel, Sandra; Villanova, Leyre; Pinton, Alain; Viruel, Juan; Sales, Ester; Yániz, Jesús L

2016-01-01

This study was designed to determine the ability of computer-assisted sperm morphometry analysis (CASA-Morph) with fluorescence to discriminate between spermatozoa carrying different sex chromosomes from the nuclear morphometrics generated and different statistical procedures in the bovine species. The study was divided into two experiments. The first was to study the morphometric differences between X- and Y-chromosome-bearing spermatozoa (SX and SY, respectively). Spermatozoa from eight bulls were processed to assess simultaneously the sex chromosome by FISH and sperm morphometry by fluorescence-based CASA-Morph. SX cells were larger than SY cells on average (P < 0.001) although with important differences between bulls. A simultaneous evaluation of all the measured features by discriminant analysis revealed that nuclear area and average fluorescence intensity were the variables selected by stepwise discriminant function analysis as the best discriminators between SX and SY. In the second experiment, the sperm nuclear morphometric results from CASA-Morph in nonsexed (mixed SX and SY) and sexed (SX) semen samples from four bulls were compared. FISH allowed a successful classification of spermatozoa according to their sex chromosome content. X-sexed spermatozoa displayed a larger size and fluorescence intensity than nonsexed spermatozoa (P < 0.05). We conclude that the CASA-Morph fluorescence-based method has the potential to find differences between X- and Y-chromosome-bearing spermatozoa in bovine species although more studies are needed to increase the precision of sex determination by this technique.

Morphological and morphometric features of nematode-cysts in Gymnotus inaequilabiatus liver in the Brazilian Pantanal.

PubMed

Galindo, Gizela Melina; Rodrigues, Robson Andrade; Marcondes, Sandriely Fernanda; Soares, Priscilla; Tavares, Luiz Eduardo Roland; Fernandes, Carlos Eurico

2017-01-01

The aim of this study was to determine the morphometric measures and morphological aspects of nematode-cysts in Gymnotus inaequilabiatus, and the presence of melanomacrophage centers (MMCs) associated with the periphery of cysts and in the liver parenchyma. Adult specimens, 34 female (123.1 ± 43.9g) and 45 male (135.5 ± 43.4g), from Paraguay River, Corumbá, Brazil, were used. The number of nematode-cysts was determined in 79 livers and 25 of them randomly selected for histopathological analysis and morphometric measures of nematode-cysts (mean diameter, thickness of collagen layer, and cyst-wall layer). The percentage of cysts with MMCs on the periphery and density in the liver parenchyma was estimated. The average number of macroscopic cysts was of 48.7 ± 2.78. Granulomatous reaction was observed surrounding the cysts. Diameter, collagen layer and cyst-wall measurements were 293.0 ± 75.18 (µm), 17.72 ± 6.01 (µm) and 12.21 ± 9.51 (µm), respectively. The number of nematode-cysts was correlated with hepatosomatic index, (r=0.26, P<0.05). Collagen layer was correlated with cyst diameter (r=0.62, P<0.01). Pericystic and parenchymatous MMCs were moderately (r=0.48) and highly (r=0.90) correlated with nematode-cysts number. Morphological characteristics of hepatic tissue and cysts-nematodes measures suggest that G. inaequilabiatus acts as a paratenic host to nematodes in the larval stage.

Geometric morphometric footprint analysis of young women

PubMed Central

2013-01-01

Background Most published attempts to quantify footprint shape are based on a small number of measurements. We applied geometric morphometric methods to study shape variation of the complete footprint outline in a sample of 83 adult women. Methods The outline of the footprint, including the toes, was represented by a comprehensive set of 85 landmarks and semilandmarks. Shape coordinates were computed by Generalized Procrustes Analysis. Results The first four principal components represented the major axes of variation in foot morphology: low-arched versus high-arched feet, long and narrow versus short and wide feet, the relative length of the hallux, and the relative length of the forefoot. These shape features varied across the measured individuals without any distinct clusters or discrete types of footprint shape. A high body mass index (BMI) was associated with wide and flat feet, and a high frequency of wearing high-heeled shoes was associated with a larger forefoot area of the footprint and a relatively long hallux. Larger feet had an increased length-to-width ratio of the footprint, a lower-arched foot, and longer toes relative to the remaining foot. Footprint shape differed on average between left and right feet, and the variability of footprint asymmetry increased with BMI. Conclusions Foot shape is affected by lifestyle factors even in a sample of young women (median age 23 years). Geometric morphometrics proved to be a powerful tool for the detailed analysis of footprint shape that is applicable in various scientific disciplines, including forensics, orthopedics, and footwear design. PMID:23886074

Arabidopsis phenotyping through Geometric Morphometrics.

PubMed

Manacorda, Carlos A; Asurmendi, Sebastian

2018-06-18

Recently, much technical progress was achieved in the field of plant phenotyping. High-throughput platforms and the development of improved algorithms for rosette image segmentation make it now possible to extract shape and size parameters for genetic, physiological and environmental studies on a large scale. The development of low-cost phenotyping platforms and freeware resources make it possible to widely expand phenotypic analysis tools for Arabidopsis. However, objective descriptors of shape parameters that could be used independently of platform and segmentation software used are still lacking and shape descriptions still rely on ad hoc or even sometimes contradictory descriptors, which could make comparisons difficult and perhaps inaccurate. Modern geometric morphometrics is a family of methods in quantitative biology proposed to be the main source of data and analytical tools in the emerging field of phenomics studies. Based on the location of landmarks (corresponding points) over imaged specimens and by combining geometry, multivariate analysis and powerful statistical techniques, these tools offer the possibility to reproducibly and accurately account for shape variations amongst groups and measure them in shape distance units. Here, a particular scheme of landmarks placement on Arabidopsis rosette images is proposed to study shape variation in the case of viral infection processes. Shape differences between controls and infected plants are quantified throughout the infectious process and visualized. Quantitative comparisons between two unrelated ssRNA+ viruses are shown and reproducibility issues are assessed. Combined with the newest automated platforms and plant segmentation procedures, geometric morphometric tools could boost phenotypic features extraction and processing in an objective, reproducible manner.

BMI and WHR Are Reflected in Female Facial Shape and Texture: A Geometric Morphometric Image Analysis.

PubMed

Mayer, Christine; Windhager, Sonja; Schaefer, Katrin; Mitteroecker, Philipp

2017-01-01

Facial markers of body composition are frequently studied in evolutionary psychology and are important in computational and forensic face recognition. We assessed the association of body mass index (BMI) and waist-to-hip ratio (WHR) with facial shape and texture (color pattern) in a sample of young Middle European women by a combination of geometric morphometrics and image analysis. Faces of women with high BMI had a wider and rounder facial outline relative to the size of the eyes and lips, and relatively lower eyebrows. Furthermore, women with high BMI had a brighter and more reddish skin color than women with lower BMI. The same facial features were associated with WHR, even though BMI and WHR were only moderately correlated. Yet BMI was better predictable than WHR from facial attributes. After leave-one-out cross-validation, we were able to predict 25% of variation in BMI and 10% of variation in WHR by facial shape. Facial texture predicted only about 3-10% of variation in BMI and WHR. This indicates that facial shape primarily reflects total fat proportion, rather than the distribution of fat within the body. The association of reddish facial texture in high-BMI women may be mediated by increased blood pressure and superficial blood flow as well as diet. Our study elucidates how geometric morphometric image analysis serves to quantify the effect of biological factors such as BMI and WHR to facial shape and color, which in turn contributes to social perception.

Defect detection of helical gears based on time-frequency analysis and using multi-layer fusion network

NASA Astrophysics Data System (ADS)

Ebrahimi Orimi, H.; Esmaeili, M.; Refahi Oskouei, A.; Mirhadizadehd, S. A.; Tse, P. W.

2017-10-01

Condition monitoring of rotary devices such as helical gears is an issue of great significance in industrial projects. This paper introduces a feature extraction method for gear fault diagnosis using wavelet packet due to its higher frequency resolution. During this investigation, the mother wavelet Daubechies 10 (Db-10) was applied to calculate the coefficient entropy of each frequency band of 5th level (32 frequency bands) as features. In this study, the peak value of the signal entropies was selected as applicable features in order to improve frequency band differentiation and reduce feature vectors' dimension. Feature extraction is followed by the fusion network where four different structured multi-layer perceptron networks are trained to classify the recorded signals (healthy/faulty). The robustness of fusion network outputs is greater compared to perceptron networks. The results provided by the fusion network indicate a classification of 98.88 and 97.95% for healthy and faulty classes, respectively.

GIS based quantitative morphometric analysis and its consequences: a case study from Shanur River Basin, Maharashtra India

NASA Astrophysics Data System (ADS)

Pande, Chaitanya B.; Moharir, Kanak

2017-05-01

A morphometric analysis of Shanur basin has been carried out using geoprocessing techniques in GIS. These techniques are found relevant for the extraction of river basin and its drainage networks. The extracted drainage network was classified according to Strahler's system of classification and it reveals that the terrain exhibits dendritic to sub-dendritic drainage pattern. Hence, from the study, it is concluded that remote sensing data (SRTM-DEM data of 30 m resolution) coupled with geoprocessing techniques prove to be a competent tool used in morphometric analysis and evaluation of linear, slope, areal and relief aspects of morphometric parameters. The combined outcomes have established the topographical and even recent developmental situations in basin. It will also change the setup of the region. It therefore needs to analyze high level parameters of drainage and environment for suitable planning and management of water resource developmental plan and land resource development plan. The Shanur drainage basin is sprawled over an area of 281.33 km2. The slope of the basin varies from 1 to 10 %, and the slope variation is chiefly controlled by the local geology and erosion cycles. The main stream length ratio of the basin is 14.92 indicating that the study area is elongated with moderate relief and steep slopes. The morphometric parameters of the stream have been analyzed and calculated by applying standard methods and techniques viz. Horton (Trans Am Geophys Union 13:350-361, 1945), Miller (A quantitative geomorphologic study of drainage basin characteristics in the clinch mountain area, Virginia and Tennessee Columbia University, Department of Geology, Technical Report, No. 3, Contract N6 ONR 271-300, 1953), and Strahler (Handbook of applied hydrology, McGraw Hill Book Company, New York, 1964). GIS based on analysis of all morphometric parameters and the erosional development of the area by the streams has been progressed well beyond maturity and lithology is an influence in the drainage development. These studies are very useful for planning of rainwater harvesting and watershed management.

Morphometricity as a measure of the neuroanatomical signature of a trait.

PubMed

Sabuncu, Mert R; Ge, Tian; Holmes, Avram J; Smoller, Jordan W; Buckner, Randy L; Fischl, Bruce

2016-09-27

Complex physiological and behavioral traits, including neurological and psychiatric disorders, often associate with distributed anatomical variation. This paper introduces a global metric, called morphometricity, as a measure of the anatomical signature of different traits. Morphometricity is defined as the proportion of phenotypic variation that can be explained by macroscopic brain morphology. We estimate morphometricity via a linear mixed-effects model that uses an anatomical similarity matrix computed based on measurements derived from structural brain MRI scans. We examined over 3,800 unique MRI scans from nine large-scale studies to estimate the morphometricity of a range of phenotypes, including clinical diagnoses such as Alzheimer's disease, and nonclinical traits such as measures of cognition. Our results demonstrate that morphometricity can provide novel insights about the neuroanatomical correlates of a diverse set of traits, revealing associations that might not be detectable through traditional statistical techniques.

Morphometricity as a measure of the neuroanatomical signature of a trait

PubMed Central

Sabuncu, Mert R.; Ge, Tian; Holmes, Avram J.; Smoller, Jordan W.; Buckner, Randy L.; Fischl, Bruce

2016-01-01

Complex physiological and behavioral traits, including neurological and psychiatric disorders, often associate with distributed anatomical variation. This paper introduces a global metric, called morphometricity, as a measure of the anatomical signature of different traits. Morphometricity is defined as the proportion of phenotypic variation that can be explained by macroscopic brain morphology. We estimate morphometricity via a linear mixed-effects model that uses an anatomical similarity matrix computed based on measurements derived from structural brain MRI scans. We examined over 3,800 unique MRI scans from nine large-scale studies to estimate the morphometricity of a range of phenotypes, including clinical diagnoses such as Alzheimer’s disease, and nonclinical traits such as measures of cognition. Our results demonstrate that morphometricity can provide novel insights about the neuroanatomical correlates of a diverse set of traits, revealing associations that might not be detectable through traditional statistical techniques. PMID:27613854

A Self-Adaptive Dynamic Recognition Model for Fatigue Driving Based on Multi-Source Information and Two Levels of Fusion

PubMed Central

Sun, Wei; Zhang, Xiaorui; Peeta, Srinivas; He, Xiaozheng; Li, Yongfu; Zhu, Senlai

2015-01-01

To improve the effectiveness and robustness of fatigue driving recognition, a self-adaptive dynamic recognition model is proposed that incorporates information from multiple sources and involves two sequential levels of fusion, constructed at the feature level and the decision level. Compared with existing models, the proposed model introduces a dynamic basic probability assignment (BPA) to the decision-level fusion such that the weight of each feature source can change dynamically with the real-time fatigue feature measurements. Further, the proposed model can combine the fatigue state at the previous time step in the decision-level fusion to improve the robustness of the fatigue driving recognition. An improved correction strategy of the BPA is also proposed to accommodate the decision conflict caused by external disturbances. Results from field experiments demonstrate that the effectiveness and robustness of the proposed model are better than those of models based on a single fatigue feature and/or single-source information fusion, especially when the most effective fatigue features are used in the proposed model. PMID:26393615

The tarsal-metatarsal complex of caviomorph rodents: Anatomy and functional-adaptive analysis.

PubMed

Candela, Adriana M; Muñoz, Nahuel A; García-Esponda, César M

2017-06-01

Caviomorph rodents represent a major adaptive radiation of Neotropical mammals. They occupy a variety of ecological niches, which is also reflected in their wide array of locomotor behaviors. It is expected that this radiation would be mirrored by an equivalent disparity of tarsal-metatarsal morphology. Here, the tarsal-metatarsal complex of Erethizontidae, Cuniculidae, Dasyproctidae, Caviidae, Chinchillidae, Octodontidae, Ctenomyidae, and Echimyidae was examined, in order to evaluate its anatomical variation and functional-adaptive relevance in relation to locomotor behaviors. A qualitative study in functional morphology and a geometric morphometric analysis were performed. We recognized two distinct tarsal-metatarsal patterns that represent the extremes of anatomical variation in the foot. The first, typically present in arboreal species, is characterized by features that facilitate movements at different levels of the tarsal-metatarsal complex. The second pattern, typically present in cursorial caviomorphs, has a set of features that act to stabilize the joints, improve the interlocking of the tarsal bones, and restrict movements to the parasagittal plane. The morphological disparity recognized in this study seems to result from specific locomotor adaptations to climb, dig, run, jump and swim, as well as phylogenetic effects within and among the groups studies. © 2017 Wiley Periodicals, Inc.

Quantitative Features of Liver Lesions, Lung Nodules, and Renal Stones at Multi-Detector Row CT Examinations: Dependency on Radiation Dose and Reconstruction Algorithm.

PubMed

Solomon, Justin; Mileto, Achille; Nelson, Rendon C; Roy Choudhury, Kingshuk; Samei, Ehsan

2016-04-01

To determine if radiation dose and reconstruction algorithm affect the computer-based extraction and analysis of quantitative imaging features in lung nodules, liver lesions, and renal stones at multi-detector row computed tomography (CT). Retrospective analysis of data from a prospective, multicenter, HIPAA-compliant, institutional review board-approved clinical trial was performed by extracting 23 quantitative imaging features (size, shape, attenuation, edge sharpness, pixel value distribution, and texture) of lesions on multi-detector row CT images of 20 adult patients (14 men, six women; mean age, 63 years; range, 38-72 years) referred for known or suspected focal liver lesions, lung nodules, or kidney stones. Data were acquired between September 2011 and April 2012. All multi-detector row CT scans were performed at two different radiation dose levels; images were reconstructed with filtered back projection, adaptive statistical iterative reconstruction, and model-based iterative reconstruction (MBIR) algorithms. A linear mixed-effects model was used to assess the effect of radiation dose and reconstruction algorithm on extracted features. Among the 23 imaging features assessed, radiation dose had a significant effect on five, three, and four of the features for liver lesions, lung nodules, and renal stones, respectively (P < .002 for all comparisons). Adaptive statistical iterative reconstruction had a significant effect on three, one, and one of the features for liver lesions, lung nodules, and renal stones, respectively (P < .002 for all comparisons). MBIR reconstruction had a significant effect on nine, 11, and 15 of the features for liver lesions, lung nodules, and renal stones, respectively (P < .002 for all comparisons). Of note, the measured size of lung nodules and renal stones with MBIR was significantly different than those for the other two algorithms (P < .002 for all comparisons). Although lesion texture was significantly affected by the reconstruction algorithm used (average of 3.33 features affected by MBIR throughout lesion types; P < .002, for all comparisons), no significant effect of the radiation dose setting was observed for all but one of the texture features (P = .002-.998). Radiation dose settings and reconstruction algorithms affect the extraction and analysis of quantitative imaging features in lesions at multi-detector row CT.

Graph-based Data Modeling and Analysis for Data Fusion in Remote Sensing

NASA Astrophysics Data System (ADS)

Fan, Lei

Hyperspectral imaging provides the capability of increased sensitivity and discrimination over traditional imaging methods by combining standard digital imaging with spectroscopic methods. For each individual pixel in a hyperspectral image (HSI), a continuous spectrum is sampled as the spectral reflectance/radiance signature to facilitate identification of ground cover and surface material. The abundant spectrum knowledge allows all available information from the data to be mined. The superior qualities within hyperspectral imaging allow wide applications such as mineral exploration, agriculture monitoring, and ecological surveillance, etc. The processing of massive high-dimensional HSI datasets is a challenge since many data processing techniques have a computational complexity that grows exponentially with the dimension. Besides, a HSI dataset may contain a limited number of degrees of freedom due to the high correlations between data points and among the spectra. On the other hand, merely taking advantage of the sampled spectrum of individual HSI data point may produce inaccurate results due to the mixed nature of raw HSI data, such as mixed pixels, optical interferences and etc. Fusion strategies are widely adopted in data processing to achieve better performance, especially in the field of classification and clustering. There are mainly three types of fusion strategies, namely low-level data fusion, intermediate-level feature fusion, and high-level decision fusion. Low-level data fusion combines multi-source data that is expected to be complementary or cooperative. Intermediate-level feature fusion aims at selection and combination of features to remove redundant information. Decision level fusion exploits a set of classifiers to provide more accurate results. The fusion strategies have wide applications including HSI data processing. With the fast development of multiple remote sensing modalities, e.g. Very High Resolution (VHR) optical sensors, LiDAR, etc., fusion of multi-source data can in principal produce more detailed information than each single source. On the other hand, besides the abundant spectral information contained in HSI data, features such as texture and shape may be employed to represent data points from a spatial perspective. Furthermore, feature fusion also includes the strategy of removing redundant and noisy features in the dataset. One of the major problems in machine learning and pattern recognition is to develop appropriate representations for complex nonlinear data. In HSI processing, a particular data point is usually described as a vector with coordinates corresponding to the intensities measured in the spectral bands. This vector representation permits the application of linear and nonlinear transformations with linear algebra to find an alternative representation of the data. More generally, HSI is multi-dimensional in nature and the vector representation may lose the contextual correlations. Tensor representation provides a more sophisticated modeling technique and a higher-order generalization to linear subspace analysis. In graph theory, data points can be generalized as nodes with connectivities measured from the proximity of a local neighborhood. The graph-based framework efficiently characterizes the relationships among the data and allows for convenient mathematical manipulation in many applications, such as data clustering, feature extraction, feature selection and data alignment. In this thesis, graph-based approaches applied in the field of multi-source feature and data fusion in remote sensing area are explored. We will mainly investigate the fusion of spatial, spectral and LiDAR information with linear and multilinear algebra under graph-based framework for data clustering and classification problems.

Method to fabricate multi-level silicon-based microstructures via use of an etching delay layer

DOEpatents

Manginell, Ronald P.; Schubert, W. Kent; Shul, Randy J.

2005-08-16

New methods for fabrication of silicon microstructures have been developed. In these methods, an etching delay layer is deposited and patterned so as to provide differential control on the depth of features being etched into a substrate material. Structures having features with different depth can be formed thereby in a single etching step.

What We Know About the Brain Structure-Function Relationship.

PubMed

Batista-García-Ramó, Karla; Fernández-Verdecia, Caridad Ivette

2018-04-18

How the human brain works is still a question, as is its implication with brain architecture: the non-trivial structure–function relationship. The main hypothesis is that the anatomic architecture conditions, but does not determine, the neural network dynamic. The functional connectivity cannot be explained only considering the anatomical substrate. This involves complex and controversial aspects of the neuroscience field and that the methods and methodologies to obtain structural and functional connectivity are not always rigorously applied. The goal of the present article is to discuss about the progress made to elucidate the structure–function relationship of the Central Nervous System, particularly at the brain level, based on results from human and animal studies. The current novel systems and neuroimaging techniques with high resolutive physio-structural capacity have brought about the development of an integral framework of different structural and morphometric tools such as image processing, computational modeling and graph theory. Different laboratories have contributed with in vivo, in vitro and computational/mathematical models to study the intrinsic neural activity patterns based on anatomical connections. We conclude that multi-modal techniques of neuroimaging are required such as an improvement on methodologies for obtaining structural and functional connectivity. Even though simulations of the intrinsic neural activity based on anatomical connectivity can reproduce much of the observed patterns of empirical functional connectivity, future models should be multifactorial to elucidate multi-scale relationships and to infer disorder mechanisms.

Measuring body composition in dogs using multifrequency bioelectrical impedance analysis and dual energy X-ray absorptiometry.

PubMed

Rae, L S; Vankan, D M; Rand, J S; Flickinger, E A; Ward, L C

2016-06-01

Thirty-five healthy, neutered, mixed breed dogs were used to determine the ability of multifrequency bioelectrical impedance analysis (MFBIA) to predict accurately fat-free mass (FFM) in dogs using dual energy X-ray absorptiometry (DXA)-measured FFM as reference. A second aim was to compare MFBIA predictions with morphometric predictions. MFBIA-based predictors provided an accurate measure of FFM, within 1.5% when compared to DXA-derived FFM, in normal weight dogs. FFM estimates were most highly correlated with DXA-measured FFM when the prediction equation included resistance quotient, bodyweight, and body condition score. At the population level, the inclusion of impedance as a predictor variable did not add substantially to the predictive power achieved with morphometric variables alone; in individual dogs, impedance predictors were more valuable than morphometric predictors. These results indicate that, following further validation, MFBIA could provide a useful tool in clinical practice to objectively measure FFM in canine patients and help improve compliance with prevention and treatment programs for obesity in dogs. Copyright © 2016. Published by Elsevier Ltd.

[Automated morphometric evaluation of the chromatin structure of liver cell nuclei after vagotomy].

PubMed

Butusova, N N; Zhukotskiĭ, A V; Sherbo, I V; Gribkov, E N; Dubovaia, T K

1989-05-01

The morphometric analysis of the interphase chromatine structure of the hepatic cells nuclei was carried out on the automated TV installation for the quantitative analysis of images "IBAS-2" (by the OPTON firm, the FRG) according to 50 optical and geometric parameters during various periods (1.2 and 4 weeks) after the vagotomy operation. It is determined that upper-molecular organisation of chromatine undergoes the biggest changes one week after operation, and changes of granular component are more informative than changes of the nongranular component (with the difference 15-20%). It was also revealed that chromatine components differ in tinctorial properties, which are evidently dependent on physicochemical characteristics of the chromatine under various functional conditions of the cell. As a result of the correlation analysis the group of morphometric indices of chromatine structure was revealed, which are highly correlated with level of transcription activity of chromatine during various terms after denervation. The correlation quotient of these parameters is 0.85-0.97. The summing up: vagus denervation of the liver causes changes in the morphofunctional organisation of the chromatine.

Persistent maritime surveillance using multi-sensor feature association and classification

NASA Astrophysics Data System (ADS)

van den Broek, Sebastiaan P.; Schwering, Piet B. W.; Liem, Kwan D.; Schleijpen, Ric

2012-06-01

In maritime operational scenarios, such as smuggling, piracy, or terrorist threats, it is not only relevant who or what an observed object is, but also where it is now and in the past in relation to other (geographical) objects. In situation and impact assessment, this information is used to determine whether an object is a threat. Single platform (ship, harbor) or single sensor information will not provide all this information. The work presented in this paper focuses on the sensor and object levels that provide a description of currently observed objects to situation assessment. For use of information of objects at higher information levels, it is necessary to have not only a good description of observed objects at this moment, but also from its past. Therefore, currently observed objects have to be linked to previous occurrences. Kinematic features, as used in tracking, are of limited use, as uncertainties over longer time intervals are so large that no unique associations can be made. Features extracted from different sensors (e.g., ESM, EO/IR) can be used for both association and classification. Features and classifications are used to associate current objects to previous object descriptions, allowing objects to be described better, and provide position history. In this paper a description of a high level architecture in which such a multi-sensor association is used is described. Results of an assessment of the usability of several features from ESM (from spectrum), EO and IR (shape, contour, keypoints) data for association and classification are shown.

Statistical fusion of continuous labels: identification of cardiac landmarks

NASA Astrophysics Data System (ADS)

Xing, Fangxu; Soleimanifard, Sahar; Prince, Jerry L.; Landman, Bennett A.

2011-03-01

Image labeling is an essential task for evaluating and analyzing morphometric features in medical imaging data. Labels can be obtained by either human interaction or automated segmentation algorithms. However, both approaches for labeling suffer from inevitable error due to noise and artifact in the acquired data. The Simultaneous Truth And Performance Level Estimation (STAPLE) algorithm was developed to combine multiple rater decisions and simultaneously estimate unobserved true labels as well as each rater's level of performance (i.e., reliability). A generalization of STAPLE for the case of continuous-valued labels has also been proposed. In this paper, we first show that with the proposed Gaussian distribution assumption, this continuous STAPLE formulation yields equivalent likelihoods for the bias parameter, meaning that the bias parameter-one of the key performance indices-is actually indeterminate. We resolve this ambiguity by augmenting the STAPLE expectation maximization formulation to include a priori probabilities on the performance level parameters, which enables simultaneous, meaningful estimation of both the rater bias and variance performance measures. We evaluate and demonstrate the efficacy of this approach in simulations and also through a human rater experiment involving the identification the intersection points of the right ventricle to the left ventricle in CINE cardiac data.

Statistical Fusion of Continuous Labels: Identification of Cardiac Landmarks.

PubMed

Xing, Fangxu; Soleimanifard, Sahar; Prince, Jerry L; Landman, Bennett A

2011-01-01

Image labeling is an essential task for evaluating and analyzing morphometric features in medical imaging data. Labels can be obtained by either human interaction or automated segmentation algorithms. However, both approaches for labeling suffer from inevitable error due to noise and artifact in the acquired data. The Simultaneous Truth And Performance Level Estimation (STAPLE) algorithm was developed to combine multiple rater decisions and simultaneously estimate unobserved true labels as well as each rater's level of performance (i.e., reliability). A generalization of STAPLE for the case of continuous-valued labels has also been proposed. In this paper, we first show that with the proposed Gaussian distribution assumption, this continuous STAPLE formulation yields equivalent likelihoods for the bias parameter, meaning that the bias parameter-one of the key performance indices-is actually indeterminate. We resolve this ambiguity by augmenting the STAPLE expectation maximization formulation to include a priori probabilities on the performance level parameters, which enables simultaneous, meaningful estimation of both the rater bias and variance performance measures. We evaluate and demonstrate the efficacy of this approach in simulations and also through a human rater experiment involving the identification the intersection points of the right ventricle to the left ventricle in CINE cardiac data.

Malignant Brenner tumor. A histologic, morphometrical, immunohistochemical, and ultrastructural study.

PubMed

Seldenrijk, C A; Willig, A P; Baak, J P; Kühnel, R; Rao, B R; Burger, C W; van der Harten, J J; Dijkhuizen, G H; Meijer, C J

1986-08-01

The histologic, morphometric, immunohistochemical, and ultrastructural study of a malignant Brenner tumor in a postmenopausal women presenting with vaginal bleeding is described. A comparison with transitional cell carcinomas is made, and the use of morphometry in grading the urothelial-like epithelium in malignant Brenner tumors is suggested. High preoperative urinary estrogen, low serum luteinizing hormone (LH) and follicle-stimulating hormone (FSH) levels and histologically confirmed atypical endometrial hyperplasia suggested a hyperestrogenism. The reduction in urinary estrogen and the increase in serum LH and FSH after tumor removal and the presence of aromatase activity detected in tumor microsomes confirmed that the tumor was synthesizing estrogen. Estrogen receptors were undetectable both by biochemical and histochemical analysis in the tumor.

Adaptive multi-GPU Exchange Monte Carlo for the 3D Random Field Ising Model

NASA Astrophysics Data System (ADS)

Navarro, Cristóbal A.; Huang, Wei; Deng, Youjin

2016-08-01

This work presents an adaptive multi-GPU Exchange Monte Carlo approach for the simulation of the 3D Random Field Ising Model (RFIM). The design is based on a two-level parallelization. The first level, spin-level parallelism, maps the parallel computation as optimal 3D thread-blocks that simulate blocks of spins in shared memory with minimal halo surface, assuming a constant block volume. The second level, replica-level parallelism, uses multi-GPU computation to handle the simulation of an ensemble of replicas. CUDA's concurrent kernel execution feature is used in order to fill the occupancy of each GPU with many replicas, providing a performance boost that is more notorious at the smallest values of L. In addition to the two-level parallel design, the work proposes an adaptive multi-GPU approach that dynamically builds a proper temperature set free of exchange bottlenecks. The strategy is based on mid-point insertions at the temperature gaps where the exchange rate is most compromised. The extra work generated by the insertions is balanced across the GPUs independently of where the mid-point insertions were performed. Performance results show that spin-level performance is approximately two orders of magnitude faster than a single-core CPU version and one order of magnitude faster than a parallel multi-core CPU version running on 16-cores. Multi-GPU performance is highly convenient under a weak scaling setting, reaching up to 99 % efficiency as long as the number of GPUs and L increase together. The combination of the adaptive approach with the parallel multi-GPU design has extended our possibilities of simulation to sizes of L = 32 , 64 for a workstation with two GPUs. Sizes beyond L = 64 can eventually be studied using larger multi-GPU systems.

A desktop system of virtual morphometric globes for Mars and the Moon

NASA Astrophysics Data System (ADS)

Florinsky, I. V.; Filippov, S. V.

2017-03-01

Global morphometric models can be useful for earth and planetary studies. Virtual globes - programs implementing interactive three-dimensional (3D) models of planets - are increasingly used in geo- and planetary sciences. We describe the development of a desktop system of virtual morphometric globes for Mars and the Moon. As the initial data, we used 15'-gridded global digital elevation models (DEMs) extracted from the Mars Orbiter Laser Altimeter (MOLA) and the Lunar Orbiter Laser Altimeter (LOLA) gridded archives. For two celestial bodies, we derived global digital models of several morphometric attributes, such as horizontal curvature, vertical curvature, minimal curvature, maximal curvature, and catchment area. To develop the system, we used Blender, the free open-source software for 3D modeling and visualization. First, a 3D sphere model was generated. Second, the global morphometric maps were imposed to the sphere surface as textures. Finally, the real-time 3D graphics Blender engine was used to implement rotation and zooming of the globes. The testing of the developed system demonstrated its good performance. Morphometric globes clearly represent peculiarities of planetary topography, according to the physical and mathematical sense of a particular morphometric variable.

A morphometric analysis of the superior cervical ganglion and its surrounding structures.

PubMed

Fazliogullari, Zeliha; Kilic, Cenk; Karabulut, Ahmet Kagan; Yazar, Fatih

2016-04-01

The aim of this cadaveric study was to detect the superior cervical ganglion (SCG) in a topographic manner according to vertebrae and to determine the relationship between the vertebrae, mandibular angle and longus colli muscle through morphometric analysis. The present study was performed on 40 SCG of 20 human cadavers (16 males, 4 females). The level of the SCG was determined based on the vertebrae. Ganglion length, width and thickness were detected. Distance to the adjacent vertebra, the mandibular angle and medial side of the longus colli muscle were measured. The results were evaluated statistically. The SCG existing in all cadavers was detected at the C2 vertebra level in 34 cadavers and at the C3 vertebra level in 6 cadavers. The average length, width and thickness of the SCG were 15.18 ± 1.12, 4.62 ± 0.25, and 1.83 ± 0.10 mm, respectively. No statistically significant difference was detected in terms of the distances between the ganglion and anterior tubercle of transverse processes of the vertebrae as well as the mandibular angle on either side. The distance between the SCG and the medial edge of the longus colli muscle was significantly greater on the left side in both men (p < 0.001) and women (p < 0.01). Recognition of morphometric characteristics of the SCG and detection of its location according to adjacent formations may serve as a guide for nerve blockage studies and help surgeons to preserve the ganglion in both anterior and anterolateral cervical approaches.

Error in geometric morphometric data collection: Combining data from multiple sources.

PubMed

Robinson, Chris; Terhune, Claire E

2017-09-01

This study compares two- and three-dimensional morphometric data to determine the extent to which intra- and interobserver and intermethod error influence the outcomes of statistical analyses. Data were collected five times for each method and observer on 14 anthropoid crania using calipers, a MicroScribe, and 3D models created from NextEngine and microCT scans. ANOVA models were used to examine variance in the linear data at the level of genus, species, specimen, observer, method, and trial. Three-dimensional data were analyzed using geometric morphometric methods; principal components analysis was employed to examine how trials of all specimens were distributed in morphospace and Procrustes distances among trials were calculated and used to generate UPGMA trees to explore whether all trials of the same individual grouped together regardless of observer or method. Most variance in the linear data was at the genus level, with greater variance at the observer than method levels. In the 3D data, interobserver and intermethod error were similar to intraspecific distances among Callicebus cupreus individuals, with interobserver error being higher than intermethod error. Generally, taxa separate well in morphospace, with different trials of the same specimen typically grouping together. However, trials of individuals in the same species overlapped substantially with one another. Researchers should be cautious when compiling data from multiple methods and/or observers, especially if analyses are focused on intraspecific variation or closely related species, as in these cases, patterns among individuals may be obscured by interobserver and intermethod error. Conducting interobserver and intermethod reliability assessments prior to the collection of data is recommended. © 2017 Wiley Periodicals, Inc.

Matching of renewable source of energy generation graphs and electrical load in local energy system

NASA Astrophysics Data System (ADS)

Lezhniuk, Petro; Komar, Vyacheslav; Sobchuk, Dmytro; Kravchuk, Sergiy; Kacejko, Piotr; Zavidsky, Vladislav

2017-08-01

The paper contains the method of matching generation graph of photovoltaic electric stations and consumers. Characteristic feature of this method is the application of morphometric analysis for assessment of non-uniformity of the integrated graph of energy supply, optimal coefficients of current distribution, that enables by mean of refining the powers, transferring in accordance with the graph , to provide the decrease of electric energy losses in the grid and transport task, as the optimization tool.

The automated multi-stage substructuring system for NASTRAN

NASA Technical Reports Server (NTRS)

Field, E. I.; Herting, D. N.; Herendeen, D. L.; Hoesly, R. L.

1975-01-01

The substructuring capability developed for eventual installation in Level 16 is now operational in a test version of NASTRAN. Its features are summarized. These include the user-oriented, Case Control type control language, the automated multi-stage matrix processing, the independent direct access data storage facilities, and the static and normal modes solution capabilities. A complete problem analysis sequence is presented with card-by-card description of the user input.

Application and assessment of multiscale bending energy for morphometric characterization of neural cells

NASA Astrophysics Data System (ADS)

Cesar, Roberto Marcondes; Costa, Luciano da Fontoura

1997-05-01

The estimation of the curvature of experimentally obtained curves is an important issue in many applications of image analysis including biophysics, biology, particle physics, and high energy physics. However, the accurate calculation of the curvature of digital contours has proven to be a difficult endeavor, mainly because of the noise and distortions that are always present in sampled signals. Errors ranging from 1% to 1000% have been reported with respect to the application of standard techniques in the estimation of the curvature of circular contours [M. Worring and A. W. M. Smeulders, CVGIP: Im. Understanding, 58, 366 (1993)]. This article explains how diagrams of multiscale bending energy can be easily obtained from curvegrams and used as a robust general feature for morphometric characterization of neural cells. The bending energy is an interesting global feature for shape characterization that expresses the amount of energy needed to transform the specific shape under analysis into its lowest energy state (i.e., a circle). The curvegram, which can be accurately obtained by using digital signal processing techniques (more specifically through the Fourier transform and its inverse, as described in this work), provides multiscale representation of the curvature of digital contours. The estimation of the bending energy from the curvegram is introduced and exemplified with respect to a series of neural cells. The masked high curvature effect is reported and its implications to shape analysis are discussed. It is also discussed and illustrated that, by normalizing the multiscale bending energy with respect to a standard circle of unitary perimeter, this feature becomes an effective means for expressing shape complexity in a way that is invariant to rotation, translation, and scaling, and that is robust to noise and other artifacts implied by image acquisition.

A new method using multiphoton imaging and morphometric analysis for differentiating chromophobe renal cell carcinoma and oncocytoma kidney tumors

NASA Astrophysics Data System (ADS)

Wu, Binlin; Mukherjee, Sushmita; Jain, Manu

2016-03-01

Distinguishing chromophobe renal cell carcinoma (chRCC) from oncocytoma on hematoxylin and eosin images may be difficult and require time-consuming ancillary procedures. Multiphoton microscopy (MPM), an optical imaging modality, was used to rapidly generate sub-cellular histological resolution images from formalin-fixed unstained tissue sections from chRCC and oncocytoma.Tissues were excited using 780nm wavelength and emission signals (including second harmonic generation and autofluorescence) were collected in different channels between 390 nm and 650 nm. Granular structure in the cell cytoplasm was observed in both chRCC and oncocytoma. Quantitative morphometric analysis was conducted to distinguish chRCC and oncocytoma. To perform the analysis, cytoplasm and granules in tumor cells were segmented from the images. Their area and fluorescence intensity were found in different channels. Multiple features were measured to quantify the morphological and fluorescence properties. Linear support vector machine (SVM) was used for classification. Re-substitution validation, cross validation and receiver operating characteristic (ROC) curve were implemented to evaluate the efficacy of the SVM classifier. A wrapper feature algorithm was used to select the optimal features which provided the best predictive performance in separating the two tissue types (classes). Statistical measures such as sensitivity, specificity, accuracy and area under curve (AUC) of ROC were calculated to evaluate the efficacy of the classification. Over 80% accuracy was achieved as the predictive performance. This method, if validated on a larger and more diverse sample set, may serve as an automated rapid diagnostic tool to differentiate between chRCC and oncocytoma. An advantage of such automated methods are that they are free from investigator bias and variability.

The Value of Molecular vs. Morphometric and Acoustic Information for Species Identification Using Sympatric Molossid Bats

PubMed Central

Gager, Yann; Tarland, Emilia; Lieckfeldt, Dietmar; Ménage, Matthieu; Botero-Castro, Fidel; Rossiter, Stephen J.; Kraus, Robert H. S.; Ludwig, Arne; Dechmann, Dina K. N.

2016-01-01

A fundamental condition for any work with free-ranging animals is correct species identification. However, in case of bats, information on local species assemblies is frequently limited especially in regions with high biodiversity such as the Neotropics. The bat genus Molossus is a typical example of this, with morphologically similar species often occurring in sympatry. We used a multi-method approach based on molecular, morphometric and acoustic information collected from 962 individuals of Molossus bondae, M. coibensis, and M. molossus captured in Panama. We distinguished M. bondae based on size and pelage coloration. We identified two robust species clusters composed of M. molossus and M. coibensis based on 18 microsatellite markers but also on a more stringently determined set of four markers. Phylogenetic reconstructions using the mitochondrial gene co1 (DNA barcode) were used to diagnose these microsatellite clusters as M. molossus and M. coibensis. To differentiate species, morphological information was only reliable when forearm length and body mass were combined in a linear discriminant function (95.9% correctly identified individuals). When looking in more detail at M. molossus and M. coibensis, only four out of 13 wing parameters were informative for species differentiation, with M. coibensis showing lower values for hand wing area and hand wing length and higher values for wing loading. Acoustic recordings after release required categorization of calls into types, yielding only two informative subsets: approach calls and two-toned search calls. Our data emphasizes the importance of combining morphological traits and independent genetic data to inform the best choice and combination of discriminatory information used in the field. Because parameters can vary geographically, the multi-method approach may need to be adjusted to local species assemblies and populations to be entirely informative. PMID:26943355

Morphologic and seismic evidence of rapid submergence offshore Cide-Sinop in the southern Black Sea shelf

NASA Astrophysics Data System (ADS)

Ocakoğlu, Neslihan; İşcan, Yeliz; Kılıç, Fatmagül; Özel, Oğuz

2018-06-01

Multi-beam bathymetric and multi-channel seismic reflection data obtained offshore Cide-Sinop have revealed important records on the latest transgression of the Black Sea for the first time. A relatively large shelf plain within the narrow southern continental shelf characterized by a flat seafloor morphology at -100 water depth followed by a steep continental slope leading to -500 m depth. This area is widely covered by submerged morphological features such as dunes, lagoons, possible aeolianites, an eroded anticline and small channels that developed by aeolian and fluvial processes. These morphological features sit upon an erosional surface that truncates the top of all seismic units and constitutes the seafloor over the whole shelf. The recent prograded delta deposits around the shelf break are also truncated by the similar erosional surface. These results indicate that offshore Cide-Sinop was once a terrestrial landscape that was then submerged. The interpreted paleoshoreline varies from -100 to -120 m. This variation can be explained by not only sea level changes but also the active faults observed on the seismic section. The effective protection of morphological features on the seafloor is the evidence of abrupt submergence rather than gradual. In addition, the absence of coastal onlaps suggests that these morphological features should have developed at low sea level before the latest sea level rise in the Black Sea.

Subregional Shape Alterations in the Amygdala in Patients with Panic Disorder.

PubMed

Yoon, Sujung; Kim, Jieun E; Kim, Geon Ha; Kang, Hee Jin; Kim, Bori R; Jeon, Saerom; Im, Jooyeon Jamie; Hyun, Heejung; Moon, Sohyeon; Lim, Soo Mee; Lyoo, In Kyoon

2016-01-01

The amygdala has been known to play a pivotal role in mediating fear-related responses including panic attacks. Given the functionally distinct role of the amygdalar subregions, morphometric measurements of the amygdala may point to the pathophysiological mechanisms underlying panic disorder. The current study aimed to determine the global and local morphometric alterations of the amygdala related to panic disorder. Volumetric and surface-based morphometric approach to high-resolution three-dimensional T1-weighted images was used to examine the structural variations of the amygdala, with respect to extent and location, in 23 patients with panic disorder and 31 matched healthy individuals. There were no significant differences in bilateral amygdalar volumes between patients with panic disorder and healthy individuals despite a trend-level right amygdalar volume reduction related to panic disorder (right, β = -0.23, p = 0.09, Cohen's d = 0.51; left, β = -0.18, p = 0.19, Cohen's d = 0.45). Amygdalar subregions were localized into three groups including the superficial, centromedial, and laterobasal groups based on the cytoarchitectonically defined probability map. Surface-based morphometric analysis revealed shape alterations in the laterobasal and centromedial groups of the right amygdala in patients with panic disorder (false discovery rate corrected p < 0.05). The current findings suggest that subregion-specific shape alterations in the right amygdala may be involved in the development and maintenance of panic disorder, which may be attributed to the cause or effects of amygdalar hyperactivation.

Subregional Shape Alterations in the Amygdala in Patients with Panic Disorder

PubMed Central

Kim, Geon Ha; Kang, Hee Jin; Kim, Bori R.; Jeon, Saerom; Im, Jooyeon Jamie; Hyun, Heejung; Moon, Sohyeon; Lim, Soo Mee; Lyoo, In Kyoon

2016-01-01

Background The amygdala has been known to play a pivotal role in mediating fear-related responses including panic attacks. Given the functionally distinct role of the amygdalar subregions, morphometric measurements of the amygdala may point to the pathophysiological mechanisms underlying panic disorder. The current study aimed to determine the global and local morphometric alterations of the amygdala related to panic disorder. Methods Volumetric and surface-based morphometric approach to high-resolution three-dimensional T1-weighted images was used to examine the structural variations of the amygdala, with respect to extent and location, in 23 patients with panic disorder and 31 matched healthy individuals. Results There were no significant differences in bilateral amygdalar volumes between patients with panic disorder and healthy individuals despite a trend-level right amygdalar volume reduction related to panic disorder (right, β = -0.23, p = 0.09, Cohen's d = 0.51; left, β = -0.18, p = 0.19, Cohen's d = 0.45). Amygdalar subregions were localized into three groups including the superficial, centromedial, and laterobasal groups based on the cytoarchitectonically defined probability map. Surface-based morphometric analysis revealed shape alterations in the laterobasal and centromedial groups of the right amygdala in patients with panic disorder (false discovery rate corrected p < 0.05). Conclusions The current findings suggest that subregion-specific shape alterations in the right amygdala may be involved in the development and maintenance of panic disorder, which may be attributed to the cause or effects of amygdalar hyperactivation. PMID:27336300

Single and Multiple Object Tracking Using a Multi-Feature Joint Sparse Representation.

PubMed

Hu, Weiming; Li, Wei; Zhang, Xiaoqin; Maybank, Stephen

2015-04-01

In this paper, we propose a tracking algorithm based on a multi-feature joint sparse representation. The templates for the sparse representation can include pixel values, textures, and edges. In the multi-feature joint optimization, noise or occlusion is dealt with using a set of trivial templates. A sparse weight constraint is introduced to dynamically select the relevant templates from the full set of templates. A variance ratio measure is adopted to adaptively adjust the weights of different features. The multi-feature template set is updated adaptively. We further propose an algorithm for tracking multi-objects with occlusion handling based on the multi-feature joint sparse reconstruction. The observation model based on sparse reconstruction automatically focuses on the visible parts of an occluded object by using the information in the trivial templates. The multi-object tracking is simplified into a joint Bayesian inference. The experimental results show the superiority of our algorithm over several state-of-the-art tracking algorithms.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Trabert, E; Hoffmann, J; Krantz, C

Lifetimes of 3s{sup 2}3p{sup k} ground configuration levels of Al-, Si-, P-, and S-like ions of Be, Co, and Ni have been measured at a heavy-ion storage ring. Some of the observed decay curves show strong evidence of cascade repopulation from specific 3d levels that feature lifetimes in the same multi-millisecond range as the levels of the ground configuration.

Anatomical feasibility of pediatric cervical pedicle screw insertion by computed tomographic morphometric evaluation of 376 pediatric cervical pedicles.

PubMed

Kanna, P Rishimugesh; Shetty, Ajoy Prasad; Rajasekaran, S

2011-07-15

Prospective analysis of computed tomographic images of 376 normal pediatric cervical pedicles. To study the normal cervical pedicle morphometrics, the changes in pedicle morphology with skeletal growth, and the possibility of pedicle screw insertion. Although the usage of cervical pedicle screws in adults has become established, the feasibility of its application in children has not been studied. There are no in vivo studies that define the normal pediatric cervical pedicle morphometrics and its changes with growth and development of the child. A total of 376 normal pediatric cervical spine pedicles of 30 children (mean age = 6.7 ± 3.9 years) were analyzed for pedicle width (PW), pedicle height (PH), pedicle length (PL), pedicle axis length (PAL), transverse pedicle angle (TPA), and sagittal pedicle angle (SPA). The study population was categorized into three age groups (A: <5 years, B: 5-10 years, and C >10 years). The mean values of these parameters in the different age groups and the possibility of application cervical pedicle screws were studied. RESULTS.: The mean PW was lowest in the C3 vertebra and increased distally to be widest at C7. Sixty percent of C3 pedicles had a width less than 4 mm making screw passage risky and unsafe. With growth, the PW increased at all levels but this increase was significant only up to the age of 10 years. More than 75% of adult pedicle dimensions were achieved by 5 years of age. The mean PL at all levels remained the same with no significant increase with growth. However, the PAL showed continuous increase with growth similar to PW. The PAL also showed an increase from C3 to C7. The PH was always more than the PW at any level. Mild insignificant asymmetry was present between the right and left side pedicles in all values. With growth, there was a gradual increase in PW, PH, and PAL but was mainly before the age of 10 years. Majority of C3 pedicles were thin making screw fixation unsafe. However, at all other levels, the pedicle morphometrics per se were adequate and do not restrict safe application of 3-mm cervical pedicle screw.

Researching into the cellular shape, volume and elasticity of mesenchymal stem cells, osteoblasts and osteosarcoma cells by atomic force microscopy

PubMed Central

Docheva, Denitsa; Padula, Daniela; Popov, Cvetan; Mutschler, Wolf; Clausen-Schaumann, Hauke; Schieker, Matthias

2008-01-01

Abstract Within the bone lie several different cell types, including osteoblasts (OBs) and mesenchymal stem cells (MSCs). The MSCs are ideal targets for regenerative medicine of bone due to their differentiation potential towards OBs. Human MSCs exhibit two distinct morphologies: rapidly self-renewing cells (RS) and flat cells (FC) with very low proliferation rates. Another cell type found in pathological bone conditions is osteosarcoma. In this study, we compared the topographic and morphometric features of RS and FC cells, human OBs and MG63 osteosarcoma cells by atomic force microscopy (AFM). The results demonstrated clear differences: FC and hOB cells showed similar ruffled topography, whereas RS and MG63 cells exhibited smoother surfaces. Furthermore, we investigated how selected substrates influence cell morphometry. We found that RS and MG63 cells were flatter on fibrous substrates such as polystyrene and collagen I, but much more rounded on glass, the smoothest surface. In contrast, cells with large area, namely FC and hOB cells, did not exhibit pronounced changes in flatness with regards to the different substrates. They were, however, remarkably flatter in comparison to RS and MG63 cells. We could explain the differences in flatness by the extent of adhesion. Indeed, FC and hOB cells showed much higher content of focal adhesions. Finally, we used the AFM to determine the cellular Young's modulus. RS, FC and hOB cells showed comparable stiffness on the three different substrates, while MG63 cells demonstrated the unique feature of increased elasticity on collagen I. In summary, our results show, for the first time, a direct comparison between the morphometric and biophysical features of different human cell types derived from normal and pathological bone. Our study manifests the opinion that along with RNA, proteomic and functional research, morphological and biomechanical characterization of cells also reveals novel cell features and interrelationships. PMID:18419596

Metrics for comparing neuronal tree shapes based on persistent homology.

PubMed

Li, Yanjie; Wang, Dingkang; Ascoli, Giorgio A; Mitra, Partha; Wang, Yusu

2017-01-01

As more and more neuroanatomical data are made available through efforts such as NeuroMorpho.Org and FlyCircuit.org, the need to develop computational tools to facilitate automatic knowledge discovery from such large datasets becomes more urgent. One fundamental question is how best to compare neuron structures, for instance to organize and classify large collection of neurons. We aim to develop a flexible yet powerful framework to support comparison and classification of large collection of neuron structures efficiently. Specifically we propose to use a topological persistence-based feature vectorization framework. Existing methods to vectorize a neuron (i.e, convert a neuron to a feature vector so as to support efficient comparison and/or searching) typically rely on statistics or summaries of morphometric information, such as the average or maximum local torque angle or partition asymmetry. These simple summaries have limited power in encoding global tree structures. Based on the concept of topological persistence recently developed in the field of computational topology, we vectorize each neuron structure into a simple yet informative summary. In particular, each type of information of interest can be represented as a descriptor function defined on the neuron tree, which is then mapped to a simple persistence-signature. Our framework can encode both local and global tree structure, as well as other information of interest (electrophysiological or dynamical measures), by considering multiple descriptor functions on the neuron. The resulting persistence-based signature is potentially more informative than simple statistical summaries (such as average/mean/max) of morphometric quantities-Indeed, we show that using a certain descriptor function will give a persistence-based signature containing strictly more information than the classical Sholl analysis. At the same time, our framework retains the efficiency associated with treating neurons as points in a simple Euclidean feature space, which would be important for constructing efficient searching or indexing structures over them. We present preliminary experimental results to demonstrate the effectiveness of our persistence-based neuronal feature vectorization framework.

Metrics for comparing neuronal tree shapes based on persistent homology

PubMed Central

Li, Yanjie; Wang, Dingkang; Ascoli, Giorgio A.; Mitra, Partha

2017-01-01

As more and more neuroanatomical data are made available through efforts such as NeuroMorpho.Org and FlyCircuit.org, the need to develop computational tools to facilitate automatic knowledge discovery from such large datasets becomes more urgent. One fundamental question is how best to compare neuron structures, for instance to organize and classify large collection of neurons. We aim to develop a flexible yet powerful framework to support comparison and classification of large collection of neuron structures efficiently. Specifically we propose to use a topological persistence-based feature vectorization framework. Existing methods to vectorize a neuron (i.e, convert a neuron to a feature vector so as to support efficient comparison and/or searching) typically rely on statistics or summaries of morphometric information, such as the average or maximum local torque angle or partition asymmetry. These simple summaries have limited power in encoding global tree structures. Based on the concept of topological persistence recently developed in the field of computational topology, we vectorize each neuron structure into a simple yet informative summary. In particular, each type of information of interest can be represented as a descriptor function defined on the neuron tree, which is then mapped to a simple persistence-signature. Our framework can encode both local and global tree structure, as well as other information of interest (electrophysiological or dynamical measures), by considering multiple descriptor functions on the neuron. The resulting persistence-based signature is potentially more informative than simple statistical summaries (such as average/mean/max) of morphometric quantities—Indeed, we show that using a certain descriptor function will give a persistence-based signature containing strictly more information than the classical Sholl analysis. At the same time, our framework retains the efficiency associated with treating neurons as points in a simple Euclidean feature space, which would be important for constructing efficient searching or indexing structures over them. We present preliminary experimental results to demonstrate the effectiveness of our persistence-based neuronal feature vectorization framework. PMID:28809960

YASS: A System Simulator for Operating System and Computer Architecture Teaching and Learning

ERIC Educational Resources Information Center

Mustafa, Besim

2013-01-01

A highly interactive, integrated and multi-level simulator has been developed specifically to support both the teachers and the learners of modern computer technologies at undergraduate level. The simulator provides a highly visual and user configurable environment with many pedagogical features aimed at facilitating deep understanding of concepts…

Bat Species Comparisons Based on External Morphology: A Test of Traditional versus Geometric Morphometric Approaches

PubMed Central

Schmieder, Daniela A.; Benítez, Hugo A.; Borissov, Ivailo M.; Fruciano, Carmelo

2015-01-01

External morphology is commonly used to identify bats as well as to investigate flight and foraging behavior, typically relying on simple length and area measures or ratios. However, geometric morphometrics is increasingly used in the biological sciences to analyse variation in shape and discriminate among species and populations. Here we compare the ability of traditional versus geometric morphometric methods in discriminating between closely related bat species – in this case European horseshoe bats (Rhinolophidae, Chiroptera) – based on morphology of the wing, body and tail. In addition to comparing morphometric methods, we used geometric morphometrics to detect interspecies differences as shape changes. Geometric morphometrics yielded improved species discrimination relative to traditional methods. The predicted shape for the variation along the between group principal components revealed that the largest differences between species lay in the extent to which the wing reaches in the direction of the head. This strong trend in interspecific shape variation is associated with size, which we interpret as an evolutionary allometry pattern. PMID:25965335

The effects of chronic oral methyl mercury exposure on the lysosome system of rat kidney. Morphometric and biochemical studies.

PubMed

Fowler, B A; Brown, H W; Lucier, G W; Krigman, M R

1975-03-01

This report describes morphometric and biochemical changes in the renal lysosome system of rats exposed to 3, 5, or 10 p.p.m. concentrations of methyl mercury hydroxide in their drinking water for 4 weeks. Increased numbers of dense, granular lysosomes, previously found to contain mercury, were observed in tubule cells of rats receiving the 3 and 5 p.p.m. dose levels but not those of the 10 p.p.m. group. Tubule cells from animals given the 10 p.p;m. dose level displayed proteinaceous vacuoles with dense crystalloid structures, apical cytoplasmic extrusion, and cellular degeneration; Mitochondrial swelling within tubule cells of treated animals showed a marked dose-response relationship. Renal microsomal activity levels of ss-glucuronidase were strongly inhibited by methyl mercury hydroxide exposure at all dose levels, whereas the activity levels of acid phosphatase were unchanged. Lysosomal beta-glucuronidase was also inhibited by methyl mercury hydroxide exposure, whereas lysosomal acid phosphatase showed approximately a 2-fold increase in activity. The results are discussed in relation to the role of lysosomes in mediating the nephrotoxic effects of methyl mercury and other toxic trace metals.

Analysis of the variation in low-level laser energy density on the crushed sciatic nerves of rats: a morphological, quantitative, and morphometric study.

PubMed

Ziago, Eduardo Keiske Mastuda; Fazan, Valéria Paula Sassoli; Iyomasa, Mamie Mizusaki; Sousa, Luiz Gustavo; Yamauchi, Paula Yumi; da Silva, Eunice Aparecida; Borie, Eduardo; Fuentes, Ramón; Dias, Fernando José

2017-02-01

The objective of this study was to evaluate three energy densities of low-level laser therapy (LLLT, GaAlAs, 780 nm, 40 mW, 0.04 cm 2 ) for the treatment of lesions to peripheral nerves using the sciatic nerve of rats injured via crushing model (15 kgf, 5.2 MPa). Thirty Wistar rats (♂, 200-250 g) were divided into five groups (n = 6): C-control, not injured, and irradiated; L0-injured nerve without irradiation; L4-injured nerve irradiated with LLLT 4 J/cm 2 (0.16 J); L10-injured nerve irradiated with LLLT 10 J/cm 2 (0.4 J); and L50-injured nerve irradiated with LLLT 50 J/cm 2 (2 J). The animals were sacrificed 2 weeks after the injury via perfusion with glutaraldehyde (2.5%, 0.1 M sodium cacodylate buffer). The nerve tissue was embedded in historesin, cut (3 μm), mounted on slides, and stained (Sudan black and neutral red). The morphological and quantitative analysis (myelin and blood capillary densities) and morphometric parameters (maximum and minimum diameters of nerve fibers, axon diameter, G-ratio, myelin sheath thickness) were assessed using the ImageJ software. ANOVA (parametric) or Kruskal-Wallis (nonparametric) tests were used for the statistical analysis. Groups L0, L4, L10, and L50 exhibited diminished values of all the quantitative and morphometric parameters in comparison to the control group. The morphological, quantitative, and morphometric data revealed improvement after injury in groups L4, L10, and L50 (irradiated groups) compared to the injured-only group (L0); the best results, in general, were observed for the L10 group after 15 days of nerve injury.

Effects of freezing on white perch Morone americana (Gmelin, 1789): Implications for multivariate morphometrics

USGS Publications Warehouse

Kocovsky, Patrick

2016-01-01

This study tested the hypothesis that duration of freezing differentially affects whole-body morphometrics of a derived teleost. Whole-body morphometrics are frequently analyzed to test hypotheses of different species, or stocks within a species, of fishes. Specimens used for morphometric analyses are typically fixed or preserved prior to analysis, yet little research has been done on how fixation or preservation methods or duration of preservation of specimens might affect outcomes of multivariate statistical analyses of differences in shape. To determine whether whole-body morphometrics changed as a result of freezing, 23 whole-body morphometrics of age-1 white perch (Morone americana) from western Lake Erie (n = 211) were analyzed immediately after capture, after being held on ice overnight, and after freezing for 100 or 200 days. Discriminant function analysis revealed that all four groups differed significantly from one another (P < 0.0001). The first canonical axis reflected long-axis morphometrics, where there was a clear pattern of positive translation along this axis with duration of preservation. Re-classification analysis demonstrated fish were typically assigned to their original preservation class except for fish frozen 100 days, which assigned mostly to frozen 200 days. Morphometric comparisons using frozen fish must be done on fish frozen for identical periods of time to avoid biases related to the length of time they were frozen. Similar experiments should be conducted on other species and also using formalin- and alcohol-preserved specimens.

Multi-task feature selection in microarray data by binary integer programming.

PubMed

Lan, Liang; Vucetic, Slobodan

2013-12-20

A major challenge in microarray classification is that the number of features is typically orders of magnitude larger than the number of examples. In this paper, we propose a novel feature filter algorithm to select the feature subset with maximal discriminative power and minimal redundancy by solving a quadratic objective function with binary integer constraints. To improve the computational efficiency, the binary integer constraints are relaxed and a low-rank approximation to the quadratic term is applied. The proposed feature selection algorithm was extended to solve multi-task microarray classification problems. We compared the single-task version of the proposed feature selection algorithm with 9 existing feature selection methods on 4 benchmark microarray data sets. The empirical results show that the proposed method achieved the most accurate predictions overall. We also evaluated the multi-task version of the proposed algorithm on 8 multi-task microarray datasets. The multi-task feature selection algorithm resulted in significantly higher accuracy than when using the single-task feature selection methods.

Virtual reconstruction and geometric morphometrics as tools for paleopathology: a new approach to study rare developmental disorders of the skeleton.

PubMed

Milella, Marco; Zollikofer, Christoph P E; Ponce de León, Marcia S

2015-02-01

Survey studies of osteoarchaeological collections occasionally yield specimens exhibiting rare skeletal developmental disorders. Beyond paleopathological diagnosis, however, it is often difficult to gain insight into the processes, mechanisms, and consequences of the pathology, notably because archaeological specimens are often fragmentary. Here, we propose a combination of virtual reconstruction (VR) and geometric morphometrics (GM) to address these issues. As an example, we use VR to reconstruct the only known archaeological specimen exhibiting persistence of the pelvic triradiate cartilage and compare it via GM with a set of healthy pelvises representing both sexes and different ontogenetic stages. Our results evidence (i) a marked deviation of the pathological pelvis from the adult mean shape, (ii) the retention of typical male features, and (iii) the retention of a paedomorphic ratio between iliac and ischiopubic size. Altogether, such data offer new insights into the modularity and integration of pelvic ontogeny, while at the same time demonstrating the usefulness of a combined VR/GM approach as complement to classical methods of paleopathology. © 2014 Wiley Periodicals, Inc.

Morphological evidence for discrete stocks of yellow perch in Lake Erie

USGS Publications Warehouse

Kocovsky, Patrick M.; Knight, Carey T.

2012-01-01

Identification and management of unique stocks of exploited fish species are high-priority management goals in the Laurentian Great Lakes. We analyzed whole-body morphometrics of 1430 yellow perch Perca flavescens captured during 2007–2009 from seven known spawning areas in Lake Erie to determine if morphometrics vary among sites and management units to assist in identification of spawning stocks of this heavily exploited species. Truss-based morphometrics (n = 21 measurements) were analyzed using principal component analysis followed by ANOVA of the first three principal components to determine whether yellow perch from the several sampling sites varied morphometrically. Duncan's multiple range test was used to determine which sites differed from one another to test whether morphometrics varied at scales finer than management unit. Morphometrics varied significantly among sites and annually, but differences among sites were much greater. Sites within the same management unit typically differed significantly from one another, indicating morphometric variation at a scale finer than management unit. These results are largely congruent with recently-published studies on genetic variation of yellow perch from many of the same sampling sites. Thus, our results provide additional evidence that there are discrete stocks of yellow perch in Lake Erie and that management units likely comprise multiple stocks.

Multispectral image fusion for target detection

NASA Astrophysics Data System (ADS)

Leviner, Marom; Maltz, Masha

2009-09-01

Various different methods to perform multi-spectral image fusion have been suggested, mostly on the pixel level. However, the jury is still out on the benefits of a fused image compared to its source images. We present here a new multi-spectral image fusion method, multi-spectral segmentation fusion (MSSF), which uses a feature level processing paradigm. To test our method, we compared human observer performance in an experiment using MSSF against two established methods: Averaging and Principle Components Analysis (PCA), and against its two source bands, visible and infrared. The task that we studied was: target detection in the cluttered environment. MSSF proved superior to the other fusion methods. Based on these findings, current speculation about the circumstances in which multi-spectral image fusion in general and specific fusion methods in particular would be superior to using the original image sources can be further addressed.

Morphometric characterisation of wing feathers of the barn owl Tyto alba pratincola and the pigeon Columba livia

PubMed Central

Bachmann, Thomas; Klän, Stephan; Baumgartner, Werner; Klaas, Michael; Schröder, Wolfgang; Wagner, Hermann

2007-01-01

Background Owls are known for their silent flight. Even though there is some information available on the mechanisms that lead to a reduction of noise emission, neither the morphological basis, nor the biological mechanisms of the owl's silent flight are known. Therefore, we have initiated a systematic analysis of wing morphology in both a specialist, the barn owl, and a generalist, the pigeon. This report presents a comparison between the feathers of the barn owl and the pigeon and emphasise the specific characteristics of the owl's feathers on macroscopic and microscopic level. An understanding of the features and mechanisms underlying this silent flight might eventually be employed for aerodynamic purposes and lead to a new wing design in modern aircrafts. Results A variety of different feathers (six remiges and six coverts), taken from several specimen in either species, were investigated. Quantitative analysis of digital images and scanning electron microscopy were used for a morphometric characterisation. Although both species have comparable body weights, barn owl feathers were in general larger than pigeon feathers. For both species, the depth and the area of the outer vanes of the remiges were typically smaller than those of the inner vanes. This difference was more pronounced in the barn owl than in the pigeon. Owl feathers also had lesser radiates, longer pennula, and were more translucent than pigeon feathers. The two species achieved smooth edges and regular surfaces of the vanes by different construction principles: while the angles of attachment to the rachis and the length of the barbs was nearly constant for the barn owl, these parameters varied in the pigeon. We also present a quantitative description of several characteristic features of barn owl feathers, e.g., the serrations at the leading edge of the wing, the fringes at the edges of each feather, and the velvet-like dorsal surface. Conclusion The quantitative description of the feathers and the specific structures of owl feathers can be used as a model for the construction of a biomimetic airplane wing or, in general, as a source for noise-reducing applications on any surfaces subjected to flow fields. PMID:18031576

A multi-layer MRI description of Parkinson's disease

NASA Astrophysics Data System (ADS)

La Rocca, M.; Amoroso, N.; Lella, E.; Bellotti, R.; Tangaro, S.

2017-09-01

Magnetic resonance imaging (MRI) along with complex network is currently one of the most widely adopted techniques for detection of structural changes in neurological diseases, such as Parkinson's Disease (PD). In this paper, we present a digital image processing study, within the multi-layer network framework, combining more classifiers to evaluate the informative power of the MRI features, for the discrimination of normal controls (NC) and PD subjects. We define a network for each MRI scan; the nodes are the sub-volumes (patches) the images are divided into and the links are defined using the Pearson's pairwise correlation between patches. We obtain a multi-layer network whose important network features, obtained with different feature selection methods, are used to feed a supervised multi-level random forest classifier which exploits this base of knowledge for accurate classification. Method evaluation has been carried out using T1 MRI scans of 354 individuals, including 177 PD subjects and 177 NC from the Parkinson's Progression Markers Initiative (PPMI) database. The experimental results demonstrate that the features obtained from multiplex networks are able to accurately describe PD patterns. Besides, also if a privileged scale for studying PD disease exists, exploring the informative content of more scales leads to a significant improvement of the performances in the discrimination between disease and healthy subjects. In particular, this method gives a comprehensive overview of brain regions statistically affected by the disease, an additional value to the presented study.

BMI and WHR Are Reflected in Female Facial Shape and Texture: A Geometric Morphometric Image Analysis

PubMed Central

Mayer, Christine; Windhager, Sonja; Schaefer, Katrin; Mitteroecker, Philipp

2017-01-01

Facial markers of body composition are frequently studied in evolutionary psychology and are important in computational and forensic face recognition. We assessed the association of body mass index (BMI) and waist-to-hip ratio (WHR) with facial shape and texture (color pattern) in a sample of young Middle European women by a combination of geometric morphometrics and image analysis. Faces of women with high BMI had a wider and rounder facial outline relative to the size of the eyes and lips, and relatively lower eyebrows. Furthermore, women with high BMI had a brighter and more reddish skin color than women with lower BMI. The same facial features were associated with WHR, even though BMI and WHR were only moderately correlated. Yet BMI was better predictable than WHR from facial attributes. After leave-one-out cross-validation, we were able to predict 25% of variation in BMI and 10% of variation in WHR by facial shape. Facial texture predicted only about 3–10% of variation in BMI and WHR. This indicates that facial shape primarily reflects total fat proportion, rather than the distribution of fat within the body. The association of reddish facial texture in high-BMI women may be mediated by increased blood pressure and superficial blood flow as well as diet. Our study elucidates how geometric morphometric image analysis serves to quantify the effect of biological factors such as BMI and WHR to facial shape and color, which in turn contributes to social perception. PMID:28052103

Systematic Review of Ossicular Chain Anatomy: Strategic Planning for Development of Novel Middle Ear Prostheses.

PubMed

Kamrava, Brandon; Roehm, Pamela C

2017-08-01

Objective To systematically review the anatomy of the ossicular chain. Data Sources Google Scholar, PubMed, and otologic textbooks. Review Methods A systematic literature search was performed on January 26, 2015. Search terms used to discover articles consisted of combinations of 2 keywords. One keyword from both groups was used: [ ossicular, ossicle, malleus, incus, stapes] and [ morphology, morphometric, anatomy, variation, physiology], yielding more than 50,000 hits. Articles were then screened by title and abstract if they did not contain information relevant to human ossicular chain anatomy. In addition to this search, references of selected articles were studied as well as suggested relevant articles from publication databases. Standard otologic textbooks were screened using the search criteria. Results Thirty-three sources were selected for use in this review. From these studies, data on the composition, physiology, morphology, and morphometrics were acquired. In addition, any correlations or lack of correlations between features of the ossicular chain and other features of the ossicular chain or patient were noted, with bilateral symmetry between ossicles being the only important correlation reported. Conclusion There was significant variation in all dimensions of each ossicle between individuals, given that degree of variation, custom fitting, or custom manufacturing of prostheses for each patient could optimize prosthesis fit. From published data, an accurate 3-dimensional model of the malleus, incus, and stapes can be created, which can then be further modified for each patient's individual anatomy.

The alterations of the sigmoid-rectal junction in diverticular disease of the colon revealed by MR-defecography.

PubMed

Romagnoli, Francesco; Colaiacomo, Maria Chiara; De Milito, Ritanna; Modini, Claudio; Gualdi, Gianfranco; Catani, Marco

2014-01-01

The sigmoidorectal junction (SRJ) has been defined as an anatomical sphincter with particular physiological behavior that regulates sigmoid and rectum evacuation. Its function in clinical conditions, such as diverticular disease has been advocated. The aim of our study is to identify the SRJ and to compare the morphometric and dynamic features of the SRJ between patients with diverticular disease and healthy subjects using MR-defecography. Sixteen individuals, eight with uncomplicated diverticular disease and eight healthy subjects, were studied using MR-defecography to identify the SRJ and to compare the morphometric and dynamic features observed. In each subject studied, MR-defecography was able to identify the SRJ. This resulted in the identification of a discrete anatomical entity with a mean length of 31.23 mm, located in front of the first sacral vertebra (S1) and at a mean distance of 15.55 cm from the anal verge, with a mean wall thickness of 4.45 mm, significantly different from the sigmoid and rectal parietal thickness. The SRJ wall was significantly thicker in patients with diverticular disease than the controls (P = 0.005), showing a unique shape and behavior in dynamic sequences. Our findings support the hypothesis that SRJ plays a critical role in patients with symptomatic diverticular disease; further investigation may clarify whether specific SRJ analysis, such as MR-defecography, would predict inflammatory complications of this diffuse and heterogenic disease.

The Use of a Geomorphometric Classification to Estimate Subsurface Heterogeneity in the Unconsolidated Sediments of Mountain Watersheds

NASA Astrophysics Data System (ADS)

Cairns, D.; Byrne, J. M.; Jiskoot, H.; McKenzie, J. M.; Johnson, D. L.

2013-12-01

Groundwater controls many aspects of water quantity and quality in mountain watersheds. Groundwater recharge and flow originating in mountain watersheds are often difficult to quantify due to challenges in the characterization of the local geology, as subsurface data are sparse and difficult to collect. Remote sensing data are more readily available and are beneficial for the characterization of watershed hydrodynamics. We present an automated geomorphometric model to identify the approximate spatial distribution of geomorphic features, and to segment each of these features based on relative hydrostratigraphic differences. A digital elevation model (DEM) dataset and predefined indices are used as inputs in a mountain watershed. The model uses periglacial, glacial, fluvial, slope evolution and lacustrine processes to identify regions that are subsequently delineated using morphometric principles. A 10 m cell size DEM from the headwaters of the St. Mary River watershed in Glacier National Park, Montana, was considered sufficient for this research. Morphometric parameters extracted from the DEM that were found to be useful for the calibration of the model were elevation, slope, flow direction, flow accumulation, and surface roughness. Algorithms were developed to utilize these parameters and delineate the distributions of bedrock outcrops, periglacial landscapes, alluvial channels, fans and outwash plains, glacial depositional features, talus slopes, and other mass wasted material. Theoretical differences in sedimentation and hydrofacies associated with each of the geomorphic features were used to segment the watershed into units reflecting similar hydrogeologic properties such as hydraulic conductivity and thickness. The results of the model were verified by comparing the distribution of geomorphic features with published geomorphic maps. Although agreement in semantics between datasets caused difficulties, a consensus yielded a comparison Dice Coefficient of 0.65. The results can be used to assist in groundwater model calibration, or to estimate spatial differences in near-surface groundwater behaviour. Verification of the geomorphometric model would be augmented by evaluating its success after use in the calibration of the groundwater simulation. These results may also be used directly in momentum-based equations to create a stochastic routing routine beneath the soil interface for a hydrometeorological model.

A statistical shape modelling framework to extract 3D shape biomarkers from medical imaging data: assessing arch morphology of repaired coarctation of the aorta.

PubMed

Bruse, Jan L; McLeod, Kristin; Biglino, Giovanni; Ntsinjana, Hopewell N; Capelli, Claudio; Hsia, Tain-Yen; Sermesant, Maxime; Pennec, Xavier; Taylor, Andrew M; Schievano, Silvia

2016-05-31

Medical image analysis in clinical practice is commonly carried out on 2D image data, without fully exploiting the detailed 3D anatomical information that is provided by modern non-invasive medical imaging techniques. In this paper, a statistical shape analysis method is presented, which enables the extraction of 3D anatomical shape features from cardiovascular magnetic resonance (CMR) image data, with no need for manual landmarking. The method was applied to repaired aortic coarctation arches that present complex shapes, with the aim of capturing shape features as biomarkers of potential functional relevance. The method is presented from the user-perspective and is evaluated by comparing results with traditional morphometric measurements. Steps required to set up the statistical shape modelling analyses, from pre-processing of the CMR images to parameter setting and strategies to account for size differences and outliers, are described in detail. The anatomical mean shape of 20 aortic arches post-aortic coarctation repair (CoA) was computed based on surface models reconstructed from CMR data. By analysing transformations that deform the mean shape towards each of the individual patient's anatomy, shape patterns related to differences in body surface area (BSA) and ejection fraction (EF) were extracted. The resulting shape vectors, describing shape features in 3D, were compared with traditionally measured 2D and 3D morphometric parameters. The computed 3D mean shape was close to population mean values of geometric shape descriptors and visually integrated characteristic shape features associated with our population of CoA shapes. After removing size effects due to differences in body surface area (BSA) between patients, distinct 3D shape features of the aortic arch correlated significantly with EF (r = 0.521, p = .022) and were well in agreement with trends as shown by traditional shape descriptors. The suggested method has the potential to discover previously unknown 3D shape biomarkers from medical imaging data. Thus, it could contribute to improving diagnosis and risk stratification in complex cardiac disease.

Redescription of Nemachilichthys rueppelli, a senior synonym of N. shimogensis (Teleostei: Nemacheilidae).

PubMed

Keskar, Ashwini; Kumkar, Pradeep; Katwate, Unmesh; Ali, Anvar; Raghavan, Rajeev; Dahanukar, Neelesh

2015-12-23

The hill-stream loach genus Nemachilichthys, an endemic of the Western Ghats of India, comprises two nominal species, N. rueppelli and N. shimogensis. The validity of the latter has been questioned by several authors. Here we show that there is only a marginal raw mitochondrial genetic distance (0.5% in cytochrome oxidase subunit I and 1.2% in cytochrome b) between topotypic specimens of the two nominal species. Further, although population-level morphometric variations appear in a multivariate morphometric analysis, the two nominal species are morphologically similar, with apparently no significant characters separating them. We therefore consider N. shimogensis to be a junior synonym of N. rueppelli and redescribe the latter, providing further details on population variation and distribution.

Multi-level structure in the large scale distribution of optically luminous galaxies

NASA Astrophysics Data System (ADS)

Deng, Xin-fa; Deng, Zu-gan; Liu, Yong-zhen

1992-04-01

Fractal dimensions in the large scale distribution of galaxies have been calculated with the method given by Wen et al. [1] Samples are taken from CfA redshift survey in northern and southern galactic [2] hemisphere in our analysis respectively. Results from these two regions are compared with each other. There are significant differences between the distributions in these two regions. However, our analyses do show some common features of the distributions in these two regions. All subsamples show multi-level fractal character distinctly. Combining it with the results from analyses of samples given by IRAS galaxies and results from samples given by redshift survey in pencil-beam fields, [3,4] we suggest that multi-level fractal structure is most likely to be a general and important character in the large scale distribution of galaxies. The possible implications of this character are discussed.

Morphometric synaptology of a whole neuron profile using a semiautomatic interactive computer system.

PubMed

Saito, K; Niki, K

1983-07-01

We propose a new method of dealing with morphometric synaptology that processes all synapses and boutons around the HRP marked neuron on a large composite electron micrograph, rather than a qualitative or a piecemeal quantitative study of a particular synapse and/or bouton that is not positioned on the surface of the neuron. This approach requires the development of both neuroanatomical procedures, by which a specific whole neuronal profile is identified, and valuable specialized tools, which support the collection and analysis of a great volume of morphometric data from composite electron micrographs, in order to reduce the burden of the morphologist. The present report is also concerned with the total and reliable semi-automatic interactive computer system for gathering and analyzing morphometric data that has been under development in our laboratory. A morphologist performs the pattern recognition portion by using a large-sized tablet digitizer and a menu-sheet command, and the system registers the various morphometric values of many different neurons and performs statistical analysis. Some examples of morphometric measurements and analysis show the usefulness and efficiency of the proposed system and method.

An effective method for cirrhosis recognition based on multi-feature fusion

NASA Astrophysics Data System (ADS)

Chen, Yameng; Sun, Gengxin; Lei, Yiming; Zhang, Jinpeng

2018-04-01

Liver disease is one of the main causes of human healthy problem. Cirrhosis, of course, is the critical phase during the development of liver lesion, especially the hepatoma. Many clinical cases are still influenced by the subjectivity of physicians in some degree, and some objective factors such as illumination, scale, edge blurring will affect the judgment of clinicians. Then the subjectivity will affect the accuracy of diagnosis and the treatment of patients. In order to solve the difficulty above and improve the recognition rate of liver cirrhosis, we propose a method of multi-feature fusion to obtain more robust representations of texture in ultrasound liver images, the texture features we extract include local binary pattern(LBP), gray level co-occurrence matrix(GLCM) and histogram of oriented gradient(HOG). In this paper, we firstly make a fusion of multi-feature to recognize cirrhosis and normal liver based on parallel combination concept, and the experimental results shows that the classifier is effective for cirrhosis recognition which is evaluated by the satisfying classification rate, sensitivity and specificity of receiver operating characteristic(ROC), and cost time. Through the method we proposed, it will be helpful to improve the accuracy of diagnosis of cirrhosis and prevent the development of liver lesion towards hepatoma.

Automatic classification and detection of clinically relevant images for diabetic retinopathy

NASA Astrophysics Data System (ADS)

Xu, Xinyu; Li, Baoxin

2008-03-01

We proposed a novel approach to automatic classification of Diabetic Retinopathy (DR) images and retrieval of clinically-relevant DR images from a database. Given a query image, our approach first classifies the image into one of the three categories: microaneurysm (MA), neovascularization (NV) and normal, and then it retrieves DR images that are clinically-relevant to the query image from an archival image database. In the classification stage, the query DR images are classified by the Multi-class Multiple-Instance Learning (McMIL) approach, where images are viewed as bags, each of which contains a number of instances corresponding to non-overlapping blocks, and each block is characterized by low-level features including color, texture, histogram of edge directions, and shape. McMIL first learns a collection of instance prototypes for each class that maximizes the Diverse Density function using Expectation- Maximization algorithm. A nonlinear mapping is then defined using the instance prototypes and maps every bag to a point in a new multi-class bag feature space. Finally a multi-class Support Vector Machine is trained in the multi-class bag feature space. In the retrieval stage, we retrieve images from the archival database who bear the same label with the query image, and who are the top K nearest neighbors of the query image in terms of similarity in the multi-class bag feature space. The classification approach achieves high classification accuracy, and the retrieval of clinically-relevant images not only facilitates utilization of the vast amount of hidden diagnostic knowledge in the database, but also improves the efficiency and accuracy of DR lesion diagnosis and assessment.

Morphometric changes of corneal endothelial cells following intracameral air for micro perforation of the Descemet Membrane during big-bubble deep anterior lamellar keratoplasty.

PubMed

Khattak, Ashbala; Nakhli, Fouad R; Abdullatif Abouollo, Hussam Mohammad

2016-01-01

The aim of this study was to assess the effect of intracameral air on the endothelial cell morphometrics. This is a retrospective controlled interventional cohort study of 26 patients (18 males and 8 females) who underwent unilateral deep anterior lamellar keratoplasty (DALK) for moderate keratoconus. The DALK patients were divided into two groups: a treatment group (14), which had micro perforations of the Descemet Membrane (DM) intraoperatively and received intracameral air at the end of the surgery; and an independent control group (12), which had no micro perforation and thus no intracameral air was injected. Postoperative best corrected visual acuity (BCVA), sphere, cylinder, spherical equivalent (SEQ), central corneal thickness, and endothelial cell morphometric features consisted of the endothelial cell density (ECD), polymegathism, and pleomorphism were compared between treatment and control groups. The mean BCVA was 0.36 ± 0.36 logMAR in the treatment group and 0.17 ± 0.11 logMAR in the control group (p = 0.081), and the mean corneal thickness was 507.86 ± 62.69 μm in the treatment group and 525.67 ± 37.54 μm in the control group air (p = 0.399). Furthermore, the mean sphere was -5.14 ± 4.17D and -1.02 ± 3.29D, the mean cylinder was -3.16 ± 2.20D and -2.88 ± 1.21D, and the mean SEQ was -6.72 ± 4.66D and -2.46 ± 3.14D and in the treatment and control groups respectively (p = 0.011, 0.693, and 0.013). As to morphometric features, the mean ECD was 2176.76 ± 549.18 cell/mm(2) and 2257.30 ± 436.12 cell/mm(2) in the treatment and control groups respectively (p = 0.686), and the mean pleomorphism 0.48 ± 0.09 and 0.54 ± 0.10 in the treatment and control groups respectively (p = 0.139). In contrast, the mean polymegathism was 0.37 ± 0.06 and 0.31 ± 0.05 in the treatment and control groups respectively (p = 0.009). The presence of air inside the anterior chamber for a short term may not cause further endothelial cell loss and can be safely performed to prevent postoperative Descemet Membrane detachment in case of micro perforations.

Compressive strain in Lunae Planum-shortening across wrinkle ridges

NASA Technical Reports Server (NTRS)

Plescia, J. B.

1991-01-01

Wrinkle ridges have long been considered to be structural or structurally controlled features. Most, but not all, recent studies have converged on a model in which wrinkle ridges are structural features formed under compressive stress; the deformation being accommodated by faulting and folding. Given that wrinkle ridges are compressive tectonic features, an analysis of the associated shortening and strain provides important quantitative information about local and regional deformation. Lunae Planum is dominated by north-south trending ridges extending from Kasei Valles in the north to Valles Marineris in the south. To quantify the morphometric character, a photoclinometric study was undertaken for ridges on Lunae Planum using the Davis and Soderblom. More than 25 ridges were examined between long. 57 and 80 deg, lat. 5 to 25 deg N. For each ridge, several profiles were obtained along its length. Ridge width, total relief, and elevation offset were measured for each ridge. Analyses are given.

Allometry and Interspecific Differences in the Facial Cranium of Two Closely Related Macaque Species

PubMed Central

Ito, Tsuyoshi; Nishimura, Takeshi; Takai, Masanaru

2011-01-01

Interpreting evolutionary history of macaque monkeys from fossil evidence is difficult, because their evolutionary fluctuations in body size might have removed or formed important morphological features differently in each lineage. We employed geometric morphometrics to explore allometric trajectories of craniofacial shape in two closely related species, Macaca fascicularis and M. fuscata. These two species exhibit a single shared allometric trajectory in superoinferior deflection of the anterior face, indicating that the differences in this feature can be explained by size variation. In contrast, two parallel trajectories are demonstrated in craniofacial protrusion, indicating that even if they are comparable in size, M. fuscata has a higher and shorter face than M. fascicularis. The degree of facial protrusion is most likely a critical feature for phyletic evaluation in the fascicularis group. Such analyses in various macaques would help to resolve controversies regarding phyletic interpretations of fossil macaques. PMID:22567301

Capturing remote mixing due to internal tides using multi-scale modeling tool: SOMAR-LES

NASA Astrophysics Data System (ADS)

Santilli, Edward; Chalamalla, Vamsi; Scotti, Alberto; Sarkar, Sutanu

2016-11-01

Internal tides that are generated during the interaction of an oscillating barotropic tide with the bottom bathymetry dissipate only a fraction of their energy near the generation region. The rest is radiated away in the form of low- high-mode internal tides. These internal tides dissipate energy at remote locations when they interact with the upper ocean pycnocline, continental slope, and large scale eddies. Capturing the wide range of length and time scales involved during the life-cycle of internal tides is computationally very expensive. A recently developed multi-scale modeling tool called SOMAR-LES combines the adaptive grid refinement features of SOMAR with the turbulence modeling features of a Large Eddy Simulation (LES) to capture multi-scale processes at a reduced computational cost. Numerical simulations of internal tide generation at idealized bottom bathymetries are performed to demonstrate this multi-scale modeling technique. Although each of the remote mixing phenomena have been considered independently in previous studies, this work aims to capture remote mixing processes during the life cycle of an internal tide in more realistic settings, by allowing multi-level (coarse and fine) grids to co-exist and exchange information during the time stepping process.

Combined Use of Morphological and Molecular Tools to Resolve Species Mis-Identifications in the Bivalvia The Case of Glycymeris glycymeris and G. pilosa.

PubMed

Purroy, Ariadna; Šegvić-Bubić, Tanja; Holmes, Anna; Bušelić, Ivana; Thébault, Julien; Featherstone, Amy; Peharda, Melita

Morphological and molecular tools were combined to resolve the misidentification between Glycymeris glycymeris and Glycymeris pilosa from Atlantic and Mediterranean populations. The ambiguous literature on the taxonomic status of these species requires this confirmation as a baseline to studies on their ecology and sclerochronology. We used classical and landmark-based morphometric approaches and performed bivariate and multivariate analyses to test for shell character interactions at the individual and population level. Both approaches generated complementary information. The former showed the shell width to length ratio and the valve asymmetry to be the main discriminant characters between Atlantic and Mediterranean populations. Additionally, the external microsculpture of additional and finer secondary ribs in G. glycymeris discriminates it from G. pilosa. Likewise, landmark-based geometric morphometrics revealed a stronger opisthogyrate beak and prosodetic ligament in G. pilosa than G. glycymeris. Our Bayesian and maximum likelihood phylogenetic analyses based on COI and ITS2 genes identified that G. glycymeris and G. pilosa form two separate monophyletic clades with mean interspecific divergence of 11% and 0.9% for COI and ITS2, respectively. The congruent patterns of morphometric analysis together with mitochondrial and nuclear phylogenetic reconstructions indicated the separation of the two coexisting species. The intraspecific divergence occurred during the Eocene and accelerated during the late Pliocene and Pleistocene. Glycymeris pilosa showed a high level of genetic diversity, appearing as a more robust species whose tolerance of environmental conditions allowed its expansion throughout the Mediterranean.

Global geometric morphometric analyses of the human pelvis reveal substantial neutral population history effects, even across sexes.

PubMed

Betti, Lia; von Cramon-Taubadel, Noreen; Manica, Andrea; Lycett, Stephen J

2013-01-01

Recent applications of population genetic models to human craniodental traits have revealed a strong neutral component to patterns of global variation. However, little work has been undertaken to determine whether neutral processes might also be influencing the postcranium, perhaps due to substantial evidence for selection and plastic environmental responses in these regions. Recent work has provided evidence for neutral effects in the pelvis, but has been limited in regard to shape data (small numbers of linear measurements) and restricted only to males. Here, we use geometric morphometric methods to examine population variation in the human os coxae (pelvic bone) in both males and females. Neutrality is examined via apportionment of variance patterns and fit to an Out-of-Africa serial founder effect model, which is known to structure neutral genetic patterns. Moreover, we compare males and females directly, and the true versus false pelvis, in order to examine potential obstetrical effects. Our results indicate evidence for substantial neutral population history effects on pelvic shape variation. They also reveal evidence for the effect of obstetrical constraints, but these affect males and females to equivalent extents. Our results do not deny an important role for selection in regard to specific aspects of human pelvic variation, especially in terms of features associated with body size and proportions. However, our analyses demonstrate that at a global level, the shape of the os coxae reveals substantial evidence for neutral variation. Our analyses thus indicate that population variation in the human pelvis might be used to address important questions concerning population history, just as the human cranium has done.

Morphometric analysis of stab wounds by MSCT and MRI after the instillation of contrast medium.

PubMed

Fais, Paolo; Cecchetto, Giovanni; Boscolo-Berto, Rafael; Toniolo, Matteo; Viel, Guido; Miotto, Diego; Montisci, Massimo; Tagliaro, Franco; Giraudo, Chiara

2016-06-01

To analyze the morphology and depth of stab wounds experimentally produced on human legs amputated for medical reasons using multislice computed tomography (MSCT) and magnetic resonance imaging (MRI) after the instillation of a single contrast medium solution (CMS). For morphological analysis, MSCT and MRI scans were performed before and after the instillation of CMS into the wound cavity. Depth measurements were performed on the sagittal view only after CMS instillation. Subsequently, each wound was dissected using the layer-by-layer technique and the depth was measured by a ruler. One-way between-groups pairwise analysis of variance (ANOVA) and Bland-Altman plot analysis were used for comparing radiological and anatomical measurements. Unenhanced MSCT images did not identify the wound channels, whereas unenhanced MRI evidenced the wound cavity in 50 % of cases. After the instillation of CMS, both MSCT and MRI depicted the wound channel in all the investigated stabbings, although the morphology of the cavity was irregular and did not resemble the shape of the blade. The radiological measurements of the wounds' depth, after the application of CMS, exhibited a high level of agreement (about 95 % at Bland-Altman plot analysis) with the anatomical measurements at dissection. A similar systematic underestimation, however, has been evidenced for MSCT (average 11.4 %; 95 % CI 7-17) and MRI (average 9.6 %; 95 % CI 6-13) data after the instillation of CMS with respect to wound dissection measurements. MSCT and MRI after the instillation of CMS can be used for depicting the morphometric features of stab wounds, although depth measurements are affected by a slight systematic underestimation compared to layer-by-layer dissection.

Morphological and Biochemical Features of Cerebellar Cortex After Exposure to Zinc Oxide Nanoparticles: Possible Protective Role of Curcumin.

PubMed

Amer, Mona G; Karam, Rehab A

2018-03-25

Zinc oxide nanoparticles (ZnONPs) are widely used in the last decades. Therefore, investigation of its neurotoxic effect is important. This work aimed to investigate the potential adverse effects of ZnONPs on rat's cerebellar cortex and the possible neuroprotective role of curcumin (Cur). Forty male albino rats were randomly divided into four equal groups. Two groups were injected with ZnONPs and one group was previously received Cur before ZnONPs. At the end of the experiment, cerebellar tissue samples were prepared for histological, morphometric, immunohistochemical study, and tissue levels of oxidative stress markers and cytokine analysis. cerebellar damage is clearly visible with ZnONPs. Degeneration, loss, disorganization of cerebellar neurons was observed. Histopathological degeneration of Purkinje and granular cells together with loss of Nissl substance, astrocyte gliosis, and affection of cerebellar blood brain barrier were detected. Moreover, an apoptotic marker (caspase-3) was significantly expressed in Purkinje and granular layers together with elevated gene expression of P53 and COX-2 in cerebellar tissue of ZnONPs intoxicated group. Astrocyte gliosis and inflammatory markers IL-1, IL-6, and TNF-α were expressed significantly in ZnONPs intoxicated cerebellum. These changes were associated with evidence of cerebellar oxidative stress. Strikingly, treatment with Cur together with ZnONPs recorded morphological improvement, with increased number of Purkinje cells and decreased caspase +ve cells. These findings were confirmed by morphometric and statistical analysis. Cur ameliorates the deterious effect of ZnONPs on the cerebellar cortex through its antioxidant, antiapoptotic, and anti-inflammatory efficacies. Anat Rec, 2018. © 2018 Wiley Periodicals, Inc. © 2018 Wiley Periodicals, Inc.

Global Geometric Morphometric Analyses of the Human Pelvis Reveal Substantial Neutral Population History Effects, Even across Sexes

PubMed Central

Betti, Lia; von Cramon-Taubadel, Noreen; Manica, Andrea; Lycett, Stephen J.

2013-01-01

Recent applications of population genetic models to human craniodental traits have revealed a strong neutral component to patterns of global variation. However, little work has been undertaken to determine whether neutral processes might also be influencing the postcranium, perhaps due to substantial evidence for selection and plastic environmental responses in these regions. Recent work has provided evidence for neutral effects in the pelvis, but has been limited in regard to shape data (small numbers of linear measurements) and restricted only to males. Here, we use geometric morphometric methods to examine population variation in the human os coxae (pelvic bone) in both males and females. Neutrality is examined via apportionment of variance patterns and fit to an Out-of-Africa serial founder effect model, which is known to structure neutral genetic patterns. Moreover, we compare males and females directly, and the true versus false pelvis, in order to examine potential obstetrical effects. Our results indicate evidence for substantial neutral population history effects on pelvic shape variation. They also reveal evidence for the effect of obstetrical constraints, but these affect males and females to equivalent extents. Our results do not deny an important role for selection in regard to specific aspects of human pelvic variation, especially in terms of features associated with body size and proportions. However, our analyses demonstrate that at a global level, the shape of the os coxae reveals substantial evidence for neutral variation. Our analyses thus indicate that population variation in the human pelvis might be used to address important questions concerning population history, just as the human cranium has done. PMID:23409086

An integrative view of storage of low- and high-level visual dimensions in visual short-term memory.

PubMed

Magen, Hagit

2017-03-01

Efficient performance in an environment filled with complex objects is often achieved through the temporal maintenance of conjunctions of features from multiple dimensions. The most striking finding in the study of binding in visual short-term memory (VSTM) is equal memory performance for single features and for integrated multi-feature objects, a finding that has been central to several theories of VSTM. Nevertheless, research on binding in VSTM focused almost exclusively on low-level features, and little is known about how items from low- and high-level visual dimensions (e.g., colored manmade objects) are maintained simultaneously in VSTM. The present study tested memory for combinations of low-level features and high-level representations. In agreement with previous findings, Experiments 1 and 2 showed decrements in memory performance when non-integrated low- and high-level stimuli were maintained simultaneously compared to maintaining each dimension in isolation. However, contrary to previous findings the results of Experiments 3 and 4 showed decrements in memory performance even when integrated objects of low- and high-level stimuli were maintained in memory, compared to maintaining single-dimension objects. Overall, the results demonstrate that low- and high-level visual dimensions compete for the same limited memory capacity, and offer a more comprehensive view of VSTM.

Cytokine Response, Tract-Specific Fractional Anisotropy, and Brain Morphometry in Post-Stroke Cognitive Impairment.

PubMed

Kulesh, Aleksey; Drobakha, Viktor; Kuklina, Elena; Nekrasova, Irina; Shestakov, Vladimir

2018-07-01

Post-stroke cognitive impairment is a clinically heterogeneous condition and its types have a different course and prognosis. The aim of the present study is to address the roles of inflammation, white matter pathology, and brain atrophy in different neuropsychological types of cognitive impairment in the acute period of ischemic stroke. In 92 patients, we performed an assessment of the cognitive status and measured concentrations of cytokines (interleukin [IL]-1β, IL-6, tumor necrosis factor-alpha, IL-10) in liquor and serum, as well as a number of magnetic resonance imaging (MRI) morphometric parameters and fractional anisotropy. The control group consisted of 14 individuals without cerebrovascular disease. All patients had a higher level of IL-10 in serum than the control group. Patients with dysexecutive cognitive impairment had a higher concentration of IL-1β and IL-10 in liquor, IL-6 level in serum, and a lower fractional anisotropy of the ipsilateral thalamus than patients with normal cognition. Patients with mixed cognitive impairment were characterized by a lower fractional anisotropy of contralateral fronto-occipital fasciculus, compared with patients with dysexecutive cognitive impairment. Patients with both dysexecutive and mixed cognitive deficit had a wide area of leukoaraiosis and a reduced fractional anisotropy of the contralateral cingulum, compared with patients without cognitive impairment. Also, we found numerous correlations between cognitive status and levels of cytokines, MRI morphometric parameters, and fractional anisotropy of certain regions of the brain. The concentrations of cytokines in serum and cerebrospinal fluid studied in combination with MRI morphometric parameters and fractional anisotropy appear to be informative biomarkers of clinical types of post-stroke cognitive impairment. Copyright © 2018 National Stroke Association. Published by Elsevier Inc. All rights reserved.

Hidden diversity within the lizard genus Liolaemus: Genetic vs morphological divergence in the L. rothi complex (Squamata:Liolaeminae).

PubMed

Olave, Melisa; Avila, Luciano J; Sites, Jack W; Morando, Mariana

2017-02-01

Currently, Liolaemus is the second most species-rich reptile genus in the world (257 species), and predictions of its real diversity suggest that it may be the most diverse genus. Originally, Liolaemus species were described as widely distributed and morphologically variable taxa, but extensive sampling in previously unexplored geographic areas, coupled with molecular and more extensive morphological studies, have discovered an unexpectedly high number of previously undetected species. Here, we study the level of molecular vs. morphological divergence within the L. rothi complex, combining a total of 14 loci (2 mitochondrial and 12 nuclear loci) for 97 individuals, as well as morphological data (nine morphometric and 15 color pattern variables), that represent all six described species of the L. rothi complex, plus two candidate species. We use the multi-coalescent species delimitation program iBPP and resolve strong differences in molecular divergence; and each species is inferred as an independent lineage supported by high posterior probabilities. However, morphological differences are not that clear, and our modeling of morphological characters suggests differential selection pressures implying some level of morphological stasis. We discuss the role of natural selection on phenotypic traits, which may be an important factor in "hiding" the real diversity of the genus. Copyright © 2016. Published by Elsevier Inc.

Digestive enzymes and gut morphometric parameters of threespine stickleback (Gasterosteus aculeatus): Influence of body size and temperature

PubMed Central

Marchand, Adrien; Turies, Cyril; Kerambrun, Elodie; Palluel, Olivier; Bado-Nilles, Anne; Beaudouin, Rémy; Porcher, Jean-Marc; Geffard, Alain; Dedourge-Geffard, Odile

2018-01-01

Determining digestive enzyme activity is of potential interest to obtain and understand valuable information about fish digestive physiology, since digestion is an elementary process of fish metabolism. We described for the first time (i) three digestive enzymes: amylase, trypsin and intestinal alkaline phosphatase (IAP), and (ii) three gut morphometric parameters: relative gut length (RGL), relative gut mass (RGM) and Zihler’s index (ZI) in threespine stickleback (Gasterosteus aculeatus), and we studied the effect of temperature and body size on these parameters. When mimicking seasonal variation in temperature, body size had no effect on digestive enzyme activity. The highest levels of amylase and trypsin activity were observed at 18°C, while the highest IAP activity was recorded at 20°C. When sticklebacks were exposed to three constant temperatures (16, 18 and 21°C), a temporal effect correlated to fish growth was observed with inverse evolution patterns between amylase activity and the activities of trypsin and IAP. Temperature (in both experiments) had no effect on morphometric parameters. However, a temporal variation was recorded for both RGM (in the second experiment) and ZI (in both experiments), and the later was correlated to fish body mass. PMID:29614133

Digestive enzymes and gut morphometric parameters of threespine stickleback (Gasterosteus aculeatus): Influence of body size and temperature.

PubMed

Hani, Younes Mohamed Ismail; Marchand, Adrien; Turies, Cyril; Kerambrun, Elodie; Palluel, Olivier; Bado-Nilles, Anne; Beaudouin, Rémy; Porcher, Jean-Marc; Geffard, Alain; Dedourge-Geffard, Odile

2018-01-01

Determining digestive enzyme activity is of potential interest to obtain and understand valuable information about fish digestive physiology, since digestion is an elementary process of fish metabolism. We described for the first time (i) three digestive enzymes: amylase, trypsin and intestinal alkaline phosphatase (IAP), and (ii) three gut morphometric parameters: relative gut length (RGL), relative gut mass (RGM) and Zihler's index (ZI) in threespine stickleback (Gasterosteus aculeatus), and we studied the effect of temperature and body size on these parameters. When mimicking seasonal variation in temperature, body size had no effect on digestive enzyme activity. The highest levels of amylase and trypsin activity were observed at 18°C, while the highest IAP activity was recorded at 20°C. When sticklebacks were exposed to three constant temperatures (16, 18 and 21°C), a temporal effect correlated to fish growth was observed with inverse evolution patterns between amylase activity and the activities of trypsin and IAP. Temperature (in both experiments) had no effect on morphometric parameters. However, a temporal variation was recorded for both RGM (in the second experiment) and ZI (in both experiments), and the later was correlated to fish body mass.

Morphometric and magmatic evolution at the Boset-Bericha Volcanic Complex in the Main Ethiopian Rift

NASA Astrophysics Data System (ADS)

Siegburg, Melanie; Gernon, Thomas; Bull, Jonathan; Keir, Derek; Taylor, Rex; Nixon, Casey; Abebe, Bekele; Ayele, Atalay

2017-04-01

Tectono-magmatic interactions are an intrinsic feature of continental rifting and break up in the Main Ethiopian Rift (MER). The Boset-Bericha volcanic complex (BBVC) is one of the largest stratovolcanoes in the MER (with a total area of ˜870 km2), with volcanism largely occurring over the last ˜2 Myr. Despite the fact that 4 million people live within 100 km of the volcano, little is known about its eruptive history and how the volcanic system interacts with rift valley tectonics. Here, we present a detailed relative eruption chronology combined with morphometric analyses of different elements of the volcanic complex and petrological analyses to constrain morphometric and magmatic evolution at the BBVC. Additionally, tectonic activity has been characterised around the BBVC, all based on field observations and mapping using high-resolution digital elevation data. The BBVC consists of the Gudda Volcano and the younger Bericha Volcano, two silicic eruption centres located along the NNE-SSW trending rift axis. The fault population predominantly comprises distributed extensional faults parallel to the rift axis, as well as localised discrete faults with displacements of up to 50 m in the rift centre, and up to 200 m in the NE-SW trending border fault system. Multiple cones, craters and fissure systems are also oriented parallel to the rift axis, i.e. perpendicular to the minimum compressive stress. The eruption history of BBVC can be differentiated into 5 main eruption stages, subdivided into at least 12 eruptive phases with a total of 128 mappable lava flows. Crosscutting relationships of lava flows provide a relative chronology of the eruptive history of the BBVC, starting with pre-BBVC rift floor basalts, pre-caldera and caldera activity, three post-caldera phases at the Gudda Volcano and two phases forming the Bericha Volcano. At least four fissure eruption phases occurred along the rift axis temporally in between the main eruptive phases. Morphometric analyses indicate a total corrected volume of eruptive material at the BBVC of ˜36 km3. The magmatic and morphometric evolution of the BBVC is spatially and temporally complex, showing a bimodal distribution of effusive basalts towards explosive peralkaline trachytic and rhyolitic lavas for the Gudda and Bericha Volcano, respectively, with rare intermediate lavas from fissure eruptions. Preliminary geochemical data suggest that fractional crystallisation may have played an important role in driving magmatic evolution the BBVC. This study emphasises the important role of tectono-magmatic interactions in the evolution of a continental rift system.

Development of a new morphometric to assess beach storm response and recovery

NASA Astrophysics Data System (ADS)

Brenner, O.; Hapke, C. J.

2014-12-01

Various morphometrics are used to measure coastal change over a variety of time scales including shoreline, dune elevation and position, and beach profile volume. Each has limitations, many of which became apparent in the aftermath of Hurricane Sandy, including the juxtaposition of levelled dunes and a substantially prograded shoreline. In order to understand sustained beach behavior, including recovery after Hurricane Sandy, we develop a new morphometric - an upper beach change envelope (BCE) specific to Fire Island, NY. The upper beach better captures impacts from more frequent moderate storms during which there may be substantial beach change but less impact to the dune, and is less subject to the variable fluctuations nearer to the shoreline that only marginally influence future vulnerability and overall coastal resilience. The BCE can also be used to quantify the gradual recovery of the beach after storm events and is not reliant on the presence of a morphologic feature such as a dune, which may take many years to recover after a severe storm.The BCE at Fire Island is based on a time series of historical response to storms. The BCE boundaries are elevation contours that capture the portion of the upper beach that experiences erosion during moderate nor'easter events but is above the influence of tides and lesser events. In an application of the BCE concept, we use the BCE boundary elevations to quantify beach response from Hurricane Sandy and document the subsequent recovery, using a time series of post-Sandy elevation contours. The data include 10 profile sites from Fire Island that were surveyed multiple times from October 2012 to June 2014. Utilizing this time series we measure changes in the cross shore position of the BCE elevation boundaries. Initial assessments indicate the BCE successfully captures coastal response through time, including extensive change during Hurricane Sandy as well as subsequent seasonal changes. The recent data indicate there is a temporal trend towards widening of the BCE, due to sustained progradation of the lower boundary. This trend may represent a new "recovery state" of the beach which is wider than the pre-Sandy beach, providing an increase in the fetch that favors the aeolian processes of dune reformation.

Crack Damage Detection Method via Multiple Visual Features and Efficient Multi-Task Learning Model.

PubMed

Wang, Baoxian; Zhao, Weigang; Gao, Po; Zhang, Yufeng; Wang, Zhe

2018-06-02

This paper proposes an effective and efficient model for concrete crack detection. The presented work consists of two modules: multi-view image feature extraction and multi-task crack region detection. Specifically, multiple visual features (such as texture, edge, etc.) of image regions are calculated, which can suppress various background noises (such as illumination, pockmark, stripe, blurring, etc.). With the computed multiple visual features, a novel crack region detector is advocated using a multi-task learning framework, which involves restraining the variability for different crack region features and emphasizing the separability between crack region features and complex background ones. Furthermore, the extreme learning machine is utilized to construct this multi-task learning model, thereby leading to high computing efficiency and good generalization. Experimental results of the practical concrete images demonstrate that the developed algorithm can achieve favorable crack detection performance compared with traditional crack detectors.

Salient contour extraction from complex natural scene in night vision image

NASA Astrophysics Data System (ADS)

Han, Jing; Yue, Jiang; Zhang, Yi; Bai, Lian-fa

2014-03-01

The theory of center-surround interaction in non-classical receptive field can be applied in night vision information processing. In this work, an optimized compound receptive field modulation method is proposed to extract salient contour from complex natural scene in low-light-level (LLL) and infrared images. The kernel idea is that multi-feature analysis can recognize the inhomogeneity in modulatory coverage more accurately and that center and surround with the grouping structure satisfying Gestalt rule deserves high connection-probability. Computationally, a multi-feature contrast weighted inhibition model is presented to suppress background and lower mutual inhibition among contour elements; a fuzzy connection facilitation model is proposed to achieve the enhancement of contour response, the connection of discontinuous contour and the further elimination of randomly distributed noise and texture; a multi-scale iterative attention method is designed to accomplish dynamic modulation process and extract contours of targets in multi-size. This work provides a series of biologically motivated computational visual models with high-performance for contour detection from cluttered scene in night vision images.

The Approach to Study the Kama Reservoir Basin Deformation in the Zone of a Variable Backwater

NASA Astrophysics Data System (ADS)

Dvinskikh, S. A.; Kitaev, A. B.; Shaydulina, A. A.

2018-01-01

A reservoir floor starts to change since it has been filled up to a normal headwater level (NHL) under the impact of hydrosphere and lithosphere interactions as well as under the impact of chemical and biological processes that occur in its water masses. At that complicated and often contradictory “relations” between features of geo- and hydrodynamic processes are created. The consequences of these relations are the alterations of values of morphometric indices of the reservoir water surface, depth and volume. We observe two processes that are oppositely directed. They are accumulation and erosion. They are more complex at the upper area of the reservoir - the zone of a variable backwater. The basin deformation observed there is lop-sided and relatively quiet, but with time these deformations make difficulties for water users. To provide good navigation and to reduce harmful effect of waters on other water consumption objects, it is necessary to study and to forecast constantly the basin transformation processes that occur at this zone.

HCS-Neurons: identifying phenotypic changes in multi-neuron images upon drug treatments of high-content screening.

PubMed

Charoenkwan, Phasit; Hwang, Eric; Cutler, Robert W; Lee, Hua-Chin; Ko, Li-Wei; Huang, Hui-Ling; Ho, Shinn-Ying

2013-01-01

High-content screening (HCS) has become a powerful tool for drug discovery. However, the discovery of drugs targeting neurons is still hampered by the inability to accurately identify and quantify the phenotypic changes of multiple neurons in a single image (named multi-neuron image) of a high-content screen. Therefore, it is desirable to develop an automated image analysis method for analyzing multi-neuron images. We propose an automated analysis method with novel descriptors of neuromorphology features for analyzing HCS-based multi-neuron images, called HCS-neurons. To observe multiple phenotypic changes of neurons, we propose two kinds of descriptors which are neuron feature descriptor (NFD) of 13 neuromorphology features, e.g., neurite length, and generic feature descriptors (GFDs), e.g., Haralick texture. HCS-neurons can 1) automatically extract all quantitative phenotype features in both NFD and GFDs, 2) identify statistically significant phenotypic changes upon drug treatments using ANOVA and regression analysis, and 3) generate an accurate classifier to group neurons treated by different drug concentrations using support vector machine and an intelligent feature selection method. To evaluate HCS-neurons, we treated P19 neurons with nocodazole (a microtubule depolymerizing drug which has been shown to impair neurite development) at six concentrations ranging from 0 to 1000 ng/mL. The experimental results show that all the 13 features of NFD have statistically significant difference with respect to changes in various levels of nocodazole drug concentrations (NDC) and the phenotypic changes of neurites were consistent to the known effect of nocodazole in promoting neurite retraction. Three identified features, total neurite length, average neurite length, and average neurite area were able to achieve an independent test accuracy of 90.28% for the six-dosage classification problem. This NFD module and neuron image datasets are provided as a freely downloadable MatLab project at http://iclab.life.nctu.edu.tw/HCS-Neurons. Few automatic methods focus on analyzing multi-neuron images collected from HCS used in drug discovery. We provided an automatic HCS-based method for generating accurate classifiers to classify neurons based on their phenotypic changes upon drug treatments. The proposed HCS-neurons method is helpful in identifying and classifying chemical or biological molecules that alter the morphology of a group of neurons in HCS.

Cumulus cell expansion and first polar body extrusion during in vitro oocyte maturation in relation to morphological and morphometric characteristics of the dromedary camel ovary.

PubMed

Mesbah, F; Kafi, M; Nili, H

2016-12-01

The morphological and morphometric characteristics of the ovary are fundamental properties for in vitro oocyte maturation. Nuclear maturation, including first polar body (1PB) extrusion, cytoplasmic maturation and cumulus cell (CC) expansion are the criteria for in vitro maturation (IVM) of oocyte. This study was designed to determine the effect of morphological and morphometric features of the ovary on CC expansion and 1PB extrusion during IVM of oocyte in the adult female dromedary camel. The weight, volume and three dimensions of ovaries from slaughtered dromedary camels and oocytes inside zona diameter and zona pellucida thickness were measured. The follicles were classified in regard to the size and oocytes according to their ooplasm appearance and CC compactness. Aspirated cumulus oocyte complexes (COCs) were incubated for 48 hr (with a 6-hr interval) in Hams-F10, and CC expansion and 1PB extrusion were assessed. Significant differences were seen in the shape, weight, volume and three dimensions of the ovaries between ≤4-year-old and >4-year-old dromedary camel (p < .5). Approximately, 95.82% of follicles were 2-4 mm in diameter. The mean (±SD) of inside zona diameter of the oocyte and zona pellucida thickness was 132.22 ± 13.8 and 14.64 ± 2.24 μm, respectively, in >4-year-old dromedary camel. The CC expansion and 1PB extrusion were seen in 86% and 21.88% of COCs, respectively. Age and sexual conditions of dromedary camel influence the morphological and morphometric characteristics of the ovary. Most COCs retrieved from 2-6 mm follicles are cultivable. The most slaughterhouse-derived COCs retrieved from 2-6 mm follicles of non-pregnant dromedary camels are excellent and good and yielding a most favourable diameter to achieve the developmental competence for IVM in an optimal time of 24-30 hr; the optimal time for CC expansion is 24-30 hr in this species. However, the CC expansion is a prerequisite process, but not sufficient for IVM. © 2016 Blackwell Verlag GmbH.

Fused Traditional and Geometric Morphometrics Demonstrate Pinniped Whisker Diversity

PubMed Central

Ginter, Carly C.; DeWitt, Thomas J.; Fish, Frank E.; Marshall, Christopher D.

2012-01-01

Vibrissae (whiskers) are important components of the mammalian tactile sensory system, and primarily function as detectors of vibrotactile information from the environment. Pinnipeds possess the largest vibrissae among mammals and their vibrissal hair shafts demonstrate a diversity of shapes. The vibrissae of most phocid seals exhibit a beaded morphology with repeating sequences of crests and troughs along their length. However, there are few detailed analyses of pinniped vibrissal morphology, and these are limited to a few species. Therefore, we comparatively characterized differences in vibrissal hair shaft morphologies among phocid species with a beaded profile, phocid species with a smooth profile, and otariids with a smooth profile using traditional and geometric morphometric methods. Traditional morphometric measurements (peak-to-peak distance, crest width, trough width and total length) were collected using digital photographs. Elliptic Fourier analysis (geometric morphometrics) was used to quantify the outlines of whole vibrissae. The traditional and geometric morphometric datasets were subsequently combined by mathematically scaling each to true rank, followed by a single eigendecomposition. Quadratic discriminant function analysis demonstrated that 79.3, 97.8 and 100% of individuals could be correctly classified to their species based on vibrissal shape variables in the traditional, geometric and combined morphometric analyses, respectively. Phocids with beaded vibrissae, phocids with smooth vibrissae, and otariids each occupied distinct morphospace in the geometric morphometric and combined data analyses. Otariids split into two groups in the geometric morphometric analysis and gray seals appeared intermediate between beaded- and smooth-whiskered species in the traditional and combined analyses. Vibrissal hair shafts modulate the transduction of environmental stimuli to the mechanoreceptors in the follicle-sinus complex (F-SC), which results in vibrotactile reception, but it is currently unclear how the diversity of shapes affects environmental signal modulation. PMID:22509310

Method of Grassland Information Extraction Based on Multi-Level Segmentation and Cart Model

NASA Astrophysics Data System (ADS)

Qiao, Y.; Chen, T.; He, J.; Wen, Q.; Liu, F.; Wang, Z.

2018-04-01

It is difficult to extract grassland accurately by traditional classification methods, such as supervised method based on pixels or objects. This paper proposed a new method combing the multi-level segmentation with CART (classification and regression tree) model. The multi-level segmentation which combined the multi-resolution segmentation and the spectral difference segmentation could avoid the over and insufficient segmentation seen in the single segmentation mode. The CART model was established based on the spectral characteristics and texture feature which were excavated from training sample data. Xilinhaote City in Inner Mongolia Autonomous Region was chosen as the typical study area and the proposed method was verified by using visual interpretation results as approximate truth value. Meanwhile, the comparison with the nearest neighbor supervised classification method was obtained. The experimental results showed that the total precision of classification and the Kappa coefficient of the proposed method was 95 % and 0.9, respectively. However, the total precision of classification and the Kappa coefficient of the nearest neighbor supervised classification method was 80 % and 0.56, respectively. The result suggested that the accuracy of classification proposed in this paper was higher than the nearest neighbor supervised classification method. The experiment certificated that the proposed method was an effective extraction method of grassland information, which could enhance the boundary of grassland classification and avoid the restriction of grassland distribution scale. This method was also applicable to the extraction of grassland information in other regions with complicated spatial features, which could avoid the interference of woodland, arable land and water body effectively.

Automated Geo/Co-Registration of Multi-Temporal Very-High-Resolution Imagery.

PubMed

Han, Youkyung; Oh, Jaehong

2018-05-17

For time-series analysis using very-high-resolution (VHR) multi-temporal satellite images, both accurate georegistration to the map coordinates and subpixel-level co-registration among the images should be conducted. However, applying well-known matching methods, such as scale-invariant feature transform and speeded up robust features for VHR multi-temporal images, has limitations. First, they cannot be used for matching an optical image to heterogeneous non-optical data for georegistration. Second, they produce a local misalignment induced by differences in acquisition conditions, such as acquisition platform stability, the sensor's off-nadir angle, and relief displacement of the considered scene. Therefore, this study addresses the problem by proposing an automated geo/co-registration framework for full-scene multi-temporal images acquired from a VHR optical satellite sensor. The proposed method comprises two primary steps: (1) a global georegistration process, followed by (2) a fine co-registration process. During the first step, two-dimensional multi-temporal satellite images are matched to three-dimensional topographic maps to assign the map coordinates. During the second step, a local analysis of registration noise pixels extracted between the multi-temporal images that have been mapped to the map coordinates is conducted to extract a large number of well-distributed corresponding points (CPs). The CPs are finally used to construct a non-rigid transformation function that enables minimization of the local misalignment existing among the images. Experiments conducted on five Kompsat-3 full scenes confirmed the effectiveness of the proposed framework, showing that the georegistration performance resulted in an approximately pixel-level accuracy for most of the scenes, and the co-registration performance further improved the results among all combinations of the georegistered Kompsat-3 image pairs by increasing the calculated cross-correlation values.

Neotectonic Activity from Karewa Sediments, Kashmir Himalaya, India

NASA Astrophysics Data System (ADS)

Agarwal, K. K.; Shah, R. A.; Achyuthan, H.; Singh, D. S.; Srivastava, S.; Khan, I.

2018-01-01

Intermontane basin sedimentation occurred during Pliocene-Pleistocene in the Karewa Basin which formed after the continent-continent collision resulting in the formation of Himalayan orogenic belt around Eocene. These are elongated, narrow, thrust bounded basins which have formed during the late stages of orogeny. Situated at a height of 1700-1800 m above sea level, the Karewa basin received sediments because of ponding of a pre-existing river system and the tectonic movements along the Great Himalayan Ranges in the north and the Pir-Panjal ranges in the south along active faults. About 1300 m thick sediments of largely fluvio-lacustrine, glacio-fluvio-lacustrine and eolian origin are exposed having evidences of neotectonically formed structural features such as folds and faults. Folds are more prominent in the Lower Karewa formation (Hirpur Formation) while faults (mostly normal faults) are abundant in the Upper Karewas (Nagum Formation). Drainage in the area varies from dendritic to anastomosing to parallel. Anastomosing drainage suggests sudden decrease in gradient while presence of linear features such as faults and ridges is evident by parallel drainage. Study of morphometric parameters such as stream length (Lsm) and stream length ratios (RL), bifurcation ratio (Rb), drainage density (D), form factor (Rf), circularity ratio (Rc), and elongation ratio (Re) also indicate intense tectonic activity in the recent past.

Computational Modeling of Multi-Scale Material Features in Cement Paste - An Overview

DTIC Science & Technology

2015-05-25

and concrete ; though commonly used are one of the most complex in terms of material morphology and structure than most materials, for example...across the multiple scales are required. In this paper, recent work from our research group on the nano to continuum level modeling of cementitious...of our research work consisting of, • Molecular Dynamics (MD) modeling for the nano scale features of the cementitious material chemistry. • Micro

Drug related webpages classification using images and text information based on multi-kernel learning

NASA Astrophysics Data System (ADS)

Hu, Ruiguang; Xiao, Liping; Zheng, Wenjuan

2015-12-01

In this paper, multi-kernel learning(MKL) is used for drug-related webpages classification. First, body text and image-label text are extracted through HTML parsing, and valid images are chosen by the FOCARSS algorithm. Second, text based BOW model is used to generate text representation, and image-based BOW model is used to generate images representation. Last, text and images representation are fused with a few methods. Experimental results demonstrate that the classification accuracy of MKL is higher than those of all other fusion methods in decision level and feature level, and much higher than the accuracy of single-modal classification.

Multi-Source Multi-Target Dictionary Learning for Prediction of Cognitive Decline.

PubMed

Zhang, Jie; Li, Qingyang; Caselli, Richard J; Thompson, Paul M; Ye, Jieping; Wang, Yalin

2017-06-01

Alzheimer's Disease (AD) is the most common type of dementia. Identifying correct biomarkers may determine pre-symptomatic AD subjects and enable early intervention. Recently, Multi-task sparse feature learning has been successfully applied to many computer vision and biomedical informatics researches. It aims to improve the generalization performance by exploiting the shared features among different tasks. However, most of the existing algorithms are formulated as a supervised learning scheme. Its drawback is with either insufficient feature numbers or missing label information. To address these challenges, we formulate an unsupervised framework for multi-task sparse feature learning based on a novel dictionary learning algorithm. To solve the unsupervised learning problem, we propose a two-stage Multi-Source Multi-Target Dictionary Learning (MMDL) algorithm. In stage 1, we propose a multi-source dictionary learning method to utilize the common and individual sparse features in different time slots. In stage 2, supported by a rigorous theoretical analysis, we develop a multi-task learning method to solve the missing label problem. Empirical studies on an N = 3970 longitudinal brain image data set, which involves 2 sources and 5 targets, demonstrate the improved prediction accuracy and speed efficiency of MMDL in comparison with other state-of-the-art algorithms.

New Graph Models and Algorithms for Detecting Salient Structures from Cluttered Images

DTIC Science & Technology

2010-02-24

Development of graph models and algorithms to detect boundaries that show certain levels of symmetry, an important geometric property of many...Bookstein. Morphometric tools for landmark data. Cambridge University Press, 1991. [8] F. L. Bookstein. Principal warps: Thin-plate splines and the

Design of a 0.13-μm CMOS cascade expandable ΣΔ modulator for multi-standard RF telecom systems

NASA Astrophysics Data System (ADS)

Morgado, Alonso; del Río, Rocío; de la Rosa, José M.

2007-05-01

This paper reports a 130-nm CMOS programmable cascade ΣΔ modulator for multi-standard wireless terminals, capable of operating on three standards: GSM, Bluetooth and UMTS. The modulator is reconfigured at both architecture- and circuit- level in order to adapt its performance to the different standards specifications with optimized power consumption. The design of the building blocks is based upon a top-down CAD methodology that combines simulation and statistical optimization at different levels of the system hierarchy. Transistor-level simulations show correct operation for all standards, featuring 13-bit, 11.3-bit and 9-bit effective resolution within 200-kHz, 1-MHz and 4-MHz bandwidth, respectively.

I Hear You Eat and Speak: Automatic Recognition of Eating Condition and Food Type, Use-Cases, and Impact on ASR Performance

PubMed Central

Hantke, Simone; Weninger, Felix; Kurle, Richard; Ringeval, Fabien; Batliner, Anton; Mousa, Amr El-Desoky; Schuller, Björn

2016-01-01

We propose a new recognition task in the area of computational paralinguistics: automatic recognition of eating conditions in speech, i. e., whether people are eating while speaking, and what they are eating. To this end, we introduce the audio-visual iHEARu-EAT database featuring 1.6 k utterances of 30 subjects (mean age: 26.1 years, standard deviation: 2.66 years, gender balanced, German speakers), six types of food (Apple, Nectarine, Banana, Haribo Smurfs, Biscuit, and Crisps), and read as well as spontaneous speech, which is made publicly available for research purposes. We start with demonstrating that for automatic speech recognition (ASR), it pays off to know whether speakers are eating or not. We also propose automatic classification both by brute-forcing of low-level acoustic features as well as higher-level features related to intelligibility, obtained from an Automatic Speech Recogniser. Prediction of the eating condition was performed with a Support Vector Machine (SVM) classifier employed in a leave-one-speaker-out evaluation framework. Results show that the binary prediction of eating condition (i. e., eating or not eating) can be easily solved independently of the speaking condition; the obtained average recalls are all above 90%. Low-level acoustic features provide the best performance on spontaneous speech, which reaches up to 62.3% average recall for multi-way classification of the eating condition, i. e., discriminating the six types of food, as well as not eating. The early fusion of features related to intelligibility with the brute-forced acoustic feature set improves the performance on read speech, reaching a 66.4% average recall for the multi-way classification task. Analysing features and classifier errors leads to a suitable ordinal scale for eating conditions, on which automatic regression can be performed with up to 56.2% determination coefficient. PMID:27176486

A web-system of virtual morphometric globes

NASA Astrophysics Data System (ADS)

Florinsky, Igor; Garov, Andrei; Karachevtseva, Irina

2017-04-01

Virtual globes — programs implementing interactive three-dimensional (3D) models of planets — are increasingly used in geo- and planetary sciences. We develop a web-system of virtual morphometric globes. As the initial data, we used the following global digital elevation models (DEMs): (1) a DEM of the Earth extracted from SRTM30_PLUS database; (2) a DEM of Mars extracted from the Mars Orbiter Laser Altimeter (MOLA) gridded data record archive; and (3) A DEM of the Moon extracted from the Lunar Orbiter Laser Altimeter (LOLA) gridded data record archive. From these DEMs, we derived global digital models of the following 16 local, nonlocal, and combined morphometric variables: horizontal curvature, vertical curvature, mean curvature, Gaussian curvature, minimal curvature, maximal curvature, unsphericity curvature, difference curvature, vertical excess curvature, horizontal excess curvature, ring curvature, accumulation curvature, catchment area, dispersive area, topographic index, and stream power index (definitions, formulae, and interpretations can be found elsewhere [1]). To calculate local morphometric variables, we applied a finite-difference method intended for spheroidal equal angular grids [1]. Digital models of a nonlocal and combined morphometric variables were derived by a method of Martz and de Jong adapted to spheroidal equal angular grids [1]. DEM processing was performed in the software LandLord [1]. The calculated morphometric models were integrated into the testing version of the system. The following main functions are implemented in the system: (1) selection of a celestial body; (2) selection of a morphometric variable; (3) 2D visualization of a calculated global morphometric model (a map in equirectangular projection); (4) 3D visualization of a calculated global morphometric model on the sphere surface (a globe by itself); (5) change of a globe scale (zooming); and (6) globe rotation by an arbitrary angle. The testing version of the system represents morphometric models with the resolution of 15'. In the final version of the system, we plan to implement a multiscale 3D visualization for models of 17 morphometric variables with the resolution from 15' to 30". The web-system of virtual morphometric globes is designed as a separate unit of a 3D web GIS for storage, processing, and access to planetary data [2], which is currently developed as an extension of an existing 2D web GIS (http://cartsrv.mexlab.ru/geoportal). Free, real-time web access to the system of virtual globes will be provided. The testing version of the system is available at: http://cartsrv.mexlab.ru/virtualglobe. The study is supported by the Russian Foundation for Basic Research, grant 15-07-02484. References 1. Florinsky, I.V., 2016. Digital Terrain Analysis in Soil Science and Geology. 2nd ed. Academic Press, Amsterdam, 486 p. 2. Garov, A.S., Karachevtseva, I.P., Matveev, E.V., Zubarev, A.E., and Florinsky, I.V., 2016. Development of a heterogenic distributed environment for spatial data processing using cloud technologies. International Archives of the Photogrammetry, Remote Sensing and Spatial Information Sciences, 41(B4): 385-390.

New multi-scale approach to improve explanation of patterns of contemporary morphodynamics in the badland landscapes of Central Italy: the important Quaternary context

NASA Astrophysics Data System (ADS)

Vergari, Francesca; Troiani, Francesco; Della Seta, Marta; Faulkner, Hazel; Schwanghart, Wolfgang; Ciccacci, Sirio; Del Monte, Maurizio; Fredi, Paola

2016-04-01

Spatial patterns and magnitudes of short-term erosional processes are often the result of longer-term landscape-wide morphodynamics. Their combined analysis, however, is challenged by different spatial scales, data availability and resolution. Integrating both analyses has thus rarely been done though urgently needed to better understand and manage present day erosional dynamics and land degradation. In this study we aim at overcoming these shortcomings by exploring a multi-scale approach, based on a nested experimental design that integrates the traditional monitoring of erosion processes at local and short time scale, with the longer-term (over the last 103-105 yr) and basin-to-morphostructure scale analysis of landscape morphodynamics. We investigated the geomorphological behaviour of a Mediterranean active badland site located in the Upper Orcia Valley (Southern Tuscany, Italy). This choice is justified by the availability of decadal erosion monitoring datasets at a range of scales, and the rapidity of development of erosion processes. Based on the analysis of drainage network and its longitudinal and planform pattern, we tested the hypothesis that this rejuvenating, actively erosional landscape presents hotspots of denudation processes on hillslope and in channel network that are largely associated with (a) knickpoints on stream longitudinal profiles, (b) sites of strong connectivity, and (c) sites of strong divide competition with adjacent, aggressive and non-aggressive systems. To illustrate and explore this nested approach, we extracted the channel network and analysed stream longitudinal profiles using the MATLAB-based TopoToolbox program, starting from the 27x27 m Aster GDEM. The stream network morphometric analyses involved computing and mapping χ-values, a transformation that normalizes the longitudinal distance by upslope area and which serves as a proxy of the dynamic state of river basins based on the current geometry of the river network. Finally, we projected on the longitudinal profiles of the Orcia River and some of its main tributaries a full range of geomorphic features which are relevant for the interpretation of the landscape morphoevolution, connectivity and erosion/deposition dynamics: i) competitive divides; ii) sites with different degree of connectivity within the drainage system; iii) sites experiencing different erosion rates; iv) sites with in-channel depositional features and landslide deposits; v) remnants of relict geomorphic surfaces. The plano-altimetric distribution of such features, compared with the drainage network evolutionary stage, allowed to better understand the morphodynamics of badland areas and to define future scenarios in the perspective of a better management of hazardous processes.

Mission Connect Mild TBI Translational Research Consortium

DTIC Science & Technology

2013-08-01

year 2 and 3 annual progress report we completed the morphometric and the diffusion tensor imaging (DTI) in cortical impact injury with and without...and morphometric measures. Response to EAB feedback: No concerns were expressed by the External Advisory Board about the MRI core. Manuscript...automatic analysis of morphometry, DTI, and MTR for both humans and rodents.  Completed morphometric and DTI analysis in traumatically injured animals

Multi-channel EEG-based sleep stage classification with joint collaborative representation and multiple kernel learning.

PubMed

Shi, Jun; Liu, Xiao; Li, Yan; Zhang, Qi; Li, Yingjie; Ying, Shihui

2015-10-30

Electroencephalography (EEG) based sleep staging is commonly used in clinical routine. Feature extraction and representation plays a crucial role in EEG-based automatic classification of sleep stages. Sparse representation (SR) is a state-of-the-art unsupervised feature learning method suitable for EEG feature representation. Collaborative representation (CR) is an effective data coding method used as a classifier. Here we use CR as a data representation method to learn features from the EEG signal. A joint collaboration model is established to develop a multi-view learning algorithm, and generate joint CR (JCR) codes to fuse and represent multi-channel EEG signals. A two-stage multi-view learning-based sleep staging framework is then constructed, in which JCR and joint sparse representation (JSR) algorithms first fuse and learning the feature representation from multi-channel EEG signals, respectively. Multi-view JCR and JSR features are then integrated and sleep stages recognized by a multiple kernel extreme learning machine (MK-ELM) algorithm with grid search. The proposed two-stage multi-view learning algorithm achieves superior performance for sleep staging. With a K-means clustering based dictionary, the mean classification accuracy, sensitivity and specificity are 81.10 ± 0.15%, 71.42 ± 0.66% and 94.57 ± 0.07%, respectively; while with the dictionary learned using the submodular optimization method, they are 80.29 ± 0.22%, 71.26 ± 0.78% and 94.38 ± 0.10%, respectively. The two-stage multi-view learning based sleep staging framework outperforms all other classification methods compared in this work, while JCR is superior to JSR. The proposed multi-view learning framework has the potential for sleep staging based on multi-channel or multi-modality polysomnography signals. Copyright © 2015 Elsevier B.V. All rights reserved.

PredPPCrys: accurate prediction of sequence cloning, protein production, purification and crystallization propensity from protein sequences using multi-step heterogeneous feature fusion and selection.

PubMed

Wang, Huilin; Wang, Mingjun; Tan, Hao; Li, Yuan; Zhang, Ziding; Song, Jiangning

2014-01-01

X-ray crystallography is the primary approach to solve the three-dimensional structure of a protein. However, a major bottleneck of this method is the failure of multi-step experimental procedures to yield diffraction-quality crystals, including sequence cloning, protein material production, purification, crystallization and ultimately, structural determination. Accordingly, prediction of the propensity of a protein to successfully undergo these experimental procedures based on the protein sequence may help narrow down laborious experimental efforts and facilitate target selection. A number of bioinformatics methods based on protein sequence information have been developed for this purpose. However, our knowledge on the important determinants of propensity for a protein sequence to produce high diffraction-quality crystals remains largely incomplete. In practice, most of the existing methods display poorer performance when evaluated on larger and updated datasets. To address this problem, we constructed an up-to-date dataset as the benchmark, and subsequently developed a new approach termed 'PredPPCrys' using the support vector machine (SVM). Using a comprehensive set of multifaceted sequence-derived features in combination with a novel multi-step feature selection strategy, we identified and characterized the relative importance and contribution of each feature type to the prediction performance of five individual experimental steps required for successful crystallization. The resulting optimal candidate features were used as inputs to build the first-level SVM predictor (PredPPCrys I). Next, prediction outputs of PredPPCrys I were used as the input to build second-level SVM classifiers (PredPPCrys II), which led to significantly enhanced prediction performance. Benchmarking experiments indicated that our PredPPCrys method outperforms most existing procedures on both up-to-date and previous datasets. In addition, the predicted crystallization targets of currently non-crystallizable proteins were provided as compendium data, which are anticipated to facilitate target selection and design for the worldwide structural genomics consortium. PredPPCrys is freely available at http://www.structbioinfor.org/PredPPCrys.

A New Fiji-Based Algorithm That Systematically Quantifies Nine Synaptic Parameters Provides Insights into Drosophila NMJ Morphometry

PubMed Central

Wolf, Louis; Scheffer-de Gooyert, Jolanda M.; Monedero, Ignacio; Torroja, Laura; Coromina, Lluis; van der Laak, Jeroen A. W. M.; Schenck, Annette

2016-01-01

The morphology of synapses is of central interest in neuroscience because of the intimate relation with synaptic efficacy. Two decades of gene manipulation studies in different animal models have revealed a repertoire of molecules that contribute to synapse development. However, since such studies often assessed only one, or at best a few, morphological features at a given synapse, it remained unaddressed how different structural aspects relate to one another. Furthermore, such focused and sometimes only qualitative approaches likely left many of the more subtle players unnoticed. Here, we present the image analysis algorithm ‘Drosophila_NMJ_Morphometrics’, available as a Fiji-compatible macro, for quantitative, accurate and objective synapse morphometry of the Drosophila larval neuromuscular junction (NMJ), a well-established glutamatergic model synapse. We developed this methodology for semi-automated multiparametric analyses of NMJ terminals immunolabeled for the commonly used markers Dlg1 and Brp and showed that it also works for Hrp, Csp and Syt. We demonstrate that gender, genetic background and identity of abdominal body segment consistently and significantly contribute to variability in our data, suggesting that controlling for these parameters is important to minimize variability in quantitative analyses. Correlation and principal component analyses (PCA) were performed to investigate which morphometric parameters are inter-dependent and which ones are regulated rather independently. Based on nine acquired parameters, we identified five morphometric groups: NMJ size, geometry, muscle size, number of NMJ islands and number of active zones. Based on our finding that the parameters of the first two principal components hardly correlated with each other, we suggest that different molecular processes underlie these two morphometric groups. Our study sets the stage for systems morphometry approaches at the well-studied Drosophila NMJ. PMID:26998933

Sperm motility parameters and spermatozoa morphometric characterization in marine species: a study of swimmer and sessile species.

PubMed

Gallego, V; Pérez, L; Asturiano, J F; Yoshida, M

2014-09-15

The biodiversity of marine ecosystems is diverse and a high number of species coexist side by side. However, despite the fact that most of these species share a common fertilization strategy, a high variability in terms of the size, shape, and motion of spermatozoa can be found. In this study, we have analyzed both the sperm motion parameters and the spermatozoa morphometric features of two swimmer (pufferfish and European eel) and two sessile (sea urchin and ascidian) marine species. The most important differences in the sperm motion parameters were registered in the swimming period. Sessile species sperm displayed notably higher values than swimmer species sperm. In addition, the sperm motilities and velocities of the swimmer species decreased sharply once the sperm was activated, whereas the sessile species were able to maintain their initial values for a long time. These results are linked directly to the species-specific lifestyles. Although sessile organisms, which show limited or no movement, need sperm with a capacity to swim for long distances to find the oocytes, swimmer organisms can move toward the female and release gametes near it, and therefore the spermatozoa does not need to swim for such a long time. At the same time, sperm morphology is related to sperm motion parameters, and in this study an in-depth morphometric analysis of ascidian, sea urchin, and pufferfish spermatozoa, using computer-assisted sperm analysis software, has been carried out for the first time. A huge variability in shapes, sizes, and structures of the studied species was found using electron microscopy. Copyright © 2014 Elsevier Inc. All rights reserved.

3D Analysis of Human Embryos and Fetuses Using Digitized Datasets From the Kyoto Collection.

PubMed

Takakuwa, Tetsuya

2018-06-01

Three-dimensional (3D) analysis of the human embryonic and early-fetal period has been performed using digitized datasets obtained from the Kyoto Collection, in which the digital datasets play a primary role in research. Datasets include magnetic resonance imaging (MRI) acquired with 1.5 T, 2.35 T, and 7 T magnet systems, phase-contrast X-ray computed tomography (CT), and digitized histological serial sections. Large, high-resolution datasets covering a broad range of developmental periods obtained with various methods of acquisition are key elements for the studies. The digital data have gross merits that enabled us to develop various analysis. Digital data analysis accelerated the speed of morphological observations using precise and improved methods by providing a suitable plane for a morphometric analysis from staged human embryos. Morphometric data are useful for quantitatively evaluating and demonstrating the features of development and for screening abnormal samples, which may be suggestive in the pathogenesis of congenital malformations. Morphometric data are also valuable for comparing sonographic data in a process known as "sonoembryology." The 3D coordinates of anatomical landmarks may be useful tools for analyzing the positional change of interesting landmarks and their relationships during development. Several dynamic events could be explained by differential growth using 3D coordinates. Moreover, 3D coordinates can be utilized in mathematical analysis as well as statistical analysis. The 3D analysis in our study may serve to provide accurate morphologic data, including the dynamics of embryonic structures related to developmental stages, which is required for insights into the dynamic and complex processes occurring during organogenesis. Anat Rec, 301:960-969, 2018. © 2018 Wiley Periodicals, Inc. © 2018 Wiley Periodicals, Inc.

Bi-level multi-source learning for heterogeneous block-wise missing data.

PubMed

Xiang, Shuo; Yuan, Lei; Fan, Wei; Wang, Yalin; Thompson, Paul M; Ye, Jieping

2014-11-15

Bio-imaging technologies allow scientists to collect large amounts of high-dimensional data from multiple heterogeneous sources for many biomedical applications. In the study of Alzheimer's Disease (AD), neuroimaging data, gene/protein expression data, etc., are often analyzed together to improve predictive power. Joint learning from multiple complementary data sources is advantageous, but feature-pruning and data source selection are critical to learn interpretable models from high-dimensional data. Often, the data collected has block-wise missing entries. In the Alzheimer's Disease Neuroimaging Initiative (ADNI), most subjects have MRI and genetic information, but only half have cerebrospinal fluid (CSF) measures, a different half has FDG-PET; only some have proteomic data. Here we propose how to effectively integrate information from multiple heterogeneous data sources when data is block-wise missing. We present a unified "bi-level" learning model for complete multi-source data, and extend it to incomplete data. Our major contributions are: (1) our proposed models unify feature-level and source-level analysis, including several existing feature learning approaches as special cases; (2) the model for incomplete data avoids imputing missing data and offers superior performance; it generalizes to other applications with block-wise missing data sources; (3) we present efficient optimization algorithms for modeling complete and incomplete data. We comprehensively evaluate the proposed models including all ADNI subjects with at least one of four data types at baseline: MRI, FDG-PET, CSF and proteomics. Our proposed models compare favorably with existing approaches. © 2013 Elsevier Inc. All rights reserved.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Islam, Md. Shafiqul, E-mail: shafique@eng.ukm.my; Hannan, M.A., E-mail: hannan@eng.ukm.my; Basri, Hassan

Highlights: • Solid waste bin level detection using Dynamic Time Warping (DTW). • Gabor wavelet filter is used to extract the solid waste image features. • Multi-Layer Perceptron classifier network is used for bin image classification. • The classification performance evaluated by ROC curve analysis. - Abstract: The increasing requirement for Solid Waste Management (SWM) has become a significant challenge for municipal authorities. A number of integrated systems and methods have introduced to overcome this challenge. Many researchers have aimed to develop an ideal SWM system, including approaches involving software-based routing, Geographic Information Systems (GIS), Radio-frequency Identification (RFID), or sensormore » intelligent bins. Image processing solutions for the Solid Waste (SW) collection have also been developed; however, during capturing the bin image, it is challenging to position the camera for getting a bin area centralized image. As yet, there is no ideal system which can correctly estimate the amount of SW. This paper briefly discusses an efficient image processing solution to overcome these problems. Dynamic Time Warping (DTW) was used for detecting and cropping the bin area and Gabor wavelet (GW) was introduced for feature extraction of the waste bin image. Image features were used to train the classifier. A Multi-Layer Perceptron (MLP) classifier was used to classify the waste bin level and estimate the amount of waste inside the bin. The area under the Receiver Operating Characteristic (ROC) curves was used to statistically evaluate classifier performance. The results of this developed system are comparable to previous image processing based system. The system demonstration using DTW with GW for feature extraction and an MLP classifier led to promising results with respect to the accuracy of waste level estimation (98.50%). The application can be used to optimize the routing of waste collection based on the estimated bin level.« less

Automatic Detection of Driver Fatigue Using Driving Operation Information for Transportation Safety

PubMed Central

Li, Zuojin; Chen, Liukui; Peng, Jun; Wu, Ying

2017-01-01

Fatigued driving is a major cause of road accidents. For this reason, the method in this paper is based on the steering wheel angles (SWA) and yaw angles (YA) information under real driving conditions to detect drivers’ fatigue levels. It analyzes the operation features of SWA and YA under different fatigue statuses, then calculates the approximate entropy (ApEn) features of a short sliding window on time series. Using the nonlinear feature construction theory of dynamic time series, with the fatigue features as input, designs a “2-6-6-3” multi-level back propagation (BP) Neural Networks classifier to realize the fatigue detection. An approximately 15-h experiment is carried out on a real road, and the data retrieved are segmented and labeled with three fatigue levels after expert evaluation, namely “awake”, “drowsy” and “very drowsy”. The average accuracy of 88.02% in fatigue identification was achieved in the experiment, endorsing the value of the proposed method for engineering applications. PMID:28587072

Automatic Detection of Driver Fatigue Using Driving Operation Information for Transportation Safety.

PubMed

Li, Zuojin; Chen, Liukui; Peng, Jun; Wu, Ying

2017-05-25

Fatigued driving is a major cause of road accidents. For this reason, the method in this paper is based on the steering wheel angles (SWA) and yaw angles (YA) information under real driving conditions to detect drivers' fatigue levels. It analyzes the operation features of SWA and YA under different fatigue statuses, then calculates the approximate entropy (ApEn) features of a short sliding window on time series. Using the nonlinear feature construction theory of dynamic time series, with the fatigue features as input, designs a "2-6-6-3" multi-level back propagation (BP) Neural Networks classifier to realize the fatigue detection. An approximately 15-h experiment is carried out on a real road, and the data retrieved are segmented and labeled with three fatigue levels after expert evaluation, namely "awake", "drowsy" and "very drowsy". The average accuracy of 88.02% in fatigue identification was achieved in the experiment, endorsing the value of the proposed method for engineering applications.

Novel avian oropharyngeal trichomonads isolated from European turtle doves (Streptopelia turtur) and racing pigeons (Columba livia): genetic and morphometric characterisation of clonal cultures.

PubMed

Martínez-Herrero, M C; Garijo-Toledo, M M; Liebhart, D; Ganas, P; Martínez-Díaz, R A; Ponce-Gordo, F; Carrero-Ruiz, A; Hess, M; Gómez-Muñoz, M T

2017-11-01

Extensive diversity has been described within the avian oropharyngeal trichomonad complex in recent years. In this study we developed clonal cultures from four isolates selected by their different ITS1/5.8S/ITS2 (ITS) genotype and their association with gross lesions of avian trichomonosis. Isolates were obtained from an adult racing pigeon and a nestling of Eurasian eagle owl with macroscopic lesions, and from a juvenile wood pigeon and an European turtle dove without clinical signs. Multi-locus sequence typing analysis of the ITS, small subunit of ribosomal rRNA (SSUrRNA) and Fe-hydrogenase (Fe-hyd) genes together with a morphological study by optical and scanning electron microscopy was performed. No significant differences in the structures were observed with scanning electron microscopy. However, the genetic characterisation revealed novel sequence types for the SSUrRNA region and Fe-hyd gene. Two clones were identified as Trichomonas gallinae in the MLST analysis, but the clones from the racing pigeon and European turtle dove showed higher similarity with Trichomonas tenax and Trichomonas canistomae than with T. gallinae at their ITS region, respectively. SSUrRNA sequences grouped all the clones in a clade that includes T. gallinae, T. tenax and T. canistomae. Further diversity was detected within the Fe-hyd locus, with a clear separation from T. gallinae of the clones obtained from the racing pigeon and the European turtle dove. In addition, morphometric comparison by optical microscopy with clonal cultures of T. gallinae revealed significant statistical differences on axostyle projection length in the clone from the European turtle dove. Morphometric and genetic data indicate that possible new species within the Trichomonas genus were detected. Taking in consideration the diversity in Trichomonas species present in the oral cavity of birds, a proper genetic analysis is highly recommended when outbreaks occur. Copyright © 2017 Elsevier B.V. All rights reserved.

Multi-Task Learning with Low Rank Attribute Embedding for Multi-Camera Person Re-Identification.

PubMed

Su, Chi; Yang, Fan; Zhang, Shiliang; Tian, Qi; Davis, Larry Steven; Gao, Wen

2018-05-01

We propose Multi-Task Learning with Low Rank Attribute Embedding (MTL-LORAE) to address the problem of person re-identification on multi-cameras. Re-identifications on different cameras are considered as related tasks, which allows the shared information among different tasks to be explored to improve the re-identification accuracy. The MTL-LORAE framework integrates low-level features with mid-level attributes as the descriptions for persons. To improve the accuracy of such description, we introduce the low-rank attribute embedding, which maps original binary attributes into a continuous space utilizing the correlative relationship between each pair of attributes. In this way, inaccurate attributes are rectified and missing attributes are recovered. The resulting objective function is constructed with an attribute embedding error and a quadratic loss concerning class labels. It is solved by an alternating optimization strategy. The proposed MTL-LORAE is tested on four datasets and is validated to outperform the existing methods with significant margins.

Performance Characteristics of the Multi-Zone NAS Parallel Benchmarks

NASA Technical Reports Server (NTRS)

Jin, Haoqiang; VanderWijngaart, Rob F.

2003-01-01

We describe a new suite of computational benchmarks that models applications featuring multiple levels of parallelism. Such parallelism is often available in realistic flow computations on systems of grids, but had not previously been captured in bench-marks. The new suite, named NPB Multi-Zone, is extended from the NAS Parallel Benchmarks suite, and involves solving the application benchmarks LU, BT and SP on collections of loosely coupled discretization meshes. The solutions on the meshes are updated independently, but after each time step they exchange boundary value information. This strategy provides relatively easily exploitable coarse-grain parallelism between meshes. Three reference implementations are available: one serial, one hybrid using the Message Passing Interface (MPI) and OpenMP, and another hybrid using a shared memory multi-level programming model (SMP+OpenMP). We examine the effectiveness of hybrid parallelization paradigms in these implementations on three different parallel computers. We also use an empirical formula to investigate the performance characteristics of the multi-zone benchmarks.

Defect-Repairable Latent Feature Extraction of Driving Behavior via a Deep Sparse Autoencoder

PubMed Central

Taniguchi, Tadahiro; Takenaka, Kazuhito; Bando, Takashi

2018-01-01

Data representing driving behavior, as measured by various sensors installed in a vehicle, are collected as multi-dimensional sensor time-series data. These data often include redundant information, e.g., both the speed of wheels and the engine speed represent the velocity of the vehicle. Redundant information can be expected to complicate the data analysis, e.g., more factors need to be analyzed; even varying the levels of redundancy can influence the results of the analysis. We assume that the measured multi-dimensional sensor time-series data of driving behavior are generated from low-dimensional data shared by the many types of one-dimensional data of which multi-dimensional time-series data are composed. Meanwhile, sensor time-series data may be defective because of sensor failure. Therefore, another important function is to reduce the negative effect of defective data when extracting low-dimensional time-series data. This study proposes a defect-repairable feature extraction method based on a deep sparse autoencoder (DSAE) to extract low-dimensional time-series data. In the experiments, we show that DSAE provides high-performance latent feature extraction for driving behavior, even for defective sensor time-series data. In addition, we show that the negative effect of defects on the driving behavior segmentation task could be reduced using the latent features extracted by DSAE. PMID:29462931

Surface EMG signals based motion intent recognition using multi-layer ELM

NASA Astrophysics Data System (ADS)

Wang, Jianhui; Qi, Lin; Wang, Xiao

2017-11-01

The upper-limb rehabilitation robot is regard as a useful tool to help patients with hemiplegic to do repetitive exercise. The surface electromyography (sEMG) contains motion information as the electric signals are generated and related to nerve-muscle motion. These sEMG signals, representing human's intentions of active motions, are introduced into the rehabilitation robot system to recognize upper-limb movements. Traditionally, the feature extraction is an indispensable part of drawing significant information from original signals, which is a tedious task requiring rich and related experience. This paper employs a deep learning scheme to extract the internal features of the sEMG signals using an advanced Extreme Learning Machine based auto-encoder (ELMAE). The mathematical information contained in the multi-layer structure of the ELM-AE is used as the high-level representation of the internal features of the sEMG signals, and thus a simple ELM can post-process the extracted features, formulating the entire multi-layer ELM (ML-ELM) algorithm. The method is employed for the sEMG based neural intentions recognition afterwards. The case studies show the adopted deep learning algorithm (ELM-AE) is capable of yielding higher classification accuracy compared to the Principle Component Analysis (PCA) scheme in 5 different types of upper-limb motions. This indicates the effectiveness and the learning capability of the ML-ELM in such motion intent recognition applications.

a Framework of Change Detection Based on Combined Morphologica Features and Multi-Index Classification

NASA Astrophysics Data System (ADS)

Li, S.; Zhang, S.; Yang, D.

2017-09-01

Remote sensing images are particularly well suited for analysis of land cover change. In this paper, we present a new framework for detection of changing land cover using satellite imagery. Morphological features and a multi-index are used to extract typical objects from the imagery, including vegetation, water, bare land, buildings, and roads. Our method, based on connected domains, is different from traditional methods; it uses image segmentation to extract morphological features, while the enhanced vegetation index (EVI), the differential water index (NDWI) are used to extract vegetation and water, and a fragmentation index is used to the correct extraction results of water. HSV transformation and threshold segmentation extract and remove the effects of shadows on extraction results. Change detection is performed on these results. One of the advantages of the proposed framework is that semantic information is extracted automatically using low-level morphological features and indexes. Another advantage is that the proposed method detects specific types of change without any training samples. A test on ZY-3 images demonstrates that our framework has a promising capability to detect change.

Design and fabrication of thin microvascularised polymer matrices inspired from secondary lamellae of fish gills

NASA Astrophysics Data System (ADS)

Kumar, Prasoon; Gandhi, Prasanna S.; Majumder, Mainak

2016-04-01

Gills are one of the most primitive gas, solute exchange organs available in fishes. They facilitate exchange of gases, solutes and ions with a surrounding water medium through their functional unit called secondary lamella. These lamellae through their extraordinary morphometric features and peculiar arrangement in gills, achieve remarkable mass transport properties. Therefore, in the current study, modeling and simulation of convection-diffusion transport through a two dimensional model of secondary lamella and theoretical analysis of morphometric features of fish gills were carried out. Such study suggested an evolutionary conservation of parametric ratios across fishes of different weights. Further, we have also fabricated a thin microvascularised PDMS matrices mimicking secondary lamella by use of micro-technologies like electrospinning. In addition, we have also demonstrated the fluid flow by capillary action through these thin microvascularised PDMS matrices. Eventually, we also illustrated the application of these thin microvascularied PDMS matrices in solute exchange process under capillary flow conditions. Thus, our study suggested that fish gills have optimized parameteric ratios, at multiple length scale, throughout an evolution to achieve an organ with enhanced mass transport capabilities. Thus, these defined parametric ratios could be exploited to design and develop efficient, scaled-up gas/solute exchange microdevices. We also proposed an inexpensive and scalable method of fabrication of thin microvascularised polymer matrices and demonstrated its solute exchange capabilities under capillary flow conditions. Thus, mimicking the microstructures of secondary lamella will enable fabrication of microvascularised thin polymer systems through micro manufacturing technologies for potential applications in filtration, self-healing/cooling materials and bioengineering.

Construction of population-specific Indian MRI brain template: Morphometric comparison with Chinese and Caucasian templates.

PubMed

Bhalerao, Gaurav Vivek; Parlikar, Rujuta; Agrawal, Rimjhim; Shivakumar, Venkataram; Kalmady, Sunil V; Rao, Naren P; Agarwal, Sri Mahavir; Narayanaswamy, Janardhanan C; Reddy, Y C Janardhan; Venkatasubramanian, Ganesan

2018-06-01

Spatial normalization of brain MR images is highly dependent on the choice of target brain template. Morphological differences caused by factors like genetic and environmental exposures, generates a necessity to construct population specific brain templates. Brain image analysis performed using brain templates from Caucasian population may not be appropriate for non-Caucasian population. In this study, our objective was to construct an Indian brain template from a large population (N = 157 subjects) and compare the morphometric parameters of this template with that of Chinese-56 and MNI-152 templates. In addition, using an independent MRI data of 15 Indian subjects, we also evaluated the potential registration accuracy differences using these three templates. Indian brain template was constructed using iterative routines as per established procedures. We compared our Indian template with standard MNI-152 template and Chinese template by measuring global brain features. We also examined accuracy of registration by aligning 15 new Indian brains to Indian, Chinese and MNI templates. Furthermore, we supported our measurement protocol with inter-rater and intra-rater reliability analysis. Our results showed that there were significant differences in global brain features of Indian template in comparison with Chinese and MNI brain templates. The results of registration accuracy analysis revealed that fewer deformations are required when Indian brains are registered to Indian template as compared to Chinese and MNI templates. This study concludes that population specific Indian template is likely to be more appropriate for structural and functional image analysis of Indian population. Copyright © 2018 Elsevier B.V. All rights reserved.

Combined Use of Morphological and Molecular Tools to Resolve Species Mis-Identifications in the Bivalvia The Case of Glycymeris glycymeris and G. pilosa

PubMed Central

Holmes, Anna; Bušelić, Ivana; Thébault, Julien; Featherstone, Amy

2016-01-01

Morphological and molecular tools were combined to resolve the misidentification between Glycymeris glycymeris and Glycymeris pilosa from Atlantic and Mediterranean populations. The ambiguous literature on the taxonomic status of these species requires this confirmation as a baseline to studies on their ecology and sclerochronology. We used classical and landmark-based morphometric approaches and performed bivariate and multivariate analyses to test for shell character interactions at the individual and population level. Both approaches generated complementary information. The former showed the shell width to length ratio and the valve asymmetry to be the main discriminant characters between Atlantic and Mediterranean populations. Additionally, the external microsculpture of additional and finer secondary ribs in G. glycymeris discriminates it from G. pilosa. Likewise, landmark-based geometric morphometrics revealed a stronger opisthogyrate beak and prosodetic ligament in G. pilosa than G. glycymeris. Our Bayesian and maximum likelihood phylogenetic analyses based on COI and ITS2 genes identified that G. glycymeris and G. pilosa form two separate monophyletic clades with mean interspecific divergence of 11% and 0.9% for COI and ITS2, respectively. The congruent patterns of morphometric analysis together with mitochondrial and nuclear phylogenetic reconstructions indicated the separation of the two coexisting species. The intraspecific divergence occurred during the Eocene and accelerated during the late Pliocene and Pleistocene. Glycymeris pilosa showed a high level of genetic diversity, appearing as a more robust species whose tolerance of environmental conditions allowed its expansion throughout the Mediterranean. PMID:27669452

Pixel-Level Deep Segmentation: Artificial Intelligence Quantifies Muscle on Computed Tomography for Body Morphometric Analysis.

PubMed

Lee, Hyunkwang; Troschel, Fabian M; Tajmir, Shahein; Fuchs, Georg; Mario, Julia; Fintelmann, Florian J; Do, Synho

2017-08-01

Pretreatment risk stratification is key for personalized medicine. While many physicians rely on an "eyeball test" to assess whether patients will tolerate major surgery or chemotherapy, "eyeballing" is inherently subjective and difficult to quantify. The concept of morphometric age derived from cross-sectional imaging has been found to correlate well with outcomes such as length of stay, morbidity, and mortality. However, the determination of the morphometric age is time intensive and requires highly trained experts. In this study, we propose a fully automated deep learning system for the segmentation of skeletal muscle cross-sectional area (CSA) on an axial computed tomography image taken at the third lumbar vertebra. We utilized a fully automated deep segmentation model derived from an extended implementation of a fully convolutional network with weight initialization of an ImageNet pre-trained model, followed by post processing to eliminate intramuscular fat for a more accurate analysis. This experiment was conducted by varying window level (WL), window width (WW), and bit resolutions in order to better understand the effects of the parameters on the model performance. Our best model, fine-tuned on 250 training images and ground truth labels, achieves 0.93 ± 0.02 Dice similarity coefficient (DSC) and 3.68 ± 2.29% difference between predicted and ground truth muscle CSA on 150 held-out test cases. Ultimately, the fully automated segmentation system can be embedded into the clinical environment to accelerate the quantification of muscle and expanded to volume analysis of 3D datasets.

Variation in Craniomandibular Morphology and Sexual Dimorphism in Pantherines and the Sabercat Smilodon fatalis

PubMed Central

Christiansen, Per; Harris, John M.

2012-01-01

Sexual dimorphism is widespread among carnivorans, and has been an important evolutionary factor in social ecology. However, its presence in sabertoothed felids remains contentious. Here we present a comprehensive analysis of extant Panthera and the sabertoothed felid Smilodon fatalis. S. fatalis has been reported to show little or no sexual dimorphism but to have been intraspecifically variable in skull morphology. We found that large and small specimens of S. fatalis could be assigned to male and female sexes with similar degrees of confidence as Panthera based on craniomandibular shape. P. uncia is much less craniomandibularly variable and has low levels of sexual size-dimorphism. Shape variation in S. fatalis probably reflects sexual differences. Craniomandibular size-dimorphism is lower in S. fatalis than in Panthera except P. uncia. Sexual dimorphism in felids is related to more than overall size, and S. fatalis and the four large Panthera species show marked and similar craniomandibular and dental morphometric sexual dimorphism, whereas morphometric dimorphism in P. uncia is less. Many morphometric-sexually dimorphic characters in Panthera and Smilodon are related to bite strength and presumably to killing ecology. This suggests that morphometric sexual dimorphism is an evolutionary adaptation to intraspecific resource partitioning, since large males with thicker upper canines and stronger bite forces would be able to hunt larger prey than females, which is corroborated by feeding ecology in P. leo. Sexual dimorphism indicates that S. fatalis could have been social, but it is unlikely that it lived in fusion-fission units dominated by one or a few males, as in sub-Saharan populations of P. leo. Instead, S. fatalis could have been solitary and polygynous, as most extant felids, or it may have lived in unisexual groups, as is common in P. leo persica. PMID:23110232

High prevalence of morphometric vertebral deformities in patients with inflammatory bowel disease.

PubMed

Heijckmann, Anna Caroline; Huijberts, Maya S P; Schoon, Erik J; Geusens, Piet; de Vries, Jolanda; Menheere, Paul P C A; van der Veer, Eveline; Wolffenbuttel, Bruce H R; Stockbrugger, Reinhold W; Dumitrescu, Bianca; Nieuwenhuijzen Kruseman, Arie C

2008-08-01

Earlier studies have documented that the prevalence of decreased bone mineral density (BMD) is elevated in patients with inflammatory bowel disease. The objective of this study was to investigate the prevalence of vertebral deformities in inflammatory bowel disease patients and their relation with BMD and bone turnover. One hundred and nine patients with Crohn's disease (CD) and 72 with ulcerative colitis (UC) (age 44.5+/-14.2 years) were studied. BMD of the hip (by dual X-ray absorptiometry) was measured and a lateral single energy densitometry of the spine for assessment of vertebral deformities was performed. Serum markers of bone resorption (carboxy-terminal cross-linked telopeptide of type I collagen) and formation (procollagen type I amino-terminal propeptide) were measured, and determinants of prevalent vertebral deformities were assessed using logistic regression analysis. Vertebral deformities were found in 25% of both CD and UC patients. Comparing patients with and without vertebral deformities, no significant difference was found between Z-scores and T-scores of BMD, or levels of serum carboxy-terminal cross-linked telopeptide of type I collagen and serum procollagen type I amino-terminal propeptide. Using logistic regression analysis the only determinant of any morphometric vertebral deformity was sex. The presence of multiple vertebral deformities was associated with older age and glucocorticoid use. The prevalence of morphometric vertebral deformities is high in CD and UC. Male sex, but neither disease activity, bone turnover markers, clinical risk factors, nor BMD predicted their presence. The determinants for having more than one vertebral deformity were age and glucocorticoid use. This implies that in addition to screening for low BMD, morphometric assessment of vertebral deformities is warranted in CD and UC.

Spectral imaging of histological and cytological specimens

NASA Astrophysics Data System (ADS)

Rothmann, Chana; Malik, Zvi

1999-05-01

Evaluation of cell morphology by bright field microscopy is the pillar of histopathological diagnosis. The need for quantitative and objective parameters for diagnosis has given rise to the development of morphometric methods. The development of spectral imaging for biological and medical applications introduced both fields to large amounts of information extracted from a single image. Spectroscopic analysis is based on the ability of a stained histological specimen to absorb, reflect, or emit photons in ways characteristic to its interactions with specific dyes. Spectral information obtained from a histological specimen is stored in a cube whose appellate signifies the two spatial dimensions of a flat sample (x and y) and the third dimension, the spectrum, representing the light intensity for every wavelength. The spectral information stored in the cube can be further processed by morphometric analysis and quantitative procedures. Such a procedure is spectral-similarity mapping (SSM), which enables the demarcation of areas occupied by the same type of material. SSM constructs new images of the specimen, revealing areas with similar stain-macromolecule characteristics and enhancing subcellular features. Spectral imaging combined with SSM reveals nuclear organization through the differentiation stages as well as in apoptotic and necrotic conditions and identifies specifically the nucleoli domains.

3D geometric morphometric analysis of the proximal epiphysis of the hominoid humerus

PubMed Central

Arias-Martorell, Julia; Potau, Josep Maria; Bello-Hellegouarch, Gaëlle; Pastor, Juan Francisco; Pérez-Pérez, Alejandro

2012-01-01

In this study we perform a three-dimensional geometric morphometric (3D GM) analysis of the proximal epiphysis of the humerus in extant great apes, including humans, in order to accurately describe the functional anatomical differences between these taxa. In addition, a fossil hominin specimen of Australopithecus afarensis was included in a multivariate GM analysis in order to test the potential of this methodological approach for making locomotor inferences from fossil remains. The results obtained show significant differences in proximal humeral morphology among the taxa studied, which had thus far largely remained unnoticed. Based on morphofunctional considerations, these anatomical differences can be correlated to differences in the locomotor repertoires of the taxa, thus confirming that the proximal humerus is suitable for constructing paleobiological inferences about locomotion. Modern humans display markedly divergent features, which set them apart from both the extant great apes and the fossil hominin A. afarensis. The morphology of the proximal epiphysis of the humerus of the latter more closely resembles that of the orangutans, thus suggesting that despite hindlimb adaptations to bipedalism, the forelimb of this taxon was still functionally involved in arboreal behaviors, such as climbing or suspension. PMID:22946496

Shape similarities and differences in the skulls of scavenging raptors.

PubMed

Guangdi, S I; Dong, Yiyi; Ma, Yujun; Zhang, Zihui

2015-04-01

Feeding adaptations are a conspicuous feature of avian evolution. Bill and cranial shape as well as the jaw muscles are closely related to diet choice and feeding behaviors. Diurnal raptors of Falconiformes exhibit a wide range of foraging behaviors and prey preferences, and are assigned to seven dietary groups in this study. Skulls of 156 species are compared from the dorsal, lateral and ventral views, by using geometric morphometric techniques with those landmarks capturing as much information as possible on the overall shape of cranium, bill, orbits, nostrils and attachment area for different jaw muscles. The morphometric data showed that the skull shape of scavengers differ significantly from other raptors, primarily because of different feeding adaptations. As a result of convergent evolution, different scavengers share generalized common morphology, possessing relatively slender and lower skulls, longer bills, smaller and more sideward orbits, and more caudally positioned quadrates. Significant phylogenetic signals suggested that phylogeny also played important role in shape variation within scavengers. New World vultures can be distinguished by their large nostrils, narrow crania and small orbits; Caracaras typically show large palatines, crania and orbits, as well as short, deep and sharp bill.

Form and function of the human and chimpanzee forefoot: implications for early hominin bipedalism.

PubMed

Fernández, Peter J; Holowka, Nicholas B; Demes, Brigitte; Jungers, William L

2016-07-28

During bipedal walking, modern humans dorsiflex their forefoot at the metatarsophalangeal joints (MTPJs) prior to push off, which tightens the plantar soft tissues to convert the foot into a stiff propulsive lever. Particular features of metatarsal head morphology such as "dorsal doming" are thought to facilitate this stiffening mechanism. In contrast, chimpanzees are believed to possess MTPJ morphology that precludes high dorsiflexion excursions during terrestrial locomotion. The morphological affinity of the metatarsal heads has been used to reconstruct locomotor behavior in fossil hominins, but few studies have provided detailed empirical data to validate the assumed link between morphology and function at the MTPJs. Using three-dimensional kinematic and morphometric analyses, we show that humans push off with greater peak dorsiflexion angles at all MTPJs than do chimpanzees during bipedal and quadrupedal walking, with the greatest disparity occurring at MTPJ 1. Among MTPJs 2-5, both species exhibit decreasing peak angles from medial to lateral. This kinematic pattern is mirrored in the morphometric analyses of metatarsal head shape. Analyses of Australopithecus afarensis metatarsals reveal morphology intermediate between humans and chimpanzees, suggesting that this species used different bipedal push-off kinematics than modern humans, perhaps resulting in a less efficient form of bipedalism.

Pleasure attainment or self-realization: the balance between two forms of well-beings are encoded in default mode network.

PubMed

Luo, Yangmei; Qi, Senqing; Chen, Xuhai; You, Xuqun; Huang, Xiting; Yang, Zhen

2017-10-01

What is a good life and how it can be achieved is one of the fundamental issues. When considering a good life, there is a division between hedonic (pleasure attainment) and eudaimonic well-being (meaning pursuing and self-realization). However, an integrated approach that can compare the brain functional and structural differences of these two forms of well-being is lacking. Here, we investigated how the individual tendency to eudaimonic well-being relative to hedonic well-being, measured using eudaimonic and hedonic balance (EHB) index, is reflected in the functional and structural features of a key network of well-being-the default mode network (DMN). We found that EHB was positively correlated with functional connectivity of bilateral ventral medial prefrontal cortex within anterior DMN and bilateral precuneus within posterior DMN. Brain morphometric analysis showed that EHB was also positively correlated with gray matter volume in left precuneus. These results demonstrated that the relative dominance of one form of well-being to the other is reflected in the morphometric characteristics and intrinsic functions of DMN. © The Author (2017). Published by Oxford University Press.

Morphometric characteristics of the metacestode Echinococcus vogeli Rausch & Bernstein, 1972 in human infections from the northern region of Brazil.

PubMed

Almeida, F; Oliveira, F; Neves, R; Siqueira, N; Rodrigues-Silva, R; Daipert-Garcia, D; Machado-Silva, J R

2015-07-01

Polycystic echinococcosis, caused by the larval stage (metacestode) of the small-sized tapeworm, Echinococcus vogeli, is an emerging parasitic zoonosis of great public health concern in the humid tropical rainforests of South and Central America. Because morphological and morphometric characteristics of the metacestode are not well known, hydatid cysts from the liver and the mesentery were examined from patients following surgical procedures. Whole mounts of protoscoleces with rostellar hooks were examined under light and confocal laser scanning microscopy. Measurements were made of both large and small hooks, including the total area, total length, total width, blade area, blade length, blade width, handle area, handle length and handle width. The results confirmed the 1:1 arrangement of hooks in the rostellar pad and indicated, for the first time, that the morphometry of large and small rostellar hooks varies depending upon the site of infection. Light and confocal microscopy images displayed clusters of calcareous corpuscles in the protoscoleces. In conclusion, morphological features of large and small rostellar hooks of E. vogeli are adapted to a varied environment within the vertebrate host and such morphological changes in calcareous corpuscles occur at different stages in the maturation of metacestodes.

Active Contours Driven by Multi-Feature Gaussian Distribution Fitting Energy with Application to Vessel Segmentation.

PubMed

Wang, Lei; Zhang, Huimao; He, Kan; Chang, Yan; Yang, Xiaodong

2015-01-01

Active contour models are of great importance for image segmentation and can extract smooth and closed boundary contours of the desired objects with promising results. However, they cannot work well in the presence of intensity inhomogeneity. Hence, a novel region-based active contour model is proposed by taking image intensities and 'vesselness values' from local phase-based vesselness enhancement into account simultaneously to define a novel multi-feature Gaussian distribution fitting energy in this paper. This energy is then incorporated into a level set formulation with a regularization term for accurate segmentations. Experimental results based on publicly available STructured Analysis of the Retina (STARE) demonstrate our model is more accurate than some existing typical methods and can successfully segment most small vessels with varying width.

Program review presentation to Level 1, Interagency Coordination Committee

NASA Technical Reports Server (NTRS)

1982-01-01

Progress in the development of crop inventory technology is reported. Specific topics include the results of a thematic mapper analysis, variable selection studies/early season estimator improvements, the agricultural information system simulator, large unit proportion estimation, and development of common features for multi-satellite information extraction.

Development of Osseointegrated Implants for Soldier Amputees Following Orthopaedic Extremity Trauma

DTIC Science & Technology

2007-08-01

bone fracture. The first year of research focused on determining morphometric variations in the internal structure of the human femur as a function...hypotheses the research will determine morphometric variations in the internal structure of the human femur as a function of gender, age, and ethnic...QUARTER 1): To perform the sizing studies for the sheep implants an IACUC exempt morphometric study was conducted using cadaveric sheep

Mid-Frequency Sonar Interactions With Beaked Whales

DTIC Science & Technology

2009-09-30

to acquire new high-resolution morphometric and physical-property data on beaked whales for use in the model. It is hoped that the availability of such... morphometric and physical-property data on beaked whales for use in the model. It is hoped that the availability of such a system, together with high-quality... morphometric data through computerized tomography (CT) scans on marine mammal carcasses, and constructing finite-element models of the anatomy

Development of Osseointegrated Implants for Soldier Amputees Following Orthopaedic Extremity Trauma

DTIC Science & Technology

2008-08-01

specimens, histology and mechanical testing of implants. The second focus of Year 2 was human morphometric studies on variations due to ethnicity, gender...custom implants in above-knee patients with amputations would require expensive custom type implants, a morphometric study was conducted on human...male and female cadaveric femurs. Morphometric variations of the periosteal surface of long bones have been identified with changing age, gender and

Multi-Feature Based Information Extraction of Urban Green Space Along Road

NASA Astrophysics Data System (ADS)

Zhao, H. H.; Guan, H. Y.

2018-04-01

Green space along road of QuickBird image was studied in this paper based on multi-feature-marks in frequency domain. The magnitude spectrum of green along road was analysed, and the recognition marks of the tonal feature, contour feature and the road were built up by the distribution of frequency channels. Gabor filters in frequency domain were used to detect the features based on the recognition marks built up. The detected features were combined as the multi-feature-marks, and watershed based image segmentation were conducted to complete the extraction of green space along roads. The segmentation results were evaluated by Fmeasure with P = 0.7605, R = 0.7639, F = 0.7622.

Spermiogram and sperm head morphometry assessed by multivariate cluster analysis results during adolescence (12-18 years) and the effect of varicocele

PubMed Central

Vásquez, Fernando; Soler, Carles; Camps, Patricia; Valverde, Anthony; García-Molina, Almudena

2016-01-01

This work evaluates sperm head morphometric characteristics in adolescents from 12 to 18 years of age, and the effect of varicocele. Volunteers between 150 and 224 months of age (mean 191, n = 87), who had reached oigarche by 12 years old, were recruited in the area of Barranquilla, Colombia. Morphometric analysis of sperm heads was performed with principal component (PC) and discriminant analysis. Combining seminal fluid and sperm parameters provided five PCs: two related to sperm morphometry, one to sperm motility, and two to seminal fluid components. Discriminant analysis on the morphometric results of varicocele and nonvaricocele groups did not provide a useful classification matrix. Of the semen-related PCs, the most explanatory (40%) was related to sperm motility. Two PCs, including sperm head elongation and size, were sufficient to evaluate sperm morphometric characteristics. Most of the morphometric variables were correlated with age, with an increase in size and decrease in the elongation of the sperm head. For head size, the entire sperm population could be divided into two morphometric subpopulations, SP1 and SP2, which did not change during adolescence. In general, for varicocele individuals, SP1 had larger and more elongated sperm heads than SP2, which had smaller and more elongated heads than in nonvaricocele men. In summary, sperm head morphometry assessed by CASA-Morph and multivariate cluster analysis provides a better comprehension of the ejaculate structure and possibly sperm function. Morphometric analysis provides much more information than data obtained from conventional semen analysis. PMID:27751986

Multi-Source Multi-Target Dictionary Learning for Prediction of Cognitive Decline

PubMed Central

Zhang, Jie; Li, Qingyang; Caselli, Richard J.; Thompson, Paul M.; Ye, Jieping; Wang, Yalin

2017-01-01

Alzheimer’s Disease (AD) is the most common type of dementia. Identifying correct biomarkers may determine pre-symptomatic AD subjects and enable early intervention. Recently, Multi-task sparse feature learning has been successfully applied to many computer vision and biomedical informatics researches. It aims to improve the generalization performance by exploiting the shared features among different tasks. However, most of the existing algorithms are formulated as a supervised learning scheme. Its drawback is with either insufficient feature numbers or missing label information. To address these challenges, we formulate an unsupervised framework for multi-task sparse feature learning based on a novel dictionary learning algorithm. To solve the unsupervised learning problem, we propose a two-stage Multi-Source Multi-Target Dictionary Learning (MMDL) algorithm. In stage 1, we propose a multi-source dictionary learning method to utilize the common and individual sparse features in different time slots. In stage 2, supported by a rigorous theoretical analysis, we develop a multi-task learning method to solve the missing label problem. Empirical studies on an N = 3970 longitudinal brain image data set, which involves 2 sources and 5 targets, demonstrate the improved prediction accuracy and speed efficiency of MMDL in comparison with other state-of-the-art algorithms. PMID:28943731

Quantification of Hepcidin-related Iron Accumulation in the Rat Liver.

PubMed

Böser, Preethne; Mordashova, Yulia; Maasland, Mark; Trommer, Isabel; Lorenz, Helga; Hafner, Mathias; Seemann, Dietmar; Mueller, Bernhard K; Popp, Andreas

2016-02-01

Hepcidin was originally detected as a liver peptide with antimicrobial activity and it functions as a central regulator in the systemic iron metabolism. Consequently suppression of hepcidin leads to iron accumulation in the liver. AbbVie developed a monoclonal antibody ([mAb]; repulsive guidance molecule [RGMa/c] mAb) that downregulates hepcidin expression by influencing the RGMc/bone morphogenetic protein (BMP)/neogenin receptor complex and causes iron deposition in the liver. In a dose range finding study with RGMa/c mAb, rats were treated with different dose levels for a total of 4 weekly doses. The results of this morphometric analysis in the liver showed that iron accumulation is not homogenous between liver lobes and the left lateral lobe was the most responsive lobe in the rat. Quantitative hepcidin messenger RNA analysis showed that the left lateral lobe was the most responsive lobe showing hepcidin downregulation with increasing antibody dose. In addition, the morphometric analysis had higher sensitivity than the chemical iron extraction and quantification using a colorimetric assay. In conclusion, the Prussian blue stain in combination with semi-quantitative and quantitative morphometric analysis is the most reliable method to demonstrate iron accumulation in the liver compared to direct measurement of iron in unfixed tissue using a colorimetric assay. © The Author(s) 2016.

Mismatch or allostatic load? Timing of life adversity differentially shapes gray matter volume and anxious temperament.

PubMed

Kuhn, Manuel; Scharfenort, Robert; Schümann, Dirk; Schiele, Miriam A; Münsterkötter, Anna L; Deckert, Jürgen; Domschke, Katharina; Haaker, Jan; Kalisch, Raffael; Pauli, Paul; Reif, Andreas; Romanos, Marcel; Zwanzger, Peter; Lonsdorf, Tina B

2016-04-01

Traditionally, adversity was defined as the accumulation of environmental events (allostatic load). Recently however, a mismatch between the early and the later (adult) environment (mismatch) has been hypothesized to be critical for disease development, a hypothesis that has not yet been tested explicitly in humans. We explored the impact of timing of life adversity (childhood and past year) on anxiety and depression levels (N = 833) and brain morphology (N = 129). Both remote (childhood) and proximal (recent) adversities were differentially mirrored in morphometric changes in areas critically involved in emotional processing (i.e. amygdala/hippocampus, dorsal anterior cingulate cortex, respectively). The effect of adversity on affect acted in an additive way with no evidence for interactions (mismatch). Structural equation modeling demonstrated a direct effect of adversity on morphometric estimates and anxiety/depression without evidence of brain morphology functioning as a mediator. Our results highlight that adversity manifests as pronounced changes in brain morphometric and affective temperament even though these seem to represent distinct mechanistic pathways. A major goal of future studies should be to define critical time periods for the impact of adversity and strategies for intervening to prevent or reverse the effects of adverse childhood life experiences. © The Author (2015). Published by Oxford University Press.

Mismatch or allostatic load? Timing of life adversity differentially shapes gray matter volume and anxious temperament

PubMed Central

Kuhn, Manuel; Scharfenort, Robert; Schümann, Dirk; Schiele, Miriam A.; Münsterkötter, Anna L.; Deckert, Jürgen; Domschke, Katharina; Haaker, Jan; Kalisch, Raffael; Pauli, Paul; Reif, Andreas; Romanos, Marcel; Zwanzger, Peter

2016-01-01

Traditionally, adversity was defined as the accumulation of environmental events (allostatic load). Recently however, a mismatch between the early and the later (adult) environment (mismatch) has been hypothesized to be critical for disease development, a hypothesis that has not yet been tested explicitly in humans. We explored the impact of timing of life adversity (childhood and past year) on anxiety and depression levels (N = 833) and brain morphology (N = 129). Both remote (childhood) and proximal (recent) adversities were differentially mirrored in morphometric changes in areas critically involved in emotional processing (i.e. amygdala/hippocampus, dorsal anterior cingulate cortex, respectively). The effect of adversity on affect acted in an additive way with no evidence for interactions (mismatch). Structural equation modeling demonstrated a direct effect of adversity on morphometric estimates and anxiety/depression without evidence of brain morphology functioning as a mediator. Our results highlight that adversity manifests as pronounced changes in brain morphometric and affective temperament even though these seem to represent distinct mechanistic pathways. A major goal of future studies should be to define critical time periods for the impact of adversity and strategies for intervening to prevent or reverse the effects of adverse childhood life experiences. PMID:26568620

[Morphometric characteristics of the asterion and the posterolateral surface of the skull: its relationship with dural venous sinuses and its neurosurgical importance].

PubMed

Galindo-de León, Salvador; Hernández-Rodríguez, Alejandra Nohemí; Morales-Ávalos, Rodolfo; Theriot-Girón, María Del Carmen; Elizondo-Omaña, Rodrigo Enrique; Guzmán-López, Santos

2013-01-01

The knowledge of the location and morphometric of the lateral venous sinus (transverse and sigmoid), and their relationship with the asterion and other surface anatomical landmarks, it is imperative for posterolateral approaches to the posterior cranial fossa to avoid vascular structures injury and surgical complications. Determine an anatomical area security for a drill that allows entry into the posterior cranial fossa without damaging adjacent structures, and study the morphometric characteristics asterion, the lateral sinus and bony landmarks of the posterolateral surface of the skull. With a 1.3 mm drill drilled both sides of 88 dry skulls (176 hemicranias). The anatomical landmarks studied were the asterion, the apex of the mastoid process, spina suprameatal, the Frankfurt horizontal plane, the posterior root of the zygomatic arch, the external occipital protuberance and its relationship with the sinus transversus. The asterion type I prevails in 74.4% of the pieces. In 82.4% of the skulls asterion level is, sinus transversus in less than 12.5% and above this at 5.1%. With the data obtained from this and other research, the initial trephine should be placed below the 15 mm and 15 mm asterion post this to reduce the risk of injury from sinus transversus.

UAV-based urban structural damage assessment using object-based image analysis and semantic reasoning

NASA Astrophysics Data System (ADS)

Fernandez Galarreta, J.; Kerle, N.; Gerke, M.

2015-06-01

Structural damage assessment is critical after disasters but remains a challenge. Many studies have explored the potential of remote sensing data, but limitations of vertical data persist. Oblique imagery has been identified as more useful, though the multi-angle imagery also adds a new dimension of complexity. This paper addresses damage assessment based on multi-perspective, overlapping, very high resolution oblique images obtained with unmanned aerial vehicles (UAVs). 3-D point-cloud assessment for the entire building is combined with detailed object-based image analysis (OBIA) of façades and roofs. This research focuses not on automatic damage assessment, but on creating a methodology that supports the often ambiguous classification of intermediate damage levels, aiming at producing comprehensive per-building damage scores. We identify completely damaged structures in the 3-D point cloud, and for all other cases provide the OBIA-based damage indicators to be used as auxiliary information by damage analysts. The results demonstrate the usability of the 3-D point-cloud data to identify major damage features. Also the UAV-derived and OBIA-processed oblique images are shown to be a suitable basis for the identification of detailed damage features on façades and roofs. Finally, we also demonstrate the possibility of aggregating the multi-perspective damage information at building level.

Cerebral gray matter volume in patients with chronic migraine: correlations with clinical features.

PubMed

Coppola, Gianluca; Petolicchio, Barbara; Di Renzo, Antonio; Tinelli, Emanuele; Di Lorenzo, Cherubino; Parisi, Vincenzo; Serrao, Mariano; Calistri, Valentina; Tardioli, Stefano; Cartocci, Gaia; Ambrosini, Anna; Caramia, Francesca; Di Piero, Vittorio; Pierelli, Francesco

2017-12-08

To date, few MRI studies have been performed in patients affected by chronic migraine (CM), especially in those without medication overuse. Here, we performed magnetic resonance imaging (MRI) voxel-based morphometry (VBM) analyses to investigate the gray matter (GM) volume of the whole brain in patients affected by CM. Our aim was to investigate whether fluctuations in the GM volumes were related to the clinical features of CM. Twenty untreated patients with CM without a past medical history of medication overuse underwent 3-Tesla MRI scans and were compared to a group of 20 healthy controls (HCs). We used SPM12 and the CAT12 toolbox to process the MRI data and to perform VBM analyses of the structural T1-weighted MRI scans. The GM volume of patients was compared to that of HCs with various corrected and uncorrected thresholds. To check for possible correlations, patients' clinical features and GM maps were regressed. Initially, we did not find significant differences in the GM volume between patients with CM and HCs (p < 0.05 corrected for multiple comparisons). However, using more-liberal uncorrected statistical thresholds, we noted that compared to HCs, patients with CM exhibited clusters of regions with lower GM volumes including the cerebellum, left middle temporal gyrus, left temporal pole/amygdala/hippocampus/pallidum/orbitofrontal cortex, and left occipital areas (Brodmann areas 17/18). The GM volume of the cerebellar hemispheres was negatively correlated with the disease duration and positively correlated with the number of tablets taken per month. No gross morphometric changes were observed in patients with CM when compared with HCs. However, using more-liberal uncorrected statistical thresholds, we observed that CM is associated with subtle GM volume changes in several brain areas known to be involved in nociception/antinociception, multisensory integration, and analgesic dependence. We speculate that these slight morphometric impairments could lead, at least in a subgroup of patients, to the development and continuation of maladaptive acute medication usage.

Monitoring urban land cover with the use of satellite remote sensing techniques as a means of flood risk assessment in Cyprus

NASA Astrophysics Data System (ADS)

Alexakis, Dimitris; Hadjimitsis, Diofantos; Agapiou, Athos; Themistocleous, Kyriacos; Retalis, Adrianos

2011-11-01

The increase of flood inundation occuring in different regions all over the world have enhanced the need for effective flood risk management. As floods frequency is increasing with a steady rate due to ever increasing human activities on physical floodplains there is a respectively increasing of financial destructive impact of floods. A flood can be determined as a mass of water that produces runoff on land that is not normally covered by water. However, earth observation techniques such as satellite remote sensing can contribute toward a more efficient flood risk mapping according to EU Directives of 2007/60. This study strives to highlight the need of digital mapping of urban sprawl in a catchment area in Cyprus and the assessment of its contribution to flood risk. The Yialias river (Nicosia, Cyprus) was selected as case study where devastating flash floods events took place at 2003 and 2009. In order to search the diachronic land cover regime of the study area multi-temporal satellite imagery was processed and analyzed (e.g Landsat TMETM+, Aster). The land cover regime was examined in detail by using sophisticated post-processing classification algorithms such as Maximum Likelihood, Parallelepiped Algorithm, Minimum Distance, Spectral Angle and Isodata. Texture features were calculated using the Grey Level Co-Occurence Matrix. In addition three classification techniques were compared : multispectral classification, texture based classification and a combination of both. The classification products were compared and evaluated for their accuracy. Moreover, a knowledge-rule method is proposed based on spectral, texture and shape features in order to create efficient land use and land cover maps of the study area. Morphometric parameters such as stream frequency, drainage density and elongation ratio were calculated in order to extract the basic watershed characteristics. In terms of the impacts of land use/cover on flooding, GIS and Fragstats tool were used to detect identifying trends, both visually and statistically, resulting from land use changes in a flood prone area such as Yialias by the use of spatial metrics. The results indicated that there is a considerable increase of urban areas cover during the period of the last 30 years. All these denoted that one of the main driving force of the increasing flood risk in catchment areas in Cyprus is generally associated to human activities.

Multi-level basis selection of wavelet packet decomposition tree for heart sound classification.

PubMed

Safara, Fatemeh; Doraisamy, Shyamala; Azman, Azreen; Jantan, Azrul; Abdullah Ramaiah, Asri Ranga

2013-10-01

Wavelet packet transform decomposes a signal into a set of orthonormal bases (nodes) and provides opportunities to select an appropriate set of these bases for feature extraction. In this paper, multi-level basis selection (MLBS) is proposed to preserve the most informative bases of a wavelet packet decomposition tree through removing less informative bases by applying three exclusion criteria: frequency range, noise frequency, and energy threshold. MLBS achieved an accuracy of 97.56% for classifying normal heart sound, aortic stenosis, mitral regurgitation, and aortic regurgitation. MLBS is a promising basis selection to be suggested for signals with a small range of frequencies. Copyright © 2013 The Authors. Published by Elsevier Ltd.. All rights reserved.

Morphometric analysis of the Marmara Sea river basins, Turkey

NASA Astrophysics Data System (ADS)

Elbaşı, Emre; Ozdemir, Hasan

2014-05-01

The drainage basin, the fundamental unit of the fluvial landscape, has been focus of research aimed at understanding the geometric characteristics of the master channel and its tributary network. This geometry is referred to as the basin morphometry and is nicely reviewed by Abrahams (1984). A great amount of research has focused on geometric characteristic of drainage basins, including the topology of the stream networks, and quantitative description of drainage texture, pattern, shape, and relief characteristics. Evaluation of morphometric parameters necessitates the analysis of various drainage parameters such as ordering of the various streams, measurement of basin area and perimeter, length of drainage channels, drainage density (Dd), stream frequency (Fs), bifurcation ratio (Rb), texture ratio (T), basin relief (Bh), Ruggedness number (Rn), time of concentration (Tc), hypsometric curve and integral (Hc and Hi) (Horton, 1932, Schumn, 1956, Strahler, 1957; Verstappen 1983; Keller and Pinter, 2002; Ozdemir and Bird, 2009). These morphometric parameters have generally been used to predict flood peaks, to assess sediment yield, and to estimate erosion rates in the basins. River basins of the Marmara Sea, has an area of approximately 40,000 sqkm, are the most important basins in Turkey based on their dense populations, industry and transportation systems. The primary aim of this study is to determine and analyse of morphometric characteristics of the Marmara Sea river basins using 10 m resolution Digital Elevation Model (DEM) and to evaluate of the results. For these purposes, digital 10 m contour maps scaled 1:25000 and geological maps scaled 1:100000 were used as the main data sources in the study. 10 m resolution DEM data were created using the contour maps and then drainage networks and their watersheds were extracted using D8 pour point model. Finally, linear, areal and relief morphometries were applied to the river basins using Geographic Information Systems (GIS). This study shows that morphometric analysis of the basins in regional level are very important to understand general morphological characteristics of the basins. In this case, tectonic and lithological conditions of the basins have greatly affected the morphometric characteristics of the north and south basins of the Marmara Sea. References Abrahams, AD. 1984. Channel Networks: A Geomorphological Perspective. Water Resources Research, Volume 20, Issue 2, pages 161-188. Horton, R.E. 1932. Drainage basin characteristics. Trans Am Geophys Union 13:350-361. Keller, E.A., Pinter, N. 2002. Active Tectonics Earthquakes, Uplift, and Landscape, Second Edition, Prentice Hall, New Jersey. Ozdemir H., Bird D. 2009. Evaluation of morphometric parameters of drainage networks derived from topographic maps and DEM in point of floods, Environmental Geology, vol.56, pp.1405-1415. Schumm, S.A. 1956. Evolution of drainage systems and slopes in badlands at Perth Amboy, New Jersey. Geol Soc Am Bull 67:597-646. Strahler, A.N. 1957. Quantitative geomorphology of drainage and channel networks. In: Chow YT (ed) Handbook of appliecl hydrology. Me Graw Hill Book Company, New York. Verstappen, H.Th. 1983. Applied geomorphology. ITC, Enschede.

Role of Minerogenic Particles in Light Scattering in Lakes and a River in Central New York

DTIC Science & Technology

2007-09-10

calibration protocol. Corrections for differences in the ten samples for both elemental and morphometric pure-water absorption and attenuation due to tem...PA’>, (6) Morphometric characterization of particles by SAX is based on a "rotating chord" algorithm, which pro- where N,,, is the number of...to characterize individual minerogenic par- nous versus autochthonous) is essential information ticles both compositionally and morphometrically for

MixDroid: A multi-features and multi-classifiers bagging system for Android malware detection

NASA Astrophysics Data System (ADS)

Huang, Weiqing; Hou, Erhang; Zheng, Liang; Feng, Weimiao

2018-05-01

In the past decade, Android platform has rapidly taken over the mobile market for its superior convenience and open source characteristics. However, with the popularity of Android, malwares targeting on Android devices are increasing rapidly, while the conventional rule-based and expert-experienced approaches are no longer able to handle such explosive growth. In this paper, combining with the theory of natural language processing and machine learning, we not only implement the basic feature extraction of permission application features, but also propose two innovative schemes of feature extraction: Dalvik opcode features and malicious code image, and implement an automatic Android malware detection system MixDroid which is based on multi-features and multi-classifiers. According to our experiment results on 20,000 Android applications, detection accuracy of MixDroid is 98.1%, which proves our schemes' effectiveness in Android malware detection.

3d morphometric analysis of lunar impact craters: a tool for degradation estimates and interpretation of maria stratigraphy

NASA Astrophysics Data System (ADS)

Vivaldi, Valerio; Massironi, Matteo; Ninfo, Andrea; Cremonese, Gabriele

2015-04-01

In this study we have applied 3D morphometric analysis of impact craters on the Moon by means of high resolution DTMs derived from LROC (Lunar Reconnaissance Orbiter Camera) NAC (Narrow Angle Camera) (0.5 to 1.5 m/pixel). The objective is twofold: i) evaluating crater degradation and ii) exploring the potential of this approach for Maria stratigraphic interpretation. In relation to the first objective we have considered several craters with different diameters representative of the four classes of degradation being C1 the freshest and C4 the most degraded ones (Arthur et al., 1963; Wilhelms, 1987). DTMs of these craters were elaborated according to a multiscalar approach (Wood, 1996) by testing different ranges of kernel sizes (e.g. 15-35-50-75-100), in order to retrieve morphometric variables such as slope, curvatures and openness. In particular, curvatures were calculated along different planes (e.g. profile curvature and plan curvature) and used to characterize the different sectors of a crater (rim crest, floor, internal slope and related boundaries) enabling us to evaluate its degradation. The gradient of the internal slope of different craters representative of the four classes shows a decrease of the slope mean value from C1 to C4 in relation to crater age and diameter. Indeed degradation is influenced by gravitational processes (landslides, dry flows), as well as space weathering that induces both smoothing effects on the morphologies and infilling processes within the crater, with the main results of lowering and enlarging the rim crest, and shallowing the crater depth. As far as the stratigraphic application is concerned, morphometric analysis was applied to recognize morphologic features within some simple craters, in order to understand the stratigraphic relationships among different lava layers within Mare Serenitatis. A clear-cut rheological boundary at a depth of 200 m within the small fresh Linnè crater (diameter: 2.22 km), firstly hypothesized through numerical investigation (Martellato et al.), has been well identified as a bland morphological step on the inner crater scarp by using slope and curvature maps derived from a NAC DTM. In addition to this main morphological feature, other minor layers have been detected allowing to consider impact crater as stratigraphic logs to perform an interpretative subsurface map of a selected sector of Mare Serenitatis. References ARTHUR, D.W.G., AGNIERAY, A.P., HORVATH, R.A., WOOD, C.A. , CHAPMAN, C.R., 1963. The system of lunar craters. Quadrant I. Comm. Lunar Planet. Lab. 2, #30. MARTELLATO E., ROBINSON M.S., CREMONESE G. & LUCCHETTI A., 2013. Numerical modeling of Linné crater. EPSC Abstracts Vol. 8, EPSC2013-649. WILHELMS, D., 1987. The Geologic History of the Moon. US Geological Survey Professional Paper 1348. WOOD, J., 1996. The geomorphological characterization of digital elevation models. PhD Thesis, University of Leicester, UK.

Multi-Directional Multi-Level Dual-Cross Patterns for Robust Face Recognition.

PubMed

Ding, Changxing; Choi, Jonghyun; Tao, Dacheng; Davis, Larry S

2016-03-01

To perform unconstrained face recognition robust to variations in illumination, pose and expression, this paper presents a new scheme to extract "Multi-Directional Multi-Level Dual-Cross Patterns" (MDML-DCPs) from face images. Specifically, the MDML-DCPs scheme exploits the first derivative of Gaussian operator to reduce the impact of differences in illumination and then computes the DCP feature at both the holistic and component levels. DCP is a novel face image descriptor inspired by the unique textural structure of human faces. It is computationally efficient and only doubles the cost of computing local binary patterns, yet is extremely robust to pose and expression variations. MDML-DCPs comprehensively yet efficiently encodes the invariant characteristics of a face image from multiple levels into patterns that are highly discriminative of inter-personal differences but robust to intra-personal variations. Experimental results on the FERET, CAS-PERL-R1, FRGC 2.0, and LFW databases indicate that DCP outperforms the state-of-the-art local descriptors (e.g., LBP, LTP, LPQ, POEM, tLBP, and LGXP) for both face identification and face verification tasks. More impressively, the best performance is achieved on the challenging LFW and FRGC 2.0 databases by deploying MDML-DCPs in a simple recognition scheme.

A hierarchical anatomical classification schema for prediction of phenotypic side effects

PubMed Central

Kanji, Rakesh

2018-01-01

Prediction of adverse drug reactions is an important problem in drug discovery endeavors which can be addressed with data-driven strategies. SIDER is one of the most reliable and frequently used datasets for identification of key features as well as building machine learning models for side effects prediction. The inherently unbalanced nature of this data presents with a difficult multi-label multi-class problem towards prediction of drug side effects. We highlight the intrinsic issue with SIDER data and methodological flaws in relying on performance measures such as AUC while attempting to predict side effects.We argue for the use of metrics that are robust to class imbalance for evaluation of classifiers. Importantly, we present a ‘hierarchical anatomical classification schema’ which aggregates side effects into organs, sub-systems, and systems. With the help of a weighted performance measure, using 5-fold cross-validation we show that this strategy facilitates biologically meaningful side effects prediction at different levels of anatomical hierarchy. By implementing various machine learning classifiers we show that Random Forest model yields best classification accuracy at each level of coarse-graining. The manually curated, hierarchical schema for side effects can also serve as the basis of future studies towards prediction of adverse reactions and identification of key features linked to specific organ systems. Our study provides a strategy for hierarchical classification of side effects rooted in the anatomy and can pave the way for calibrated expert systems for multi-level prediction of side effects. PMID:29494708

Determination of pulse profile characteristics of multi spot retinal photocoagulation lasers.

PubMed

Clarkson, Douglas McG; Makhzoum, Osama; Blackburn, John

2015-10-01

A system is described for determination of discrete pulse train characteristics of multi spot laser delivery systems for retinal photocoagulation. While photodiodes provide an ideal detection mechanism, measurement artifacts can potentially be introduced by the spatial pattern of the delivered beam relative to a discrete photodiode element. This problem was overcome by use of an integrating sphere to produce a uniform light field at the site of the photodiode detector. A basic current driven photodiode detection circuit incorporating an operational amplifier was used to generate a signal captured by a commercially available USB interface device at a rate of 10 kHz. Studies were undertaken of a Topcon Pascal Streamline laser system with output at a wavelength of 577 nm (yellow). This laser features the proprietary feature of 'Endpoint Management' ™ where pulses can be delivered as 100% of set energy levels with visible reaction on the retina and also at a reduced energy level to create potentially non visible but clinically effective lesions. Using the pulse train measurement device it was identified that the 'Endpoint Management' ™ delivery mode of pulses of lower energy was achieved by reducing the pulse duration of pulses for non-visible effect pulses while maintaining consistent beam power levels within the delivered pulse profile. The effect of eye geometry in determining safety and effectiveness of multi spot laser delivery for retinal photocoagulation is discussed. Copyright © 2015 IPEM. Published by Elsevier Ltd. All rights reserved.

A hierarchical anatomical classification schema for prediction of phenotypic side effects.

PubMed

Wadhwa, Somin; Gupta, Aishwarya; Dokania, Shubham; Kanji, Rakesh; Bagler, Ganesh

2018-01-01

Prediction of adverse drug reactions is an important problem in drug discovery endeavors which can be addressed with data-driven strategies. SIDER is one of the most reliable and frequently used datasets for identification of key features as well as building machine learning models for side effects prediction. The inherently unbalanced nature of this data presents with a difficult multi-label multi-class problem towards prediction of drug side effects. We highlight the intrinsic issue with SIDER data and methodological flaws in relying on performance measures such as AUC while attempting to predict side effects.We argue for the use of metrics that are robust to class imbalance for evaluation of classifiers. Importantly, we present a 'hierarchical anatomical classification schema' which aggregates side effects into organs, sub-systems, and systems. With the help of a weighted performance measure, using 5-fold cross-validation we show that this strategy facilitates biologically meaningful side effects prediction at different levels of anatomical hierarchy. By implementing various machine learning classifiers we show that Random Forest model yields best classification accuracy at each level of coarse-graining. The manually curated, hierarchical schema for side effects can also serve as the basis of future studies towards prediction of adverse reactions and identification of key features linked to specific organ systems. Our study provides a strategy for hierarchical classification of side effects rooted in the anatomy and can pave the way for calibrated expert systems for multi-level prediction of side effects.

Morphometric differences of nasopalatine canal based on 3D classifications: descriptive analysis on CBCT.

PubMed

Fernández-Alonso, A; Suárez-Quintanilla, J A; Rapado-González, O; Suárez-Cunqueiro, María Mercedes

2015-09-01

This descriptive retrospective study analyzed differences among sagittal, coronal and axial NC groups based on the dimensions of nasopalatine canal (NC), buccal bone plate (BBP) and palatal bone plate (PBP) to canal. Measurements were made on 224 CBCTs for NC, BBP and PBP on the three anatomic planes at three levels: level 1, when the incisive foramen is completely closed on the axial plane; level 2, at the midpoint of NC length (NCL) on the sagittal plane; and level 3, at the foramina of Stenson on the sagittal plane. ANOVA tests with post hoc tests were used. The intraclass correlation coefficient and Kappa test were used for evaluating the intraobserver agreement. Regarding coronal classification, these significant differences were found: BBP length (BL)level 1 was lower for the two parallel canals group; PBP length (PL)level 1 was lower for single canal group; and NCL was lower for Y-type canal group. Regarding axial classification, these significant differences were found: LPlevel 1 was lower for 3.1-3 group; PBP width (PW)level 3 was the greatest for 3.1-3; and LPlevel 3 was lower for 1.1. Presurgical evaluation with CBCT in premaxillae region should include analysis on coronal and axial planes and not only on sagittal plane seeing as morphometric differences were found on coronal and axial planes. Following the morphological coronal classification, two parallel canals presented a higher NCL, a higher LP and a lower LV at inferior edge of alveolar ridge.

Multi-dimension feature fusion for action recognition

NASA Astrophysics Data System (ADS)

Dong, Pei; Li, Jie; Dong, Junyu; Qi, Lin

2018-04-01

Typical human actions last several seconds and exhibit characteristic spatio-temporal structure. The challenge for action recognition is to capture and fuse the multi-dimension information in video data. In order to take into account these characteristics simultaneously, we present a novel method that fuses multiple dimensional features, such as chromatic images, depth and optical flow fields. We built our model based on the multi-stream deep convolutional networks with the help of temporal segment networks and extract discriminative spatial and temporal features by fusing ConvNets towers multi-dimension, in which different feature weights are assigned in order to take full advantage of this multi-dimension information. Our architecture is trained and evaluated on the currently largest and most challenging benchmark NTU RGB-D dataset. The experiments demonstrate that the performance of our method outperforms the state-of-the-art methods.

MultiLIS: A Description of the System Design and Operational Features.

ERIC Educational Resources Information Center

Kelly, Glen J.; And Others

1988-01-01

Describes development, hardware requirements, and features of the MultiLIS integrated library software package. A system profile provides pricing information, operational characteristics, and technical specifications. Sidebars discuss MultiLIS integration structure, incremental architecture, and NCR Tower Computers. (4 references) (MES)

Curcumin reduces trabecular and cortical bone in naive and Lewis lung carcinoma-bearing mice

USDA-ARS?s Scientific Manuscript database

The present study investigated the effects of dietary supplementation with curcumin on bone microstructural changes in female C57BL/6 mice in the presence or absence of Lewis lung carcinoma. Morphometric analysis showed that in tumor-bearing mice curcumin at 2% and 4% dietary levels (w/w) significa...

Digital Morphometrics: A New Upper Airway Phenotyping Paradigm in OSA.

PubMed

Schwab, Richard J; Leinwand, Sarah E; Bearn, Cary B; Maislin, Greg; Rao, Ramya Bhat; Nagaraja, Adithya; Wang, Stephen; Keenan, Brendan T

2017-08-01

OSA is associated with changes in pharyngeal anatomy. The goal of this study was to objectively and reproducibly quantify pharyngeal anatomy by using digital morphometrics based on a laser ruler and to assess differences between subjects with OSA and control subjects and associations with the apnea-hypopnea index (AHI). To the best of our knowledge, this study is the first to use digital morphometrics to quantify intraoral risk factors for OSA. Digital photographs were obtained by using an intraoral laser ruler and digital camera in 318 control subjects (mean AHI, 4.2 events/hour) and 542 subjects with OSA (mean AHI, 39.2 events/hour). The digital morphometric paradigm was validated and reproducible over time and camera distances. A larger modified Mallampati score and having a nonvisible airway were associated with a higher AHI, both unadjusted (P < .001) and controlling for age, sex, race, and BMI (P = .015 and P = .018, respectively). Measures of tongue size were larger in subjects with OSA vs control subjects in unadjusted models and controlling for age, sex, and race but nonsignificant controlling for BMI; similar results were observed with AHI severity. Multivariate regression suggests photography-based variables capture independent associations with OSA. Measures of tongue size, airway visibility, and Mallampati scores were associated with increased OSA risk and severity. This study shows that digital morphometrics is an accurate, high-throughput, and noninvasive technique to identify anatomic OSA risk factors. Morphometrics may also provide a more reproducible and standardized measurement of the Mallampati score. Digital morphometrics represent an efficient and cost-effective method of examining intraoral crowding and tongue size when examining large populations, genetics, or screening for OSA. Copyright © 2017 American College of Chest Physicians. Published by Elsevier Inc. All rights reserved.

Sperm kinematic, head morphometric and kinetic-morphometric subpopulations in the blue fox (Alopex lagopus).

PubMed

Soler, Carles; Contell, Jesús; Bori, Lorena; Sancho, María; García-Molina, Almudena; Valverde, Anthony; Segarvall, Jan

2017-01-01

This work provides information on the blue fox ejaculated sperm quality needed for seminal dose calculations. Twenty semen samples, obtained by masturbation, were analyzed for kinematic and morphometric parameters by using CASA-Mot and CASA-Morph system and principal component (PC) analysis. For motility, eight kinematic parameters were evaluated, which were reduced to PC1, related to linear variables, and PC2, related to oscillatory movement. The whole population was divided into three independent subpopulations: SP1, fast cells with linear movement; SP2, slow cells and nonoscillatory motility; and SP3, medium speed cells and oscillatory movement. In almost all cases, the subpopulation distribution by animal was significantly different. Head morphology analysis generated four size and four shape parameters, which were reduced to PC1, related to size, and PC2, related to shape of the cells. Three morphometric subpopulations existed: SP1: large oval cells; SP2: medium size elongated cells; and SP3: small and short cells. The subpopulation distribution differed between animals. Combining the kinematic and morphometric datasets produced PC1, related to morphometric parameters, and PC2, related to kinematics, which generated four sperm subpopulations - SP1: high oscillatory motility, large and short heads; SP2: medium velocity with small and short heads; SP3: slow motion small and elongated cells; and SP4: high linear speed and large elongated cells. Subpopulation distribution was different in all animals. The establishment of sperm subpopulations from kinematic, morphometric, and combined variables not only improves the well-defined fox semen characteristics and offers a good conceptual basis for fertility and sperm preservation techniques in this species, but also opens the door to use this approach in other species, included humans.

Sperm kinematic, head morphometric and kinetic-morphometric subpopulations in the blue fox (Alopex lagopus)

PubMed Central

Soler, Carles; Contell, Jesús; Bori, Lorena; Sancho, María; García-Molina, Almudena; Valverde, Anthony; Segarvall, Jan

2017-01-01

This work provides information on the blue fox ejaculated sperm quality needed for seminal dose calculations. Twenty semen samples, obtained by masturbation, were analyzed for kinematic and morphometric parameters by using CASA-Mot and CASA-Morph system and principal component (PC) analysis. For motility, eight kinematic parameters were evaluated, which were reduced to PC1, related to linear variables, and PC2, related to oscillatory movement. The whole population was divided into three independent subpopulations: SP1, fast cells with linear movement; SP2, slow cells and nonoscillatory motility; and SP3, medium speed cells and oscillatory movement. In almost all cases, the subpopulation distribution by animal was significantly different. Head morphology analysis generated four size and four shape parameters, which were reduced to PC1, related to size, and PC2, related to shape of the cells. Three morphometric subpopulations existed: SP1: large oval cells; SP2: medium size elongated cells; and SP3: small and short cells. The subpopulation distribution differed between animals. Combining the kinematic and morphometric datasets produced PC1, related to morphometric parameters, and PC2, related to kinematics, which generated four sperm subpopulations – SP1: high oscillatory motility, large and short heads; SP2: medium velocity with small and short heads; SP3: slow motion small and elongated cells; and SP4: high linear speed and large elongated cells. Subpopulation distribution was different in all animals. The establishment of sperm subpopulations from kinematic, morphometric, and combined variables not only improves the well-defined fox semen characteristics and offers a good conceptual basis for fertility and sperm preservation techniques in this species, but also opens the door to use this approach in other species, included humans. PMID:27751987

Intelligent multi-spectral IR image segmentation

NASA Astrophysics Data System (ADS)

Lu, Thomas; Luong, Andrew; Heim, Stephen; Patel, Maharshi; Chen, Kang; Chao, Tien-Hsin; Chow, Edward; Torres, Gilbert

2017-05-01

This article presents a neural network based multi-spectral image segmentation method. A neural network is trained on the selected features of both the objects and background in the longwave (LW) Infrared (IR) images. Multiple iterations of training are performed until the accuracy of the segmentation reaches satisfactory level. The segmentation boundary of the LW image is used to segment the midwave (MW) and shortwave (SW) IR images. A second neural network detects the local discontinuities and refines the accuracy of the local boundaries. This article compares the neural network based segmentation method to the Wavelet-threshold and Grab-Cut methods. Test results have shown increased accuracy and robustness of this segmentation scheme for multi-spectral IR images.

Ecomorphology of morpho-functional relationships in the family of Sparidae: a quantitative statistic approach.

PubMed

Antonucci, Francesca; Costa, Corrado; Aguzzi, Jacopo; Cataudella, Stefano

2009-07-01

In many fish species, morphological similarity can be considered as a proxy for similarities in habitat use. The Sparidae family includes species that are recognized for common morphological features such as structure and positioning of the fins and specialized dentition. The aim of this study was to quantitatively describe the relationship of body shape morphology with habitat use, trophic level, and systematics in the majority of known Sparidae species (N = 92). This ecomorphological comparison was performed with a geometric morphometric approach considering as variables the Trophic Index (TROPH), the habitat (i.e., classified as demersal, benthopelagic and reef associated) and the phylogenetic relationship of species at the subfamily level. The analysis by the TROPH variable showed a positive relation with shape because the morphological features of all the species are strongly correlated with their trophic behavior (e.g., herbivore species have a smaller mouth gap that make them able to feed upon sessile resources). The morphological analysis according to the Habitat variable was used to classify species according to a feeding-habitat niche in terms of portion of the water column and seabed space where species mostly perform their behavioral activities. We described three kinds of morphological designs in relation to a benthopelagic, demersal and reef-associated habit. The six subfamily groups were morphologically well distinguishable and the cladogram relative to Mahalanobis' morphological distances was compared with those proposed by other authors. We also quantified the phylogenetic relationship among the different subfamilies based on the analysis of shape in relation to trophic ecology, confirming the observations of the authors. (c) 2009 Wiley-Liss, Inc.

Morphology of the external genitalia of the adult male and female mice as an endpoint of sex differentiation

PubMed Central

Weiss, Dana A.; Rodriguez, Esequiel; Cunha, Tristan; Menshenina, Julia; Barcellos, Dale; Chan, Lok Yun; Risbridger, Gail; Baskin, Laurence; Cunha, Gerald

2013-01-01

Adult external genitalia (ExG) are the endpoints of normal sex differentiation. Detailed morphometric analysis and comparison of adult mouse ExG has revealed 10 homologous features distinguishing the penis and clitoris that define masculine vs. feminine sex differentiation. These features have enabled the construction of a simple metric to evaluate various intersex conditions in mutant or hormonally manipulated mice. This review focuses on the morphology of the adult mouse penis and clitoris through detailed analysis of histologic sections, scanning electron microscopy, and three-dimensional reconstruction. We also present previous results from evaluation of “non-traditional” mammals, such as the spotted hyena and wallaby to demonstrate the complex process of sex differentiation that involves not only androgen-dependent processes, but also estrogen-dependent and hormone-independent mechanisms. PMID:21893161

Multi-tube fuel nozzle with mixing features

DOEpatents

Hughes, Michael John

2014-04-22

A system includes a multi-tube fuel nozzle having an inlet plate and a plurality of tubes adjacent the inlet plate. The inlet plate includes a plurality of apertures, and each aperture includes an inlet feature. Each tube of the plurality of tubes is coupled to an aperture of the plurality of apertures. The multi-tube fuel nozzle includes a differential configuration of inlet features among the plurality of tubes.

Morphometric analysis of diameter and relationship of vertebral artery with respect to transverse foramen in Indian population

PubMed Central

Sureka, Binit; Mittal, Mahesh Kumar; Mittal, Aliza; Agarwal, Mukul Sinha Kanhaiya; Bhambri, Narendra Kumar; Thukral, Brij Bhushan

2015-01-01

Purpose: To study the location, origin, size and relationship of the vertebral artery and the transverse foramina in the lower cervical spine by computed tomographic angiography (CTA) measurements in the Indian population. Materials and Methods: A retrospective review of multi-detector CT (MDCT) cerebral angiography scans was done between June 2011 and February 2014. A total of 120 patients were evaluated. The diameter of the vertebral artery (AL) and the shortest distance between the vertebral artery and the medial (M), lateral (L), anterior (A), and posterior (P) borders of transverse foramen were studied. In addition, the shortest distance between the vertebral artery and pedicle (h) was also analyzed. Statistical Analysis: The means and their standard deviations (SD) were calculated in both the sexes. The t-tests were performed to look for significant sexual difference. Results: The largest vertebral artery diameter (AL) was at level C7 on the right side (3.5 ± 0.8) and at the level of C5 on the left side (3.7 ± 0.4). Statistically significant difference between males and females were seen at levels C4, C5, and C7. The diameter of the vertebral artery was smaller in females than males. The L value was greater than other parameters (M, A, P) at the same level in all the measurements. The h value was greatest at C6 level and shortest at C5. Conclusion: CTA is necessary before pedicle screw fixation due to variation in measurements at all levels. The highest potential risk of vertebral artery injury during cervical pedicle screw implantation may be at C5, then at C4, and the safest is at C7. PMID:25969640

Classification of yeast cells from image features to evaluate pathogen conditions

NASA Astrophysics Data System (ADS)

van der Putten, Peter; Bertens, Laura; Liu, Jinshuo; Hagen, Ferry; Boekhout, Teun; Verbeek, Fons J.

2007-01-01

Morphometrics from images, image analysis, may reveal differences between classes of objects present in the images. We have performed an image-features-based classification for the pathogenic yeast Cryptococcus neoformans. Building and analyzing image collections from the yeast under different environmental or genetic conditions may help to diagnose a new "unseen" situation. Diagnosis here means that retrieval of the relevant information from the image collection is at hand each time a new "sample" is presented. The basidiomycetous yeast Cryptococcus neoformans can cause infections such as meningitis or pneumonia. The presence of an extra-cellular capsule is known to be related to virulence. This paper reports on the approach towards developing classifiers for detecting potentially more or less virulent cells in a sample, i.e. an image, by using a range of features derived from the shape or density distribution. The classifier can henceforth be used for automating screening and annotating existing image collections. In addition we will present our methods for creating samples, collecting images, image preprocessing, identifying "yeast cells" and creating feature extraction from the images. We compare various expertise based and fully automated methods of feature selection and benchmark a range of classification algorithms and illustrate successful application to this particular domain.

Morphometric discrimination of early life stage Lampetra tridentata and L richardsoni (Petromyzonidae) from the Columbia river basin

USGS Publications Warehouse

Meeuwig, M.H.; Bayer, J.M.; Reiche, R.A.

2006-01-01

The effectiveness of morphometric and meristic characteristics for taxonomic discrimination of Lampetra tridentata and L. richardsoni (Petromyzonidae) during embryological, prolarval, and early larval stages (i.e., age class 1) were examined. Mean chorion diameter increased with time from fertilization to hatch and was significantly greater for L. tridentata than for L. richardsoni at 1, 8, and 15 days postfertilization. Lampetra tridentata larvae had significantly more trunk myomeres than L. richardsoni; however, trunk myomere numbers were highly variable within species and deviated from previously published data. Multivariate examinations of prolarval and larval L. tridentata (7.2-11.0 mm; standard length) and L. richardsoni (6.6-10.8 mm) were conducted based on standard length and truss element lengths established from eight homologous landmarks. Principal components analysis indicated allometric relationships among the morphometric characteristics examined. Changes in body shape were indicated by groupings of morphometric characteristics associated with body regions (e.g., oral hood, branchial region, trunk region, and tail region). Discriminant function analysis using morphometric characteristics was successful in classifying a large proportion (>94.7%) of the lampreys sampled. 

Inversion of Crater Morphometric Data to Gain Insight on the Cratering Process

NASA Technical Reports Server (NTRS)

Herrick, Robert R.; Lyons, Suzane N.

1998-01-01

In recent years, morphometric data for Venus and several outer planet satellites have been collected, so we now have observational data of complex Craters formed in a large range of target properties. We present general inversion techniques that can utilize the morphometric data to quantitatively test various models of complex crater formation. The morphometric data we use in this paper are depth of a complex crater, the diameter at which the depth-diameter ratio changes, and onset diameters for central peaks, terraces, and peak rings. We tested the roles of impactor velocities and hydrostatic pressure vs. crustal strength, and we tested the specific models of acoustic fluidization (Melosh, 1982) and nonproportional growth (Schultz, 1988). Neither the acoustic fluidization model nor the nonproportional growth in their published formulations are able to successfully reproduce the data. No dependence on impactor velocity is evident from our inversions. Most of the morphometric data is consistent with a linear dependence on the ratio of crustal strength to hydrostatic pressure on a planet, or the factor c/pg.

Quantitative comparisons of three automated methods for estimating intracranial volume: A study of 270 longitudinal magnetic resonance images.

PubMed

Shang, Xiaoyan; Carlson, Michelle C; Tang, Xiaoying

2018-04-30

Total intracranial volume (TIV) is often used as a measure of brain size to correct for individual variability in magnetic resonance imaging (MRI) based morphometric studies. An adjustment of TIV can greatly increase the statistical power of brain morphometry methods. As such, an accurate and precise TIV estimation is of great importance in MRI studies. In this paper, we compared three automated TIV estimation methods (multi-atlas likelihood fusion (MALF), Statistical Parametric Mapping 8 (SPM8) and FreeSurfer (FS)) using longitudinal T1-weighted MR images in a cohort of 70 older participants at elevated sociodemographic risk for Alzheimer's disease. Statistical group comparisons in terms of four different metrics were performed. Furthermore, sex, education level, and intervention status were investigated separately for their impacts on the TIV estimation performance of each method. According to our experimental results, MALF was the least susceptible to atrophy, while SPM8 and FS suffered a loss in precision. In group-wise analysis, MALF was the least sensitive method to group variation, whereas SPM8 was particularly sensitive to sex and FS was unstable with respect to education level. In terms of effectiveness, both MALF and SPM8 delivered a user-friendly performance, while FS was relatively computationally intensive. Copyright © 2018 Elsevier B.V. All rights reserved.

Effects of Starvation in Rock Bream, Oplegnathus fasciatus and Olive Flounder, Paralichthys olivaceus

PubMed Central

Park, In-Seok; Gil, Hyun Woo; Yoo, Gwang Yeol; Oh, Ji Su

2015-01-01

We assessed the effects of various dietary conditions on the growth, phenotypic traits, and morphometric dimensions of rock bream, Oplegnathus fasciatus and on the morphometric dimensions of sectioned olive flounder, Paralichthys olivaceus. Rock bream in the fed group increased in body weight, standard length, and condition factor, but these parameters decreased significantly for fish in the starved group (P < 0.05). The head connection dimensions of fish in the fed group decreased, while for starved fish there was increase in external morphometric dimensions (P < 0.05). In both species, sectioned morphometric analysis revealed that fish in the fed group had a larger body circumference and cross-cut sectional area, and greater cross-cut section height, relative to the starved group (P < 0.05). PMID:27004266

Dietary Ecology of Murinae (Muridae, Rodentia): A Geometric Morphometric Approach

PubMed Central

Gómez Cano, Ana Rosa; Hernández Fernández, Manuel; Álvarez-Sierra, M. Ángeles

2013-01-01

Murine rodents represent a highly diverse group, which displays great ecological versatility. In the present paper we analyse the relationship between dental morphology, on one hand, using geometric morphometrics based upon the outline of first upper molar and the dietary preference of extant murine genera, on the other. This ecomorphological study of extant murine rodents demonstrates that dietary groups can be distinguished with the use of a quantitative geometric morphometric approach based on first upper molar outline. A discriminant analysis of the geometric morphometric variables of the first upper molars enables us to infer the dietary preferences of extinct murine genera from the Iberian Peninsula. Most of the extinct genera were omnivore; only Stephanomys showed a pattern of dental morphology alike that of the herbivore genera. PMID:24236090

Multi-source feature extraction and target recognition in wireless sensor networks based on adaptive distributed wavelet compression algorithms

NASA Astrophysics Data System (ADS)

Hortos, William S.

2008-04-01

Proposed distributed wavelet-based algorithms are a means to compress sensor data received at the nodes forming a wireless sensor network (WSN) by exchanging information between neighboring sensor nodes. Local collaboration among nodes compacts the measurements, yielding a reduced fused set with equivalent information at far fewer nodes. Nodes may be equipped with multiple sensor types, each capable of sensing distinct phenomena: thermal, humidity, chemical, voltage, or image signals with low or no frequency content as well as audio, seismic or video signals within defined frequency ranges. Compression of the multi-source data through wavelet-based methods, distributed at active nodes, reduces downstream processing and storage requirements along the paths to sink nodes; it also enables noise suppression and more energy-efficient query routing within the WSN. Targets are first detected by the multiple sensors; then wavelet compression and data fusion are applied to the target returns, followed by feature extraction from the reduced data; feature data are input to target recognition/classification routines; targets are tracked during their sojourns through the area monitored by the WSN. Algorithms to perform these tasks are implemented in a distributed manner, based on a partition of the WSN into clusters of nodes. In this work, a scheme of collaborative processing is applied for hierarchical data aggregation and decorrelation, based on the sensor data itself and any redundant information, enabled by a distributed, in-cluster wavelet transform with lifting that allows multiple levels of resolution. The wavelet-based compression algorithm significantly decreases RF bandwidth and other resource use in target processing tasks. Following wavelet compression, features are extracted. The objective of feature extraction is to maximize the probabilities of correct target classification based on multi-source sensor measurements, while minimizing the resource expenditures at participating nodes. Therefore, the feature-extraction method based on the Haar DWT is presented that employs a maximum-entropy measure to determine significant wavelet coefficients. Features are formed by calculating the energy of coefficients grouped around the competing clusters. A DWT-based feature extraction algorithm used for vehicle classification in WSNs can be enhanced by an added rule for selecting the optimal number of resolution levels to improve the correct classification rate and reduce energy consumption expended in local algorithm computations. Published field trial data for vehicular ground targets, measured with multiple sensor types, are used to evaluate the wavelet-assisted algorithms. Extracted features are used in established target recognition routines, e.g., the Bayesian minimum-error-rate classifier, to compare the effects on the classification performance of the wavelet compression. Simulations of feature sets and recognition routines at different resolution levels in target scenarios indicate the impact on classification rates, while formulas are provided to estimate reduction in resource use due to distributed compression.

Automatic Generalizability Method of Urban Drainage Pipe Network Considering Multi-Features

NASA Astrophysics Data System (ADS)

Zhu, S.; Yang, Q.; Shao, J.

2018-05-01

Urban drainage systems are indispensable dataset for storm-flooding simulation. Given data availability and current computing power, the structure and complexity of urban drainage systems require to be simplify. However, till data, the simplify procedure mainly depend on manual operation that always leads to mistakes and lower work efficiency. This work referenced the classification methodology of road system, and proposed a conception of pipeline stroke. Further, length of pipeline, angle between two pipelines, the pipeline belonged road level and diameter of pipeline were chosen as the similarity criterion to generate the pipeline stroke. Finally, designed the automatic method to generalize drainage systems with the concern of multi-features. This technique can improve the efficiency and accuracy of the generalization of drainage systems. In addition, it is beneficial to the study of urban storm-floods.

Integrative Data Analysis of Multi-Platform Cancer Data with a Multimodal Deep Learning Approach.

PubMed

Liang, Muxuan; Li, Zhizhong; Chen, Ting; Zeng, Jianyang

2015-01-01

Identification of cancer subtypes plays an important role in revealing useful insights into disease pathogenesis and advancing personalized therapy. The recent development of high-throughput sequencing technologies has enabled the rapid collection of multi-platform genomic data (e.g., gene expression, miRNA expression, and DNA methylation) for the same set of tumor samples. Although numerous integrative clustering approaches have been developed to analyze cancer data, few of them are particularly designed to exploit both deep intrinsic statistical properties of each input modality and complex cross-modality correlations among multi-platform input data. In this paper, we propose a new machine learning model, called multimodal deep belief network (DBN), to cluster cancer patients from multi-platform observation data. In our integrative clustering framework, relationships among inherent features of each single modality are first encoded into multiple layers of hidden variables, and then a joint latent model is employed to fuse common features derived from multiple input modalities. A practical learning algorithm, called contrastive divergence (CD), is applied to infer the parameters of our multimodal DBN model in an unsupervised manner. Tests on two available cancer datasets show that our integrative data analysis approach can effectively extract a unified representation of latent features to capture both intra- and cross-modality correlations, and identify meaningful disease subtypes from multi-platform cancer data. In addition, our approach can identify key genes and miRNAs that may play distinct roles in the pathogenesis of different cancer subtypes. Among those key miRNAs, we found that the expression level of miR-29a is highly correlated with survival time in ovarian cancer patients. These results indicate that our multimodal DBN based data analysis approach may have practical applications in cancer pathogenesis studies and provide useful guidelines for personalized cancer therapy.

Feature selection method based on multi-fractal dimension and harmony search algorithm and its application

NASA Astrophysics Data System (ADS)

Zhang, Chen; Ni, Zhiwei; Ni, Liping; Tang, Na

2016-10-01

Feature selection is an important method of data preprocessing in data mining. In this paper, a novel feature selection method based on multi-fractal dimension and harmony search algorithm is proposed. Multi-fractal dimension is adopted as the evaluation criterion of feature subset, which can determine the number of selected features. An improved harmony search algorithm is used as the search strategy to improve the efficiency of feature selection. The performance of the proposed method is compared with that of other feature selection algorithms on UCI data-sets. Besides, the proposed method is also used to predict the daily average concentration of PM2.5 in China. Experimental results show that the proposed method can obtain competitive results in terms of both prediction accuracy and the number of selected features.

PREDICTING INDIVIDUAL WELL-BEING THROUGH THE LANGUAGE OF SOCIAL MEDIA.

PubMed

Schwartz, H Andrew; Sap, Maarten; Kern, Margaret L; Eichstaedt, Johannes C; Kapelner, Adam; Agrawal, Megha; Blanco, Eduardo; Dziurzynski, Lukasz; Park, Gregory; Stillwell, David; Kosinski, Michal; Seligman, Martin E P; Ungar, Lyle H

2016-01-01

We present the task of predicting individual well-being, as measured by a life satisfaction scale, through the language people use on social media. Well-being, which encompasses much more than emotion and mood, is linked with good mental and physical health. The ability to quickly and accurately assess it can supplement multi-million dollar national surveys as well as promote whole body health. Through crowd-sourced ratings of tweets and Facebook status updates, we create message-level predictive models for multiple components of well-being. However, well-being is ultimately attributed to people, so we perform an additional evaluation at the user-level, finding that a multi-level cascaded model, using both message-level predictions and userlevel features, performs best and outperforms popular lexicon-based happiness models. Finally, we suggest that analyses of language go beyond prediction by identifying the language that characterizes well-being.

Revisiting the Robustness of PET-Based Textural Features in the Context of Multi-Centric Trials.

PubMed

Bailly, Clément; Bodet-Milin, Caroline; Couespel, Solène; Necib, Hatem; Kraeber-Bodéré, Françoise; Ansquer, Catherine; Carlier, Thomas

2016-01-01

This study aimed to investigate the variability of textural features (TF) as a function of acquisition and reconstruction parameters within the context of multi-centric trials. The robustness of 15 selected TFs were studied as a function of the number of iterations, the post-filtering level, input data noise, the reconstruction algorithm and the matrix size. A combination of several reconstruction and acquisition settings was devised to mimic multi-centric conditions. We retrospectively studied data from 26 patients enrolled in a diagnostic study that aimed to evaluate the performance of PET/CT 68Ga-DOTANOC in gastro-entero-pancreatic neuroendocrine tumors. Forty-one tumors were extracted and served as the database. The coefficient of variation (COV) or the absolute deviation (for the noise study) was derived and compared statistically with SUVmax and SUVmean results. The majority of investigated TFs can be used in a multi-centric context when each parameter is considered individually. The impact of voxel size and noise in the input data were predominant as only 4 TFs presented a high/intermediate robustness against SUV-based metrics (Entropy, Homogeneity, RP and ZP). When combining several reconstruction settings to mimic multi-centric conditions, most of the investigated TFs were robust enough against SUVmax except Correlation, Contrast, LGRE, LGZE and LZLGE. Considering previously published results on either reproducibility or sensitivity against delineation approach and our findings, it is feasible to consider Homogeneity, Entropy, Dissimilarity, HGRE, HGZE and ZP as relevant for being used in multi-centric trials.

Morphometric classification of Spanish thoroughbred stallion sperm heads.

PubMed

Hidalgo, Manuel; Rodríguez, Inmaculada; Dorado, Jesús; Soler, Carles

2008-01-30

This work used semen samples collected from 12 stallions and assessed for sperm morphometry by the Sperm Class Analyzer (SCA) computer-assisted system. A discriminant analysis was performed on the morphometric data from that sperm to obtain a classification matrix for sperm head shape. Thereafter, we defined six types of sperm head shape. Classification of sperm head by this method obtained a globally correct assignment of 90.1%. Moreover, significant differences (p<0.05) were found between animals for all the sperm head morphometric parameters assessed.

Analysis of High Resolution Satellite imagery to acsees Glacier Mass Balance and Lake Hazards in Sikkim Himalayas

NASA Astrophysics Data System (ADS)

Bhushan, S.; Shean, D. E.; Haritashya, U. K.; Arendt, A. A.; Syed, T. H.; Setiawan, L.

2017-12-01

Glacial lake outburst floods can impact downstream communities due to the sudden outflux of huge quantities of stored water. In this study, we develop a hazard assessment of the moraine dammed glacial lakes in Sikkim Himalayas by analyzing the morphometry of proglacial features, and the surface velocity and mass balance of glaciers. We generated high-resolution digital elevation models (DEMs) using the open-source NASA Ames Stereo Pipeline (ASP) and use other open-source tools to calculate surface velocity and patterns of glacier downwasting over time. Geodetic glacier mass balance is obtained for three periods using high-resolution WorldView/GeoEye stereo DEMs (8 m posting, 2014-2016), Cartosat-1 stereo DEMs (10 m, 2006-2008) and SRTM (30 m, 2000). Initial results reveal a region-wide mass balance of -0.31±0.13 m w.eq.a-1 for the 2007-2015 period, with some debris covered glaciers showing a very low mass loss rate. Additionally, 12 annual glacier velocity fields spanning from 1991 to 2017.derived from Landsat imagery are used to explore the relationship between glacier dynamics and changes in proglacial lakes. Multi-temporal glacial lake mapping is conducted using Landsat and Cartosat imagery. Avalanche and rockfall modeling are combined with morphometric analysis of the proglacial lake area to assess the likelihood of glacial lake dam failure. The above parameters are integrated into a decision tree approach enabling categorization of moraine-dammed lakes according to their potential for outburst events.

Wearable Sensor-Based Human Activity Recognition Method with Multi-Features Extracted from Hilbert-Huang Transform.

PubMed

Xu, Huile; Liu, Jinyi; Hu, Haibo; Zhang, Yi

2016-12-02

Wearable sensors-based human activity recognition introduces many useful applications and services in health care, rehabilitation training, elderly monitoring and many other areas of human interaction. Existing works in this field mainly focus on recognizing activities by using traditional features extracted from Fourier transform (FT) or wavelet transform (WT). However, these signal processing approaches are suitable for a linear signal but not for a nonlinear signal. In this paper, we investigate the characteristics of the Hilbert-Huang transform (HHT) for dealing with activity data with properties such as nonlinearity and non-stationarity. A multi-features extraction method based on HHT is then proposed to improve the effect of activity recognition. The extracted multi-features include instantaneous amplitude (IA) and instantaneous frequency (IF) by means of empirical mode decomposition (EMD), as well as instantaneous energy density (IE) and marginal spectrum (MS) derived from Hilbert spectral analysis. Experimental studies are performed to verify the proposed approach by using the PAMAP2 dataset from the University of California, Irvine for wearable sensors-based activity recognition. Moreover, the effect of combining multi-features vs. a single-feature are investigated and discussed in the scenario of a dependent subject. The experimental results show that multi-features combination can further improve the performance measures. Finally, we test the effect of multi-features combination in the scenario of an independent subject. Our experimental results show that we achieve four performance indexes: recall, precision, F-measure, and accuracy to 0.9337, 0.9417, 0.9353, and 0.9377 respectively, which are all better than the achievements of related works.

Wearable Sensor-Based Human Activity Recognition Method with Multi-Features Extracted from Hilbert-Huang Transform

PubMed Central

Xu, Huile; Liu, Jinyi; Hu, Haibo; Zhang, Yi

2016-01-01

Wearable sensors-based human activity recognition introduces many useful applications and services in health care, rehabilitation training, elderly monitoring and many other areas of human interaction. Existing works in this field mainly focus on recognizing activities by using traditional features extracted from Fourier transform (FT) or wavelet transform (WT). However, these signal processing approaches are suitable for a linear signal but not for a nonlinear signal. In this paper, we investigate the characteristics of the Hilbert-Huang transform (HHT) for dealing with activity data with properties such as nonlinearity and non-stationarity. A multi-features extraction method based on HHT is then proposed to improve the effect of activity recognition. The extracted multi-features include instantaneous amplitude (IA) and instantaneous frequency (IF) by means of empirical mode decomposition (EMD), as well as instantaneous energy density (IE) and marginal spectrum (MS) derived from Hilbert spectral analysis. Experimental studies are performed to verify the proposed approach by using the PAMAP2 dataset from the University of California, Irvine for wearable sensors-based activity recognition. Moreover, the effect of combining multi-features vs. a single-feature are investigated and discussed in the scenario of a dependent subject. The experimental results show that multi-features combination can further improve the performance measures. Finally, we test the effect of multi-features combination in the scenario of an independent subject. Our experimental results show that we achieve four performance indexes: recall, precision, F-measure, and accuracy to 0.9337, 0.9417, 0.9353, and 0.9377 respectively, which are all better than the achievements of related works. PMID:27918414

Bi-level Multi-Source Learning for Heterogeneous Block-wise Missing Data

PubMed Central

Xiang, Shuo; Yuan, Lei; Fan, Wei; Wang, Yalin; Thompson, Paul M.; Ye, Jieping

2013-01-01

Bio-imaging technologies allow scientists to collect large amounts of high-dimensional data from multiple heterogeneous sources for many biomedical applications. In the study of Alzheimer's Disease (AD), neuroimaging data, gene/protein expression data, etc., are often analyzed together to improve predictive power. Joint learning from multiple complementary data sources is advantageous, but feature-pruning and data source selection are critical to learn interpretable models from high-dimensional data. Often, the data collected has block-wise missing entries. In the Alzheimer’s Disease Neuroimaging Initiative (ADNI), most subjects have MRI and genetic information, but only half have cerebrospinal fluid (CSF) measures, a different half has FDG-PET; only some have proteomic data. Here we propose how to effectively integrate information from multiple heterogeneous data sources when data is block-wise missing. We present a unified “bi-level” learning model for complete multi-source data, and extend it to incomplete data. Our major contributions are: (1) our proposed models unify feature-level and source-level analysis, including several existing feature learning approaches as special cases; (2) the model for incomplete data avoids imputing missing data and offers superior performance; it generalizes to other applications with block-wise missing data sources; (3) we present efficient optimization algorithms for modeling complete and incomplete data. We comprehensively evaluate the proposed models including all ADNI subjects with at least one of four data types at baseline: MRI, FDG-PET, CSF and proteomics. Our proposed models compare favorably with existing approaches. PMID:23988272

Ethnic Segregation in Malaysia's Education System: Enrolment Choices, Preferential Policies and Desegregation

ERIC Educational Resources Information Center

Raman, Santhiram R.; Sua, Tan Yao

2010-01-01

Ethnic segregation has become an emerging feature in Malaysia's education system even though the institutional role of education should have been a unifying force for the country's multi-ethnic society. The underlying problem is that, at all levels of education provision in Malaysia, alternative streams are allowed to coexist alongside mainstream…

A Multi-Level Model of Moral Thinking Based on Neuroscience and Moral Psychology

ERIC Educational Resources Information Center

Jeong, Changwoo; Han, Hye Min

2011-01-01

Developments in neurobiology are providing new insights into the biological and physical features of human thinking, and brain-activation imaging methods such as functional magnetic resonance imaging have become the most dominant research techniques to approach the biological part of thinking. With the aid of neurobiology, there also have been…

Correlation of DNA content and nucleomorphometric features with World Health Organization grading of meningiomas.

PubMed

Grunewald, J P; Röhl, F W; Kirches, E; Dietzmann, K

1998-02-01

Many studies dealing with extracranial cancer showed a strong correlation of DNA ploidy to a poor clinical outcome, recurrence, or malignancy. In brain tumors, analysis of DNA content did not always provided significant diagnostic information. In this study, DNA density and karyometric parameters of 50 meningiomas (26 Grade I, 10 Grade II, 14 Grade III) were quantitatively evaluated by digital cell image analyses of Feulgen-stained nuclei. In particular, the densitometric parameter SEXT, which describes nuclear DNA content, as well as the morphometric values LENG (a computer-assisted measurement of nuclear circumference), AREA (a computer-assisted measurement of nuclear area), FCON (a parameter that describes nuclear roundness), and CONC (a describing nuclear contour), evaluated with the software IMAGE C, were correlated to World Health Organization (WHO) grading using univariate and multivariate methods. AREA and LENG values showed significant differences between tumors of Grades I and III. FCON values were unable to distinguish WHO Grade III from Grade I/II but were useful in clearly separating Grade II from Grade I tumors. CONC values detected differences between WHO Grades II and I/III tumors but not between the latter. SEXT values clearly distinguished Grade III from Grade I/II tumors. The 1c, 2c, 2.5c, and 5c exceeding rates showed no predictive values. Only the 6c exceeding rate showed a significant difference between Grades I and III. These results outline the characteristic features of the atypical (Grade II) meningiomas, which make them a recognizable tumor entity distinct from benign and anaplastic meningiomas. The combination of DNA densitometric and morphometric findings seems to be a powerful addition to the histopathologic classification of meningiomas, as suggested by the WHO.

Functional aspects of metatarsal head shape in humans, apes, and Old World monkeys.

PubMed

Fernández, Peter J; Almécija, Sergio; Patel, Biren A; Orr, Caley M; Tocheri, Matthew W; Jungers, William L

2015-09-01

Modern human metatarsal heads are typically described as "dorsally domed," mediolaterally wide, and dorsally flat. Despite the apparent functional importance of these features in forefoot stability during bipedalism, the distinctiveness of this morphology has not been quantitatively evaluated within a broad comparative framework. In order to use these features to reconstruct fossil hominin locomotor behaviors with any confidence, their connection to human bipedalism should be validated through a comparative analysis of other primates with different locomotor behaviors and foot postures, including species with biomechanical demands potentially similar to those of bipedalism (e.g., terrestrial digitigrady). This study explores shape variation in the distal metatarsus among humans and other extant catarrhines using three-dimensional geometric morphometrics (3 DGM). Shape differences among species in metatarsal head morphology are well captured by the first two principal components of Procrustes shape coordinates, and these two components summarize most of the variance related to "dorsal doming" and "dorsal expansion." Multivariate statistical tests reveal significant differences among clades in overall shape, and humans are reliably distinguishable from other species by aspects of shape related to a greater degree of dorsal doming. Within quadrupeds, terrestrial species also trend toward more domed metatarsal heads, but not to the extent seen in humans. Certain aspects of distal metatarsus shape are likely related to habitual dorsiflexion of the metatarsophalangeal joints, but the total morphological pattern seen in humans is distinct. These comparative results indicate that this geometric morphometric approach is useful to characterize the complexity of metatarsal head morphology and will help clarify its relationship with function in fossil primates, including early hominins. Published by Elsevier Ltd.

A three-dimensional morphometric analysis of upper forelimb morphology in the enigmatic tapir (Perissodactyla: Tapirus) hints at subtle variations in locomotor ecology.

PubMed

MacLaren, Jamie A; Nauwelaerts, Sandra

2016-11-01

Forelimb morphology is an indicator for terrestrial locomotor ecology. The limb morphology of the enigmatic tapir (Perissodactyla: Tapirus) has often been compared to that of basal perissodactyls, despite the lack of quantitative studies comparing forelimb variation in modern tapirs. Here, we present a quantitative assessment of tapir upper forelimb osteology using three-dimensional geometric morphometrics to test whether the four modern tapir species are monomorphic in their forelimb skeleton. The shape of the upper forelimb bones across four species (T. indicus; T. bairdii; T. terrestris; T. pinchaque) was investigated. Bones were laser scanned to capture surface morphology and 3D landmark analysis was used to quantify shape. Discriminant function analyses were performed to reveal features which could be used for interspecific discrimination. Overall our results show that the appendicular skeleton contains notable interspecific differences. We demonstrate that upper forelimb bones can be used to discriminate between species (>91% accuracy), with the scapula proving the most diagnostic bone (100% accuracy). Features that most successfully discriminate between the four species include the placement of the cranial angle of the scapula, depth of the humeral condyle, and the caudal deflection of the olecranon. Previous studies comparing the limbs of T. indicus and T. terrestris are corroborated by our quantitative findings. Moreover, the mountain tapir T. pinchaque consistently exhibited the greatest divergence in morphology from the other three species. Despite previous studies describing tapirs as functionally mediportal in their locomotor style, we find osteological evidence suggesting a spectrum of locomotor adaptations in the tapirs. We conclude that modern tapir forelimbs are neither monomorphic nor are tapirs as conserved in their locomotor habits as previously described. J. Morphol. 277:1469-1485, 2016. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Quantitative assessment of testicular germ cell production and kinematic and morphometric parameters of ejaculated spermatozoa in the grey mouse lemur, Microcebus murinus.

PubMed

Aslam, H; Schneiders, A; Perret, M; Weinbauer, G F; Hodges, J K

2002-02-01

Germ cell production and organization of the testicular epithelium in a prosimian species, the grey mouse lemur, Microcebus murinus, was investigated to extend knowledge of comparative primate spermatogenesis. In addition, semen samples collected from adult male lemurs (body weight 53-92 g; n = 16) by rectal probe electroejaculation were evaluated using computer-assisted morphometric and kinematic analysis of spermatozoa. Epididymidal spermatozoa were collected from six animals after hemicastration; the testes were weighed and prepared for stereological analysis and flow cytometry. The relative testis mass (as a percentage of body weight) ranged between 1.17 and 5.6%. Twelve stages of testicular seminiferous epithelium as described for macaques were applied and only a single stage was observed in most of the seminiferous tubule cross-sections. On average (mean SD), a single testis contained 1870 +/- 829 x 10(6) germ cells and 35 +/- 12 x 10(6) Sertoli cells. Germ cell ratios (preleptotene:type B spermatogonia = 2, round spermatid:pachytene = 3; elongated spermatid:round spermatids = 1) indicated high spermatogenic efficacy. Sperm head dimensions and tail lengths of the ejaculated and epididymidal spermatozoa were similar. Percentages of defects (neck/mid-piece and tail) were low ( 10%) and similar for ejaculated and epididymidal spermatozoa. Spermatozoa were highly motile, characterized by extensive lateral head displacement, but relatively low progressive motility. In conclusion, the grey mouse lemur has unusually large testes with a highly efficient spermatogenic process and large sperm output. These features, together with the high proportion of morphologically normal and highly motile spermatozoa in the ejaculates, indicate that Microcebus murinus is a species in which sperm competition after ejaculation is likely to occur. The predominantly single spermatogenic stage system seems to be an ancestral feature among primates.

A multi-band, multi-level, multi-electron model for efficient FDTD simulations of electromagnetic interactions with semiconductor quantum wells

NASA Astrophysics Data System (ADS)

Ravi, Koustuban; Wang, Qian; Ho, Seng-Tiong

2015-08-01

We report a new computational model for simulations of electromagnetic interactions with semiconductor quantum well(s) (SQW) in complex electromagnetic geometries using the finite-difference time-domain method. The presented model is based on an approach of spanning a large number of electron transverse momentum states in each SQW sub-band (multi-band) with a small number of discrete multi-electron states (multi-level, multi-electron). This enables accurate and efficient two-dimensional (2-D) and three-dimensional (3-D) simulations of nanophotonic devices with SQW active media. The model includes the following features: (1) Optically induced interband transitions between various SQW conduction and heavy-hole or light-hole sub-bands are considered. (2) Novel intra sub-band and inter sub-band transition terms are derived to thermalize the electron and hole occupational distributions to the correct Fermi-Dirac distributions. (3) The terms in (2) result in an explicit update scheme which circumvents numerically cumbersome iterative procedures. This significantly augments computational efficiency. (4) Explicit update terms to account for carrier leakage to unconfined states are derived, which thermalize the bulk and SQW populations to a common quasi-equilibrium Fermi-Dirac distribution. (5) Auger recombination and intervalence band absorption are included. The model is validated by comparisons to analytic band-filling calculations, simulations of SQW optical gain spectra, and photonic crystal lasers.

A hybrid CNN feature model for pulmonary nodule malignancy risk differentiation.

PubMed

Wang, Huafeng; Zhao, Tingting; Li, Lihong Connie; Pan, Haixia; Liu, Wanquan; Gao, Haoqi; Han, Fangfang; Wang, Yuehai; Qi, Yifan; Liang, Zhengrong

2018-01-01

The malignancy risk differentiation of pulmonary nodule is one of the most challenge tasks of computer-aided diagnosis (CADx). Most recently reported CADx methods or schemes based on texture and shape estimation have shown relatively satisfactory on differentiating the risk level of malignancy among the nodules detected in lung cancer screening. However, the existing CADx schemes tend to detect and analyze characteristics of pulmonary nodules from a statistical perspective according to local features only. Enlightened by the currently prevailing learning ability of convolutional neural network (CNN), which simulates human neural network for target recognition and our previously research on texture features, we present a hybrid model that takes into consideration of both global and local features for pulmonary nodule differentiation using the largest public database founded by the Lung Image Database Consortium and Image Database Resource Initiative (LIDC-IDRI). By comparing three types of CNN models in which two of them were newly proposed by us, we observed that the multi-channel CNN model yielded the best discrimination in capacity of differentiating malignancy risk of the nodules based on the projection of distributions of extracted features. Moreover, CADx scheme using the new multi-channel CNN model outperformed our previously developed CADx scheme using the 3D texture feature analysis method, which increased the computed area under a receiver operating characteristic curve (AUC) from 0.9441 to 0.9702.

An automatic search of Alzheimer patterns using a nonnegative matrix factorization

NASA Astrophysics Data System (ADS)

Giraldo, Diana L.; García-Arteaga, Juan D.; Romero, Eduardo

2013-11-01

This paper presents a fully automatic method that condenses relevant morphometric information from a database of magnetic resonance images (MR) labeled as either normal (NC) or Alzheimer's disease (AD). The proposed method generates class templates using Nonnegative Matrix Factorization (NMF) which will be used to develop an NC/AD classi cator. It then nds regions of interest (ROI) with discerning inter-class properties. by inspecting the di erence volume of the two class templates. From these templates local probability distribution functions associated to low level features such as intensities, orientation and edges within the found ROI are calculated. A sample brain volume can then be characterized by a similarity measure in the ROI to both the normal and the pathological templates. These characteristics feed a simple binary SVM classi er which, when tested with an experimental group extracted from a public brain MR dataset (OASIS), reveals an equal error rate measure which is better than the state-of-the-art tested on the same dataset (0:9 in the former and 0:8 in the latter).

Geometric morphometric analysis reveals age-related differences in the distal femur of Europeans.

PubMed

Cavaignac, Etienne; Savall, Frederic; Chantalat, Elodie; Faruch, Marie; Reina, Nicolas; Chiron, Philippe; Telmon, Norbert

2017-12-01

Few studies have looked into age-related variations in femur shape. We hypothesized that three-dimensional (3D) geometric morphometric analysis of the distal femur would reveal age-related differences. The purpose of this study was to show that differences in distal femur shape related to age could be identified, visualized, and quantified using three-dimensional (3D) geometric morphometric analysis. Geometric morphometric analysis was carried out on CT scans of the distal femur of 256 subjects living in the south of France. Ten landmarks were defined on 3D reconstructions of the distal femur. Both traditional metric and geometric morphometric analyses were carried out on these bone reconstructions. These analyses were used to identify trends in bone shape in various age-based subgroups (<40, 40-60, >60). Only the average bone shape of the < 40-year subgroup was statistically different from that of the other two groups. When the population was divided into two subgroups using 40 years of age as a threshold, the subject's age was correctly assigned 80% of the time. Age-related differences are present in this bone segment. This reliable, accurate method could be used for virtual autopsy and to perform diachronic and interethnic comparisons. Moreover, this study provides updated morphometric data for a modern population in the south of France. Manufacturers of knee replacement implants will have to adapt their prosthesis models as the population evolves over time.

Morphometric and kinematic sperm subpopulations in split ejaculates of normozoospermic men

PubMed Central

Santolaria, Pilar; Soler, Carles; Recreo, Pilar; Carretero, Teresa; Bono, Araceli; Berné, José M; Yániz, Jesús L

2016-01-01

This study was designed to analyze the sperm kinematic and morphometric subpopulations in the different fractions of the ejaculate in normozoospermic men. Ejaculates from eight normozoospermic men were collected by masturbation in three fractions after 3–5 days of sexual abstinence. Analyses of sperm motility by computer-assisted sperm analysis (CASA-Mot), and of sperm morphometry by computer-assisted sperm morphometry analysis (CASA-Morph) using fluorescence were performed. Clustering and discriminant procedures were performed to identify sperm subpopulations in the kinematic and morphometric data obtained. Clustering procedures resulted in the classification of spermatozoa into three kinematic subpopulations (slow with low ALH [35.6% of all motile spermatozoa], with circular trajectories [32.0%], and rapid with high ALH [32.4%]), and three morphometric subpopulations (large-round [33.9% of all spermatozoa], elongated [32.0%], and small [34.10%]). The distribution of kinematic sperm subpopulations was different among ejaculate fractions (P < 0.001), with higher percentages of spermatozoa exhibiting slow movements with low ALH in the second and third portions, and with a more homogeneous distribution of kinematic sperm subpopulations in the first portion. The distribution of morphometric sperm subpopulations was also different among ejaculate fractions (P < 0.001), with more elongated spermatozoa in the first, and of small spermatozoa in the third, portion. It is concluded that important variations in the distribution of kinematic and morphometric sperm subpopulations exist between ejaculate fractions, with possible functional implications. PMID:27624985

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jing, Yaqi; Meng, Qinghao, E-mail: qh-meng@tju.edu.cn; Qi, Peifeng

An electronic nose (e-nose) was designed to classify Chinese liquors of the same aroma style. A new method of feature reduction which combined feature selection with feature extraction was proposed. Feature selection method used 8 feature-selection algorithms based on information theory and reduced the dimension of the feature space to 41. Kernel entropy component analysis was introduced into the e-nose system as a feature extraction method and the dimension of feature space was reduced to 12. Classification of Chinese liquors was performed by using back propagation artificial neural network (BP-ANN), linear discrimination analysis (LDA), and a multi-linear classifier. The classificationmore » rate of the multi-linear classifier was 97.22%, which was higher than LDA and BP-ANN. Finally the classification of Chinese liquors according to their raw materials and geographical origins was performed using the proposed multi-linear classifier and classification rate was 98.75% and 100%, respectively.« less

Vitamin K3 increased BMD at 1 and 2 months post-surgery and the maximum stress of the middle femur in the rat.

PubMed

Hong, You-jia; Liu, Sheng; Jiang, Ning-yi; Jiang, Sen; Liang, Jiu-gen

2015-02-01

The therapeutic effects of vitamin K3 (VK3) on osteoporosis are still unknown. In this study, we hypothesized that VK3 possesses therapeutic effects on osteoporosis; to verify this hypothesis, the ovariectomized rat was used as an osteoporosis model. Fifty-six Sprague-Dawley female rats aged 8 to 9 months were randomly assigned to 4 groups: sham surgery, ovariectomy with saline, ovariectomy with low-dose VK3, and ovariectomy with high-dose VK3. Intramuscular injection of VK3 was performed every other day beginning 1 month postoperatively. The therapeutic effects of VK3 on osteoporosis were evaluated by measurement of bone mineral density (BMD), bone biochemical markers, biomechanical properties, and bone morphometric parameters. The overall average BMD in VK3-treated groups increased to a level between those of the ovariectomy group and the sham surgery group. The procollagen I N-terminal peptide level peaked at 2 months after surgery in all groups except in the group that had undergone ovariectomy with low-dose VK3. The tartrate-resistant acid phosphatase 5b level increased more slowly at 4 months after surgery than at 2 months after surgery in the VK3-treated groups. The ovariectomy with high-dose VK3 group had the highest maximum stress of the middle femur of all groups. With VK3 treatment, the trabecular bone area percentage increased. All morphometric indicators for the middle tibia in the VK3-treated groups reached the levels found in the sham surgery group. In summary, VK3 therapy increased BMD at 1 and 2 months postsurgery and the maximum stress of the middle femur. In addition, VK3 therapy slowed the increase in bone turnover in ovariectomized rats. Furthermore, VK3 can improve morphometric indicators for the middle tibia. Our preliminary study indicates that VK3 has a potential therapeutic effect on osteoporosis and is worthy of further investigation. Copyright © 2015 Elsevier Inc. All rights reserved.

Morphological and morphometric differentiation of dorsal-spined first stage larvae of lungworms, (Nematoda: Protostrongylidae) infecting muskoxen (Ovibos moschatus) in the Central Canadian Arctic

USDA-ARS?s Scientific Manuscript database

Umingmakstrongylus pallikuukensis and Varestrongylus eleguneniensis are the two most common protostrongylid nematodes infecting muskoxen in the North American Arctic and Subarctic. First stage larvae (L1) of both these lungworms have a characteristic dorsal spine originating at the level of proxima...

3D He-3 diffusion MRI as a local in vivo morphometric tool to evaluate emphysematous rat lungs

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jacob, Rick E.; Minard, Kevin R.; Laicher, Gernot J.

2008-08-21

In this work, we validate 3He magnetic resonance imaging as a non-invasive morphometric tool to assess emphysematous disease state on a local level. Emphysema was induced intratracheally in rats with 25U/100g body weight of porcine pancreatic elastase dissolved in 200 μL saline. Rats were then paired with saline-dosed controls. Nine three-dimensional 3He diffusion-weighted images were acquired at one-, two-, or three-weeks post-dose, after which the lungs were harvested and prepared for histological analysis. Recently introduced indices sensitive to the heterogeneity of the airspace size distribution were calculated. These indices, D1 and D2, were derived from the moments of the meanmore » equivalent airway diameters. Averaged over the entire lung, it is shown that the 3He diffusivity (Dave) and anisotropy (Dan) both correlate with histology (R = 0.85, p < 0.0001 and R = 0.88, p < 0.0001, respectively). By matching small (0.046 cm2) regions in 3He images with corresponding regions in histological slices, Dave and Dan each correlate significantly with both D1 and D2 (R = 0.93, p < 0.0001). It is concluded that 3He MRI is a viable non-invasive morphometric tool for localized in vivo emphysema assessment.« less

Brain morphological alterations and cellular metabolic changes in patients with generalized anxiety disorder: A combined DARTEL-based VBM and (1)H-MRS study.

PubMed

Moon, Chung-Man; Jeong, Gwang-Woo

2016-05-01

Generalized anxiety disorder (GAD) is characterized by emotional dysregulation and cognitive deficit in conjunction with brain morphometric and metabolic alterations. This study assessed the combined neural morphological deficits and metabolic abnormality in patients with GAD. Thirteen patients with GAD and 13 healthy controls matched for age, sex, and education level underwent high-resolution T1-weighted MRI and proton magnetic resonance spectroscopy ((1)H-MRS) at 3Tesla. In this study, the combination of voxel-based morphometry (VBM) and (1)H-MRS was used to assess the brain morphometric and metabolic alterations in GAD. The patients showed significantly reduced white matter (WM) volumes in the midbrain (MB), precentral gyrus (PrG), dorsolateral prefrontal cortex (DLPFC) and anterior limb of the internal capsule (ALIC) compared to the controls. In MRS study, the choline/creatine (Cho/Cr) and choline/N-acetylaspartate (Cho/NAA) ratios in the DLPFC were significantly lower in the patients. Particularly, the WM volume variation of the DLPFC was positively correlated with both of the Cho/Cr and Cho/NAA ratios in patients with GAD. This study provides an evidence for the association between the morphometric deficit and metabolic changes in GAD. This finding would be helpful to understand the neural dysfunction and pathogenesis in connection with cognitive impairments in GAD. Copyright © 2015 Elsevier Inc. All rights reserved.

The influence of spatial variability of lithological and morphometric characters on drainage network arrangement

NASA Astrophysics Data System (ADS)

Coco, Laura; Buccolini, Marcello

2015-04-01

Several factors control the spatial setting and temporal development of the drainage systems: climate, sea level changes, lithology, tectonics, morphometry, land use and land cover. The present work deals with the role of spatial variability of lithology and morphometry on drainage networks arrangement and presents some preliminary evaluations. The test area was the Periadriatic belt of central Italy, composed of Plio-Pleistocene foredeep succession (clay, sands and conglomerate) arranged in a northeastern vergence monocline. We analyzed 37 small basins directly flowing in the Adriatic Sea (18 in Abruzzi and 19 in Marche Region) that have homogenous climatic, eustatic, tectonic, land use and land cover features. For this reason, we could focus our research on lithology and morphometry. We used 10 m cell-size Italian DEM (TINITALY) supplying by INGV (National Institute of Geophysics and Volcanology) [from http://tinitaly.pi.ingv.it/] as source of morphometric data, and extracted watersheds and stream networks through an automatic procedure included in TauDEM toolbox within ArcGIS 9.3 [freely downloaded from http://hydrology.usu.edu/taudem/taudem5/index.html]. For each drainage basin, we reconstructed the topography prior to the inception of fluvial incision through the Topo-to-Raster interpolation tool, considering the heights of the watershed divide as elevation points and obtaining the pre-incision DEM in which the fluvial valleys resulted filled. On this DEM, we calculated the Morphometric Slope Index (MSI), developed by Buccolini et al. (2012), using the formula M SI = Rc -L -Ar/A2D in which Rc is circularity ratio, L is slope length, A2D and Ar are plane and surface area, respectively. In particular, Ar represents the three-dimensional area calculated on the pre-incision DEM. This index is a unique reference index for basin morphometry including both areal and linear features, such as size, shape, inclination, length and width. As drainage network parameter we calculated drainage density (D) computed by the ratio between total drainage length and basin area. We used National and Regional Geological Map as source of lithological characters. The data were analyzed via statistics in terms of average trend and fluctuations. We split the basins into two groups according to the prevalent lithology. The first group included the basins prevalently made up of clays and sandy clays, the second includes the ones mainly constituted by conglomerates on surface. A Regression Analysis revealed that the influence of MSI on D was driven by the lithology. Indeed, we individuated two logarithmic trends of the MSI-D interpolators corresponding to the lithological groups. This finding demonstrated the great influence of lithology not only on D and MSI, but especially on their relation, depending on the different lithotechnical properties of the lithologies under study. Further enhancements will focus on evaluating the influence of spatial variability of lithology and morphology on the evolution of the current drainage network. We intend to investigate the future development of the fluvial dynamic starting from the current DEM (instead of the pre-incision one) and considering other variables that are generally deemed as drivers of the fluvial dynamic (e.g. land use, land cover).

The effects of transcutaneous low-level laser therapy on the skin healing process: an experimental model.

PubMed

Ramos, Felipe Scholz; Maifrino, Laura Beatriz Mesiano; Alves, Sarah; da Costa Aguiar Alves, Beatriz; Perez, Matheus Moreira; Feder, David; Azzalis, Ligia Ajaime; Junqueira, Virginia Berlanga Campos; Fonseca, Fernando Luiz Affonso

2018-01-06

We aim to evaluate the action of transcutaneous laser in the initial wound healing process. The use of low-level laser therapy (LLLT) has proven to be effective on inflammatory modulation and wound healing. The trial was performed on five groups of rats, through a dorsal incision. All groups received treatment on auricular artery. Groups 1 and 3 were treated with transcutaneous LLLT over a period of 15 min. Groups 2 and 4 received one and two inactive laser applications (placebo), respectively. Group 5 was the control one. Blood samples were collected 2 h after the last application of LLLT so that cytokine levels could be measured by ELISA. Tissue fragments were harvested for morphometric, histomorphometric, and RT-qPCR analyses. The morphometric analysis revealed a greater decrease in the wounded area in G1 when compared with G2, whereas in G3, the improvement in the area was greater when compared with G4. Finally, the histomorphometric analysis showed that G1 was the group closer to G5 in terms of collagen fiber count. G2 and G4 had higher amounts of collagen fibers than G5 while G3 had a lower quantity. The use of the transcutaneous LLLT in the current study influenced the wound healing process.

An insight into morphometric descriptors of cell shape that pertain to regenerative medicine.

PubMed

Lobo, Joana; See, Eugene Yong-Shun; Biggs, Manus; Pandit, Abhay

2016-07-01

Cellular morphology has recently been indicated as a powerful indicator of cellular function. The analysis of cell shape has evolved from rudimentary forms of microscopic visual inspection to more advanced methodologies that utilize high-resolution microscopy coupled with sophisticated computer hardware and software for data analysis. Despite this progress, there is still a lack of standardization in quantification of morphometric parameters. In addition, uncertainty remains as to which methodologies and parameters of cell morphology will yield meaningful data, which methods should be utilized to categorize cell shape, and the extent of reliability of measurements and the interpretation of the resulting analysis. A large range of descriptors has been employed to objectively assess the cellular morphology in two-dimensional and three-dimensional domains. Intuitively, simple and applicable morphometric descriptors are preferable and standardized protocols for cell shape analysis can be achieved with the help of computerized tools. In this review, cellular morphology is discussed as a descriptor of cellular function and the current morphometric parameters that are used quantitatively in two- and three-dimensional environments are described. Furthermore, the current problems associated with these morphometric measurements are addressed. Copyright © 2015 John Wiley & Sons, Ltd. Copyright © 2015 John Wiley & Sons, Ltd.

PredPPCrys: Accurate Prediction of Sequence Cloning, Protein Production, Purification and Crystallization Propensity from Protein Sequences Using Multi-Step Heterogeneous Feature Fusion and Selection

PubMed Central

Wang, Huilin; Wang, Mingjun; Tan, Hao; Li, Yuan; Zhang, Ziding; Song, Jiangning

2014-01-01

X-ray crystallography is the primary approach to solve the three-dimensional structure of a protein. However, a major bottleneck of this method is the failure of multi-step experimental procedures to yield diffraction-quality crystals, including sequence cloning, protein material production, purification, crystallization and ultimately, structural determination. Accordingly, prediction of the propensity of a protein to successfully undergo these experimental procedures based on the protein sequence may help narrow down laborious experimental efforts and facilitate target selection. A number of bioinformatics methods based on protein sequence information have been developed for this purpose. However, our knowledge on the important determinants of propensity for a protein sequence to produce high diffraction-quality crystals remains largely incomplete. In practice, most of the existing methods display poorer performance when evaluated on larger and updated datasets. To address this problem, we constructed an up-to-date dataset as the benchmark, and subsequently developed a new approach termed ‘PredPPCrys’ using the support vector machine (SVM). Using a comprehensive set of multifaceted sequence-derived features in combination with a novel multi-step feature selection strategy, we identified and characterized the relative importance and contribution of each feature type to the prediction performance of five individual experimental steps required for successful crystallization. The resulting optimal candidate features were used as inputs to build the first-level SVM predictor (PredPPCrys I). Next, prediction outputs of PredPPCrys I were used as the input to build second-level SVM classifiers (PredPPCrys II), which led to significantly enhanced prediction performance. Benchmarking experiments indicated that our PredPPCrys method outperforms most existing procedures on both up-to-date and previous datasets. In addition, the predicted crystallization targets of currently non-crystallizable proteins were provided as compendium data, which are anticipated to facilitate target selection and design for the worldwide structural genomics consortium. PredPPCrys is freely available at http://www.structbioinfor.org/PredPPCrys. PMID:25148528

Multi-Feature Classification of Multi-Sensor Satellite Imagery Based on Dual-Polarimetric Sentinel-1A, Landsat-8 OLI, and Hyperion Images for Urban Land-Cover Classification.

PubMed

Zhou, Tao; Li, Zhaofu; Pan, Jianjun

2018-01-27

This paper focuses on evaluating the ability and contribution of using backscatter intensity, texture, coherence, and color features extracted from Sentinel-1A data for urban land cover classification and comparing different multi-sensor land cover mapping methods to improve classification accuracy. Both Landsat-8 OLI and Hyperion images were also acquired, in combination with Sentinel-1A data, to explore the potential of different multi-sensor urban land cover mapping methods to improve classification accuracy. The classification was performed using a random forest (RF) method. The results showed that the optimal window size of the combination of all texture features was 9 × 9, and the optimal window size was different for each individual texture feature. For the four different feature types, the texture features contributed the most to the classification, followed by the coherence and backscatter intensity features; and the color features had the least impact on the urban land cover classification. Satisfactory classification results can be obtained using only the combination of texture and coherence features, with an overall accuracy up to 91.55% and a kappa coefficient up to 0.8935, respectively. Among all combinations of Sentinel-1A-derived features, the combination of the four features had the best classification result. Multi-sensor urban land cover mapping obtained higher classification accuracy. The combination of Sentinel-1A and Hyperion data achieved higher classification accuracy compared to the combination of Sentinel-1A and Landsat-8 OLI images, with an overall accuracy of up to 99.12% and a kappa coefficient up to 0.9889. When Sentinel-1A data was added to Hyperion images, the overall accuracy and kappa coefficient were increased by 4.01% and 0.0519, respectively.

Automatic Ship Detection in Remote Sensing Images from Google Earth of Complex Scenes Based on Multiscale Rotation Dense Feature Pyramid Networks

NASA Astrophysics Data System (ADS)

Yang, Xue; Sun, Hao; Fu, Kun; Yang, Jirui; Sun, Xian; Yan, Menglong; Guo, Zhi

2018-01-01

Ship detection has been playing a significant role in the field of remote sensing for a long time but it is still full of challenges. The main limitations of traditional ship detection methods usually lie in the complexity of application scenarios, the difficulty of intensive object detection and the redundancy of detection region. In order to solve such problems above, we propose a framework called Rotation Dense Feature Pyramid Networks (R-DFPN) which can effectively detect ship in different scenes including ocean and port. Specifically, we put forward the Dense Feature Pyramid Network (DFPN), which is aimed at solving the problem resulted from the narrow width of the ship. Compared with previous multi-scale detectors such as Feature Pyramid Network (FPN), DFPN builds the high-level semantic feature-maps for all scales by means of dense connections, through which enhances the feature propagation and encourages the feature reuse. Additionally, in the case of ship rotation and dense arrangement, we design a rotation anchor strategy to predict the minimum circumscribed rectangle of the object so as to reduce the redundant detection region and improve the recall. Furthermore, we also propose multi-scale ROI Align for the purpose of maintaining the completeness of semantic and spatial information. Experiments based on remote sensing images from Google Earth for ship detection show that our detection method based on R-DFPN representation has a state-of-the-art performance.

Swallowing Mechanics Associated With Artificial Airways, Bolus Properties, and Penetration-Aspiration Status in Trauma Patients.

PubMed

Dietsch, Angela M; Rowley, Christopher B; Solomon, Nancy Pearl; Pearson, William G

2017-09-18

Artificial airway procedures such as intubation and tracheotomy are common in the treatment of traumatic injuries, and bolus modifications may be implemented to help manage swallowing disorders. This study assessed artificial airway status, bolus properties (volume and viscosity), and the occurrence of laryngeal penetration and/or aspiration in relation to mechanical features of swallowing. Coordinates of anatomical landmarks were extracted at minimum and maximum hyolaryngeal excursion from 228 videofluoroscopic swallowing studies representing 69 traumatically injured U.S. military service members with dysphagia. Morphometric canonical variate and regression analyses examined associations between swallowing mechanics and bolus properties based on artificial airway and penetration-aspiration status. Significant differences in swallowing mechanics were detected between extubated versus tracheotomized (D = 1.32, p < .0001), extubated versus decannulated (D = 1.74, p < .0001), and decannulated versus tracheotomized (D = 1.24, p < .0001) groups per post hoc discriminant function analysis. Tracheotomy-in-situ and decannulated subgroups exhibited increased head/neck extension and posterior relocation of the larynx. Swallowing mechanics associated with (a) penetration-aspiration status and (b) bolus properties were moderately related for extubated and decannulated subgroups, but not the tracheotomized subgroup, per morphometric regression analysis. Specific differences in swallowing mechanics associated with artificial airway status and certain bolus properties may guide therapeutic intervention in trauma-based dysphagia.

Form and function of the human and chimpanzee forefoot: implications for early hominin bipedalism

PubMed Central

Fernández, Peter J.; Holowka, Nicholas B.; Demes, Brigitte; Jungers, William L.

2016-01-01

During bipedal walking, modern humans dorsiflex their forefoot at the metatarsophalangeal joints (MTPJs) prior to push off, which tightens the plantar soft tissues to convert the foot into a stiff propulsive lever. Particular features of metatarsal head morphology such as “dorsal doming” are thought to facilitate this stiffening mechanism. In contrast, chimpanzees are believed to possess MTPJ morphology that precludes high dorsiflexion excursions during terrestrial locomotion. The morphological affinity of the metatarsal heads has been used to reconstruct locomotor behavior in fossil hominins, but few studies have provided detailed empirical data to validate the assumed link between morphology and function at the MTPJs. Using three-dimensional kinematic and morphometric analyses, we show that humans push off with greater peak dorsiflexion angles at all MTPJs than do chimpanzees during bipedal and quadrupedal walking, with the greatest disparity occurring at MTPJ 1. Among MTPJs 2–5, both species exhibit decreasing peak angles from medial to lateral. This kinematic pattern is mirrored in the morphometric analyses of metatarsal head shape. Analyses of Australopithecus afarensis metatarsals reveal morphology intermediate between humans and chimpanzees, suggesting that this species used different bipedal push-off kinematics than modern humans, perhaps resulting in a less efficient form of bipedalism. PMID:27464580

Understanding of morphometric features for adequate water resource management in arid environments

NASA Astrophysics Data System (ADS)

Elhag, Mohamed; Galal, Hanaa K.; Alsubaie, Haneen

2017-08-01

Hydrological characteristics such as topographic parameters, drainage attributes, and land use/land cover patterns are essential to evaluate the water resource management of a watershed area. In the current study, delineation of a watershed and calculation of morphometric characteristics were undertaken using the ASTER global digital elevation model (GDEM). The drainage density of the basin was estimated to be very high, which indicates that the watershed possesses highly permeable soils and low to medium relief. The stream order of the area ranges from first to sixth order, showing a semi-dendritic and radial drainage pattern that indicates heterogeneity in textural characteristics, and it is influenced by structural characteristics in the study area. The bifurcation ratio (Rb) of the basin ranges from 2.0 to 4.42, and the mean bifurcation ratio is 3.84 in the entire study area, which signifies that the drainage pattern of the entire basin is controlled much more by the lithological and geological structure. The elongation ratio is 0.14, which indicates that the shape of the basin has a narrow and elongated shape. A land use/land cover map was generated by using a Landsat-8 image acquired on 10 August 2015 and classified to distinguish mainly the alluvial deposit from the mountainous rock.

Palaeoecological inferences for the fossil Australian snakes Yurlunggur and Wonambi (Serpentes, Madtsoiidae)

NASA Astrophysics Data System (ADS)

Palci, Alessandro; Hutchinson, Mark N.; Caldwell, Michael W.; Scanlon, John D.; Lee, Michael S. Y.

2018-03-01

Madtsoiids are among the most basal snakes, with a fossil record dating back to the Upper Cretaceous (Cenomanian). Most representatives went extinct by the end of the Eocene, but some survived in Australia until the Late Cenozoic. Yurlunggur and Wonambi are two of these late forms, and also the best-known madtsoiids to date. A better understanding of the anatomy and palaeoecology of these taxa may shed light on the evolution and extinction of this poorly known group of snakes and on early snake evolution in general. A digital endocast of the inner ear of Yurlunggur was compared to those of 81 species of snakes and lizards with known ecological preferences using three-dimensional geometric morphometrics. The inner ear of Yurlunggur most closely resembles both that of certain semiaquatic snakes and that of some semifossorial snakes. Other cranial and postcranial features of this snake support the semifossorial interpretation. While the digital endocast of the inner ear of Wonambi is too incomplete to be included in a geometric morphometrics study, its preserved morphology is very different from that of Yurlunggur and suggests a more generalist ecology. Osteology, palaeoclimatic data and the palaeobiogeographic distribution of these two snakes are all consistent with these inferred ecological differences.

Dolines on ultramafic rocks : the case of the Southern Grande Terre of New Caledonia (SW Pacific)

NASA Astrophysics Data System (ADS)

Jeanpert, J.; Genthon, P.; Join, J. L.; Vendé-Leclerc, M.; Maurizot, P.; Sérino, J.

2014-12-01

New Caledonia (SW Pacific) presents an exceptional outcrop density of ultramafic rocks on nearly 1/3 of its territory. As result of tropical weathering and dissolution of the silicates that constitute the peridotites, extensive evidences of chemical weathering are observed (dolines, enlarged fractures, epikarst). In particular the South of the Grande Terre, called « Plaine des lacs » presents a landscape but also hydraulic behaviour similar to karstic aquifers, with numerous dolines generally observed as ponds. A morphometric study of these depressions is proposed based on field observations and on automatic mapping from the DEM obtained with LIDAR technology. From SIG calculations followed by manual cleaning, a 8601 dataset of dolines is defined on a 128 km2 area, whose area varies from 1 m2 to 2 km2 area. A statistical analysis is applied on the morphometric parameters of dolines and other factors as amount of precipitation or the distance to characteristic mophologic features (ridges, rivers). Fractal and alignment analysis are presented to detect the potential relationship between dolines, the phenomena involved in their formation and evolution. The role of chemical weathering, and of mechanical erosion are discussed as well as the condition required for doline formation. A comparison with limestone karsitification is drawn.

A global distributed basin morphometric dataset

NASA Astrophysics Data System (ADS)

Shen, Xinyi; Anagnostou, Emmanouil N.; Mei, Yiwen; Hong, Yang

2017-01-01

Basin morphometry is vital information for relating storms to hydrologic hazards, such as landslides and floods. In this paper we present the first comprehensive global dataset of distributed basin morphometry at 30 arc seconds resolution. The dataset includes nine prime morphometric variables; in addition we present formulas for generating twenty-one additional morphometric variables based on combination of the prime variables. The dataset can aid different applications including studies of land-atmosphere interaction, and modelling of floods and droughts for sustainable water management. The validity of the dataset has been consolidated by successfully repeating the Hack's law.

SU-F-R-46: Predicting Distant Failure in Lung SBRT Using Multi-Objective Radiomics Model

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhou, Z; Folkert, M; Iyengar, P

2016-06-15

Purpose: To predict distant failure in lung stereotactic body radiation therapy (SBRT) in early stage non-small cell lung cancer (NSCLC) by using a new multi-objective radiomics model. Methods: Currently, most available radiomics models use the overall accuracy as the objective function. However, due to data imbalance, a single object may not reflect the performance of a predictive model. Therefore, we developed a multi-objective radiomics model which considers both sensitivity and specificity as the objective functions simultaneously. The new model is used to predict distant failure in lung SBRT using 52 patients treated at our institute. Quantitative imaging features of PETmore » and CT as well as clinical parameters are utilized to build the predictive model. Image features include intensity features (9), textural features (12) and geometric features (8). Clinical parameters for each patient include demographic parameters (4), tumor characteristics (8), treatment faction schemes (4) and pretreatment medicines (6). The modelling procedure consists of two steps: extracting features from segmented tumors in PET and CT; and selecting features and training model parameters based on multi-objective. Support Vector Machine (SVM) is used as the predictive model, while a nondominated sorting-based multi-objective evolutionary computation algorithm II (NSGA-II) is used for solving the multi-objective optimization. Results: The accuracy for PET, clinical, CT, PET+clinical, PET+CT, CT+clinical, PET+CT+clinical are 71.15%, 84.62%, 84.62%, 85.54%, 82.69%, 84.62%, 86.54%, respectively. The sensitivities for the above seven combinations are 41.76%, 58.33%, 50.00%, 50.00%, 41.67%, 41.67%, 58.33%, while the specificities are 80.00%, 92.50%, 90.00%, 97.50%, 92.50%, 97.50%, 97.50%. Conclusion: A new multi-objective radiomics model for predicting distant failure in NSCLC treated with SBRT was developed. The experimental results show that the best performance can be obtained by combining all features.« less

A Method of Character Detection and Segmentation for Highway Guide Signs

NASA Astrophysics Data System (ADS)

Xu, Jiawei; Zhang, Chongyang

2018-01-01

In this paper, a method of character detection and segmentation for highway signs in China is proposed. It consists of four steps. Firstly, the highway sign area is detectedby colour and geometric features, andthe possible character region is obtained by multi-level projection strategy. Secondly, pseudo target character region is removed by local binary patterns (LBP) feature. Thirdly, convolutional neural network (CNN)is used to classify target regions. Finally, adaptive projection strategies are used to segment characters strings. Experimental results indicate that the proposed method achieves new state-of-the-art results.

Quantitative morphometric analysis of hepatocellular carcinoma: development of a programmed algorithm and preliminary application.

PubMed

Yap, Felix Y; Bui, James T; Knuttinen, M Grace; Walzer, Natasha M; Cotler, Scott J; Owens, Charles A; Berkes, Jamie L; Gaba, Ron C

2013-01-01

The quantitative relationship between tumor morphology and malignant potential has not been explored in liver tumors. We designed a computer algorithm to analyze shape features of hepatocellular carcinoma (HCC) and tested feasibility of morphologic analysis. Cross-sectional images from 118 patients diagnosed with HCC between 2007 and 2010 were extracted at the widest index tumor diameter. The tumor margins were outlined, and point coordinates were input into a MATLAB (MathWorks Inc., Natick, Massachusetts, USA) algorithm. Twelve shape descriptors were calculated per tumor: the compactness, the mean radial distance (MRD), the RD standard deviation (RDSD), the RD area ratio (RDAR), the zero crossings, entropy, the mean Feret diameter (MFD), the Feret ratio, the convex hull area (CHA) and perimeter (CHP) ratios, the elliptic compactness (EC), and the elliptic irregularity (EI). The parameters were correlated with the levels of alpha-fetoprotein (AFP) as an indicator of tumor aggressiveness. The quantitative morphometric analysis was technically successful in all cases. The mean parameters were as follows: compactness 0.88±0.086, MRD 0.83±0.056, RDSD 0.087±0.037, RDAR 0.045±0.023, zero crossings 6±2.2, entropy 1.43±0.16, MFD 4.40±3.14 cm, Feret ratio 0.78±0.089, CHA 0.98±0.027, CHP 0.98±0.030, EC 0.95±0.043, and EI 0.95±0.023. MFD and RDAR provided the widest value range for the best shape discrimination. The larger tumors were less compact, more concave, and less ellipsoid than the smaller tumors (P < 0.0001). AFP-producing tumors displayed greater morphologic irregularity based on several parameters, including compactness, MRD, RDSD, RDAR, entropy, and EI (P < 0.05 for all). Computerized HCC image analysis using shape descriptors is technically feasible. Aggressively growing tumors have wider diameters and more irregular margins. Future studies will determine further clinical applications for this morphologic analysis.

Lung nodule malignancy prediction using multi-task convolutional neural network

NASA Astrophysics Data System (ADS)

Li, Xiuli; Kao, Yueying; Shen, Wei; Li, Xiang; Xie, Guotong

2017-03-01

In this paper, we investigated the problem of diagnostic lung nodule malignancy prediction using thoracic Computed Tomography (CT) screening. Unlike most existing studies classify the nodules into two types benign and malignancy, we interpreted the nodule malignancy prediction as a regression problem to predict continuous malignancy level. We proposed a joint multi-task learning algorithm using Convolutional Neural Network (CNN) to capture nodule heterogeneity by extracting discriminative features from alternatingly stacked layers. We trained a CNN regression model to predict the nodule malignancy, and designed a multi-task learning mechanism to simultaneously share knowledge among 9 different nodule characteristics (Subtlety, Calcification, Sphericity, Margin, Lobulation, Spiculation, Texture, Diameter and Malignancy), and improved the final prediction result. Each CNN would generate characteristic-specific feature representations, and then we applied multi-task learning on the features to predict the corresponding likelihood for that characteristic. We evaluated the proposed method on 2620 nodules CT scans from LIDC-IDRI dataset with the 5-fold cross validation strategy. The multitask CNN regression result for regression RMSE and mapped classification ACC were 0.830 and 83.03%, while the results for single task regression RMSE 0.894 and mapped classification ACC 74.9%. Experiments show that the proposed method could predict the lung nodule malignancy likelihood effectively and outperforms the state-of-the-art methods. The learning framework could easily be applied in other anomaly likelihood prediction problem, such as skin cancer and breast cancer. It demonstrated the possibility of our method facilitating the radiologists for nodule staging assessment and individual therapeutic planning.

Computing multiple aggregation levels and contextual features for road facilities recognition using mobile laser scanning data

NASA Astrophysics Data System (ADS)

Yang, Bisheng; Dong, Zhen; Liu, Yuan; Liang, Fuxun; Wang, Yongjun

2017-04-01

In recent years, updating the inventory of road infrastructures based on field work is labor intensive, time consuming, and costly. Fortunately, vehicle-based mobile laser scanning (MLS) systems provide an efficient solution to rapidly capture three-dimensional (3D) point clouds of road environments with high flexibility and precision. However, robust recognition of road facilities from huge volumes of 3D point clouds is still a challenging issue because of complicated and incomplete structures, occlusions and varied point densities. Most existing methods utilize point or object based features to recognize object candidates, and can only extract limited types of objects with a relatively low recognition rate, especially for incomplete and small objects. To overcome these drawbacks, this paper proposes a semantic labeling framework by combing multiple aggregation levels (point-segment-object) of features and contextual features to recognize road facilities, such as road surfaces, road boundaries, buildings, guardrails, street lamps, traffic signs, roadside-trees, power lines, and cars, for highway infrastructure inventory. The proposed method first identifies ground and non-ground points, and extracts road surfaces facilities from ground points. Non-ground points are segmented into individual candidate objects based on the proposed multi-rule region growing method. Then, the multiple aggregation levels of features and the contextual features (relative positions, relative directions, and spatial patterns) associated with each candidate object are calculated and fed into a SVM classifier to label the corresponding candidate object. The recognition performance of combining multiple aggregation levels and contextual features was compared with single level (point, segment, or object) based features using large-scale highway scene point clouds. Comparative studies demonstrated that the proposed semantic labeling framework significantly improves road facilities recognition precision (90.6%) and recall (91.2%), particularly for incomplete and small objects.

Astragalar Morphology of Selected Giraffidae.

PubMed

Solounias, Nikos; Danowitz, Melinda

2016-01-01

The artiodactyl astragalus has been modified to exhibit two trochleae, creating a double pullied structure allowing for significant dorso-plantar motion, and limited mediolateral motion. The astragalus structure is partly influenced by environmental substrates, and correspondingly, morphometric studies can yield paleohabitat information. The present study establishes terminology and describes detailed morphological features on giraffid astragali. Each giraffid astragalus exhibits a unique combination of anatomical characteristics. The giraffid astragalar morphologies reinforce previously established phylogenetic relationships. We find that the enlargement of the navicular head is a feature shared by all giraffids, and that the primitive giraffids possess exceptionally tall astragalar heads in relation to the total astragalar height. The sivatheres and the okapi share a reduced notch on the lateral edge of the astragalus. We find that Samotherium is more primitive in astragalar morphologies than Palaeotragus, which is reinforced by tooth characteristics and ossicone position. Diagnostic anatomical characters on the astragalus allow for giraffid species identifications and a better understanding of Giraffidae.

East Greenland and Barents Sea polar bears (Ursus maritimus): adaptive variation between two populations using skull morphometrics as an indicator of environmental and genetic differences.

PubMed

Pertoldi, Cino; Sonne, Christian; Wiig, Øystein; Baagøe, Hans J; Loeschcke, Volker; Bechshøft, Thea Østergaard

2012-06-01

A morphometric study was conducted on four skull traits of 37 male and 18 female adult East Greenland polar bears (Ursus maritimus) collected 1892-1968, and on 54 male and 44 female adult Barents Sea polar bears collected 1950-1969. The aim was to compare differences in size and shape of the bear skulls using a multivariate approach, characterizing the variation between the two populations using morphometric traits as an indicator of environmental and genetic differences. Mixture analysis testing for geographic differentiation within each population revealed three clusters for Barents Sea males and three clusters for Barents Sea females. East Greenland consisted of one female and one male cluster. A principal component analysis (PCA) conducted on the clusters defined by the mixture analysis, showed that East Greenland and Barents Sea polar bear populations overlapped to a large degree, especially with regards to females. Multivariate analyses of variance (MANOVA) showed no significant differences in morphometric means between the two populations, but differences were detected between clusters from each respective geographic locality. To estimate the importance of genetics and environment in the morphometric differences between the bears, a PCA was performed on the covariance matrix derived from the skull measurements. Skull trait size (PC1) explained approx. 80% of the morphometric variation, whereas shape (PC2) defined approx. 15%, indicating some genetic differentiation. Hence, both environmental and genetic factors seem to have contributed to the observed skull differences between the two populations. Overall, results indicate that many Barents Sea polar bears are morphometrically similar to the East Greenland ones, suggesting an exchange of individuals between the two populations. Furthermore, a subpopulation structure in the Barents Sea population was also indicated from the present analyses, which should be considered with regards to future management decisions. © 2012 The Authors.

Sensitivity of drainage morphometry based hydrological response (GIUH) of a river basin to the spatial resolution of DEM data

NASA Astrophysics Data System (ADS)

Sahoo, Ramendra; Jain, Vikrant

2018-02-01

Drainage network pattern and its associated morphometric ratios are some of the important plan form attributes of a drainage basin. Extraction of these attributes for any basin is usually done by spatial analysis of the elevation data of that basin. These planform attributes are further used as input data for studying numerous process-response interactions inside the physical premise of the basin. One of the important uses of the morphometric ratios is its usage in the derivation of hydrologic response of a basin using GIUH concept. Hence, accuracy of the basin hydrological response to any storm event depends upon the accuracy with which, the morphometric ratios can be estimated. This in turn, is affected by the spatial resolution of the source data, i.e. the digital elevation model (DEM). We have estimated the sensitivity of the morphometric ratios and the GIUH derived hydrograph parameters, to the resolution of source data using a 30 meter and a 90 meter DEM. The analysis has been carried out for 50 drainage basins in a mountainous catchment. A simple and comprehensive algorithm has been developed for estimation of the morphometric indices from a stream network. We have calculated all the morphometric parameters and the hydrograph parameters for each of these basins extracted from two different DEMs, with different spatial resolutions. Paired t-test and Sign test were used for the comparison. Our results didn't show any statistically significant difference among any of the parameters calculated from the two source data. Along with the comparative study, a first-hand empirical analysis about the frequency distribution of the morphometric and hydrologic response parameters has also been communicated. Further, a comparison with other hydrological models suggests that plan form morphometry based GIUH model is more consistent with resolution variability in comparison to topographic based hydrological model.

Visualization of Multi-mission Astronomical Data with ESASky

NASA Astrophysics Data System (ADS)

Baines, Deborah; Giordano, Fabrizio; Racero, Elena; Salgado, Jesús; López Martí, Belén; Merín, Bruno; Sarmiento, María-Henar; Gutiérrez, Raúl; Ortiz de Landaluce, Iñaki; León, Ignacio; de Teodoro, Pilar; González, Juan; Nieto, Sara; Segovia, Juan Carlos; Pollock, Andy; Rosa, Michael; Arviset, Christophe; Lennon, Daniel; O'Mullane, William; de Marchi, Guido

2017-02-01

ESASky is a science-driven discovery portal to explore the multi-wavelength sky and visualize and access multiple astronomical archive holdings. The tool is a web application that requires no prior knowledge of any of the missions involved and gives users world-wide simplified access to the highest-level science data products from multiple astronomical space-based astronomy missions plus a number of ESA source catalogs. The first public release of ESASky features interfaces for the visualization of the sky in multiple wavelengths, the visualization of query results summaries, and the visualization of observations and catalog sources for single and multiple targets. This paper describes these features within ESASky, developed to address use cases from the scientific community. The decisions regarding the visualization of large amounts of data and the technologies used were made to maximize the responsiveness of the application and to keep the tool as useful and intuitive as possible.

Multi-organ autonomic dysfunction in Parkinson disease

PubMed Central

2010-01-01

Both pathologic and clinical studies of autonomic pathways have expanded the concept of Parkinson disease (PD) from a movement disorder to a multi-level widespread neurodegenerative process with non-motor features spanning several organ systems. This review integrates neuropathologic findings and autonomic physiology in PD as it relates to end organ autonomic function. Symptoms, pathology and physiology of the cardiovascular, skin/sweat gland, urinary, gastrointestinal, pupillary and neuroendocrine systems can be probed by autopsy, biopsy and non-invasive electrophysiological techniques in vivo which assess autonomic anatomy and function. There is mounting evidence that PD affects a chain of neurons in autonomic pathways. Consequently, autonomic physiology may serve as a window into non-motor PD progression and allow the development of mechanistically based treatment strategies for several non-motor features of PD. End-organ physiologic markers may be used to inform a model of PD pathophysiology and non-motor progression. PMID:20851033

Time-frequency feature representation using multi-resolution texture analysis and acoustic activity detector for real-life speech emotion recognition.

PubMed

Wang, Kun-Ching

2015-01-14

The classification of emotional speech is mostly considered in speech-related research on human-computer interaction (HCI). In this paper, the purpose is to present a novel feature extraction based on multi-resolutions texture image information (MRTII). The MRTII feature set is derived from multi-resolution texture analysis for characterization and classification of different emotions in a speech signal. The motivation is that we have to consider emotions have different intensity values in different frequency bands. In terms of human visual perceptual, the texture property on multi-resolution of emotional speech spectrogram should be a good feature set for emotion classification in speech. Furthermore, the multi-resolution analysis on texture can give a clearer discrimination between each emotion than uniform-resolution analysis on texture. In order to provide high accuracy of emotional discrimination especially in real-life, an acoustic activity detection (AAD) algorithm must be applied into the MRTII-based feature extraction. Considering the presence of many blended emotions in real life, in this paper make use of two corpora of naturally-occurring dialogs recorded in real-life call centers. Compared with the traditional Mel-scale Frequency Cepstral Coefficients (MFCC) and the state-of-the-art features, the MRTII features also can improve the correct classification rates of proposed systems among different language databases. Experimental results show that the proposed MRTII-based feature information inspired by human visual perception of the spectrogram image can provide significant classification for real-life emotional recognition in speech.

Evaluation of Chemical Preparation on Insect Wing Shape for Geometric Morphometrics

PubMed Central

Lorenz, Camila; Suesdek, Lincoln

2013-01-01

Geometric morphometrics is an approach that has been increasingly applied in studies with insects. A limiting factor of this technique is that some mosquitoes have wings with dark spots or many scales, which jeopardizes the visualization of landmarks for morphometric analysis. Recently, in some studies, chemically treatment (staining) of the wings was used to improve the viewing of landmarks. In this study, we evaluated whether this method causes deformation of the wing veins and tested whether it facilitates the visualization of the most problematic landmarks. In addition, we tested whether mechanical removal of the scales was sufficient for this purpose. The results showed that the physical and chemical treatments are equally effective in improving visualization of the landmarks. The chemical method did not cause deformation of the wing. Thus, some of these treatments should be performed before beginning geometric morphometric analysis to avoid erroneous landmark digitizing. PMID:24019438

Conformation of phylogenetic relationship of Penaeidae shrimp based on morphometric and molecular investigations.

PubMed

Rajakumaran, P; Vaseeharan, B; Jayakumar, R; Chidambara, R

2014-01-01

Understanding of accurate phylogenetic relationship among Penaeidae shrimp is important for academic and fisheries industry. The Morphometric and Randomly amplified polymorphic DNA (RAPD) analysis was used to make the phylogenetic relationsip among 13 Penaeidae shrimp. For morphometric analysis forty variables and total lengths of shrimp were measured for each species, and removed the effect of size variation. The size normalized values obtained was subjected to UPGMA (Unweighted Pair-Group Method with Arithmetic Mean) cluster analysis. For RAPD analysis, the four primers showed reliable differentiation between species, and used correlation coefficient between the DNA banding patterns of 13 Penaeidae species to construct UPGMA dendrogram. Phylogenetic relationship from morphometric and molecular analysis for Penaeidae species found to be congruent. We concluded that as the results from morphometry investigations concur with molecular one, phylogenetic relationship obtained for the studied Penaeidae are considered to be reliable.

Morphometric measurement of Schlemm's canal in normal human eye using anterior segment swept source optical coherence tomography

NASA Astrophysics Data System (ADS)

Shi, Guohua; Wang, Fei; Li, Xiqi; Lu, Jing; Ding, Zhihua; Sun, Xinghuai; Jiang, Chunhui; Zhang, Yudong

2012-01-01

We have used anterior segment swept source optical coherence tomography to measure Schlemm's canal (SC) morphometric values in the living human eye. Fifty healthy volunteers with 100 normal eyes were measured in the nasal and temporal side. Comparison with the published SC morphometric values of histologic sections proves the reliability of our results. The statistical results show that there are no significant differences between nasal and temporal SC with respect to their diameter, perimeter, and area in our study (diameter: t=0.122, p=0.903; perimeter: t=-0.003, p=0.998; area: t=-1.169, p=0.244); further, no significant differences in SC morphometric values are found between oculus sinister and oculus dexter (diameter: t=0.943, p=0.35; perimeter: t=1.346, p=0.18; area: t=1.501, p=0.135).

Trend-surface analysis of morphometric parameters: A case study in southeastern Brazil

NASA Astrophysics Data System (ADS)

Grohmann, Carlos Henrique

2005-10-01

Trend-surface analysis was carried out on data from morphometric parameters isobase and hydraulic gradient. The study area, located in the eastern border of Quadrilátero Ferrífero, southeastern Brazil, presents four main geomorphological units, one characterized by fluvial dissection, two of mountainous relief, with a scarp of hundreds of meters of fall between them, and a flat plateau in the central portion of the fluvially dissected terrains. Morphometric maps were evaluated in GRASS-GIS and statistics were made on R statistical language, using the spatial package. Analysis of variance (ANOVA) was made to test the significance of each surface and the significance of increasing polynomial degree. The best results were achieved with sixth-order surface for isobase and second-order surface for hydraulic gradient. Shape and orientation of residual maps contours for selected trends were compared with structures inferred from several morphometric maps, and a good correlation is present.

Fast and Efficient Feature Engineering for Multi-Cohort Analysis of EHR Data.

PubMed

Ozery-Flato, Michal; Yanover, Chen; Gottlieb, Assaf; Weissbrod, Omer; Parush Shear-Yashuv, Naama; Goldschmidt, Yaara

2017-01-01

We present a framework for feature engineering, tailored for longitudinal structured data, such as electronic health records (EHRs). To fast-track feature engineering and extraction, the framework combines general-use plug-in extractors, a multi-cohort management mechanism, and modular memoization. Using this framework, we rapidly extracted thousands of features from diverse and large healthcare data sources in multiple projects.

Genetic and Morphometric Variability of Triatoma sordida (Hemiptera: Reduviidae) from the Eastern and Western Regions of Paraguay.

PubMed

Gonzalez-Britez, Nilsa E; Carrasco, Hernán J; Martínez Purroy, Clara Elena; Feliciangeli, M Dora; Maldonado, Marisel; López, Elsa; Segovia, Maikell J; Rojas de Arias, Antonieta

2014-01-01

Triatoma sordida is widely distributed throughout the Chaco and the Eastern Region of Paraguay. It is associated to palm trees and artificial ecotopes located in peridomestic environments. The aim of this work was to determine genetic and morphometric variability and feeding behavior among population of T. sordida captured in domicile and peridomicile areas of Paraguay. Feeding contents and levels of genetic and morphometric variation were determined in 124 T. sordida from domicile and peridomicile populations of San Pedro and Paraguarí departments of the Eastern Region and Boquerón and Presidente Hayes departments of the Western region using Double Diffusion Gel, random amplified polymorphic DNA (RAPD), and head and wings morphometry. Morphometric analysis revealed isolation of populations by geographic region and larger size in triatomine populations from the Western Region. RAPD showed no specific patterns for domicile and peridomicile populations. The estimator of diversity (F ST; 0.08) and high gene flow obtained (N m; 5.7) did not allow the establishment of genetic differentiation within the same region. The blood meal source showed that poultry feeding was 38% of host preferences, and human blood was the second feeding preference (24%) in the insects from the Eastern Region while poultry feeding was predominant in those from the Western Region (30%). This work showed homogeneity between T. sordida populations of the same region and between domicile and peridomicile. The genetic diversity was determined among T. sordida populations of both geographical regions suggesting differentiation associated to eco-geographical isolation by distance. It is important to notice that pattern feedings were different between the two regions. Further studies should be focused on how phenetic and genetic variations could be related to the adaptation capacity of these triatomine populations to domicile, increasing their vector potentiality in the transmission of Chagas disease.

Elastic fibers in human skin: quantitation of elastic fibers by computerized digital image analyses and determination of elastin by radioimmunoassay of desmosine.

PubMed

Uitto, J; Paul, J L; Brockley, K; Pearce, R H; Clark, J G

1983-10-01

The elastic fibers in the skin and other organs can be affected in several disease processes. In this study, we have developed morphometric techniques that allow accurate quantitation of the elastic fibers in punch biopsy specimens of skin. In this procedure, the elastic fibers, visualized by elastin-specific stains, are examined through a camera unit attached to the microscope. The black and white images sensing various gray levels are then converted to binary images after selecting a threshold with an analog threshold selection device. The binary images are digitized and the data analyzed by a computer program designed to express the properties of the image, thus allowing determination of the volume fraction occupied by the elastic fibers. As an independent measure of the elastic fibers, alternate tissue sections were used for assay of desmosine, an elastin-specific cross-link compound, by a radioimmunoassay. The clinical applicability of the computerized morphometric analyses was tested by examining the elastic fibers in the skin of five patients with pseudoxanthoma elasticum or Buschke-Ollendorff syndrome. In the skin of 10 healthy control subjects, the elastic fibers occupied 2.1 +/- 1.1% (mean +/- SD) of the dermis. The volume fractions occupied by the elastic fibers in the lesions of pseudoxanthoma elasticum or Buschke-Ollendorff syndrome were increased as much as 6-fold, whereas the values in the unaffected areas of the skin in the same patients were within normal limits. A significant correlation between the volume fraction of elastic fibers, determined by computerized morphometric analyses, and the concentration of desmosine, quantitated by radioimmunoassay, was noted in the total material. These results demonstrate that computerized morphometric techniques are helpful in characterizing disease processes affecting skin. This methodology should also be applicable to other tissues that contain elastic fibers and that are affected in various heritable and acquired diseases.

Repeatability, Reproducibility, Separative Power and Subjectivity of Different Fish Morphometric Analysis Methods

PubMed Central

Takács, Péter

2016-01-01

We compared the repeatability, reproducibility (intra- and inter-measurer similarity), separative power and subjectivity (measurer effect on results) of four morphometric methods frequently used in ichthyological research, the “traditional” caliper-based (TRA) and truss-network (TRU) distance methods and two geometric methods that compare landmark coordinates on the body (GMB) and scales (GMS). In each case, measurements were performed three times by three measurers on the same specimen of three common cyprinid species (roach Rutilus rutilus (Linnaeus, 1758), bleak Alburnus alburnus (Linnaeus, 1758) and Prussian carp Carassius gibelio (Bloch, 1782)) collected from three closely-situated sites in the Lake Balaton catchment (Hungary) in 2014. TRA measurements were made on conserved specimens using a digital caliper, while TRU, GMB and GMS measurements were undertaken on digital images of the bodies and scales. In most cases, intra-measurer repeatability was similar. While all four methods were able to differentiate the source populations, significant differences were observed in their repeatability, reproducibility and subjectivity. GMB displayed highest overall repeatability and reproducibility and was least burdened by measurer effect. While GMS showed similar repeatability to GMB when fish scales had a characteristic shape, it showed significantly lower reproducability (compared with its repeatability) for each species than the other methods. TRU showed similar repeatability as the GMS. TRA was the least applicable method as measurements were obtained from the fish itself, resulting in poor repeatability and reproducibility. Although all four methods showed some degree of subjectivity, TRA was the only method where population-level detachment was entirely overwritten by measurer effect. Based on these results, we recommend a) avoidance of aggregating different measurer’s datasets when using TRA and GMS methods; and b) use of image-based methods for morphometric surveys. Automation of the morphometric workflow would also reduce any measurer effect and eliminate measurement and data-input errors. PMID:27327896

Leaf Morphology, Taxonomy and Geometric Morphometrics: A Simplified Protocol for Beginners

PubMed Central

Viscosi, Vincenzo; Cardini, Andrea

2011-01-01

Taxonomy relies greatly on morphology to discriminate groups. Computerized geometric morphometric methods for quantitative shape analysis measure, test and visualize differences in form in a highly effective, reproducible, accurate and statistically powerful way. Plant leaves are commonly used in taxonomic analyses and are particularly suitable to landmark based geometric morphometrics. However, botanists do not yet seem to have taken advantage of this set of methods in their studies as much as zoologists have done. Using free software and an example dataset from two geographical populations of sessile oak leaves, we describe in detailed but simple terms how to: a) compute size and shape variables using Procrustes methods; b) test measurement error and the main levels of variation (population and trees) using a hierachical design; c) estimate the accuracy of group discrimination; d) repeat this estimate after controlling for the effect of size differences on shape (i.e., allometry). Measurement error was completely negligible; individual variation in leaf morphology was large and differences between trees were generally bigger than within trees; differences between the two geographic populations were small in both size and shape; despite a weak allometric trend, controlling for the effect of size on shape slighly increased discrimination accuracy. Procrustes based methods for the analysis of landmarks were highly efficient in measuring the hierarchical structure of differences in leaves and in revealing very small-scale variation. In taxonomy and many other fields of botany and biology, the application of geometric morphometrics contributes to increase scientific rigour in the description of important aspects of the phenotypic dimension of biodiversity. Easy to follow but detailed step by step example studies can promote a more extensive use of these numerical methods, as they provide an introduction to the discipline which, for many biologists, is less intimidating than the often inaccessible specialistic literature. PMID:21991324

Confocal imaging of benign and malignant proliferative skin lesions in vivo

NASA Astrophysics Data System (ADS)

Gonzalez, Salvador; Rajadhyaksha, Milind M.; Anderson, R. Rox

1999-06-01

Near-infrared confocal reflectance microscopy (CM) provides non- invasive real-time images of thin en-face tissue sections with high resolution and contrast. Imaging of cells, nuclei, other organelles, microvessels, and hair follicles has been possible at resolution comparable to standard histology, to a maximum depth of 250-300 μm in human skin in vivo. We have characterized psoriasis as a prototype of benign proliferative skin conditions, and non-pigmented skin malignancies in vivo based on their unstained, native histologic features using CM. Our data shows that reflectance CM may potentially diagnose and morphometrically evaluate proliferative skin lesions in vivo.

[Louse-borne typhus potential and new technologies in prediction of epidemic louse-borne typhus outburst].

PubMed

Boev, B V; Lobanov, A V; Khudobin, V V

2008-01-01

Features of louse-borne typhus in Russia in the middle of 20th century are considered. Study of the infection source, blood serum in patient after epidemic louse-borne typhus (ELBT) and agent (louse) was performed on territory with high morbidity of pediculosis and ELBT in the years of 2nd world war. New materials of seroimmunological examinations are represented. Priority data of lice morphology based on morphometrical data of lice, collected in Russia and world collection in Berlin are shown. Methods of ELBT prediction are given, special attention is paid to development of mathematic prognostic models based on new technologies.

Integrative taxonomy of root-knot nematodes reveals multiple independent origins of mitotic parthenogenesis

PubMed Central

Janssen, Toon; Karssen, Gerrit; Topalović, Olivera; Coyne, Danny; Bert, Wim

2017-01-01

During sampling of several Coffea arabica plantations in Tanzania severe root galling, caused by a root-knot nematode was observed. From pure cultures, morphology and morphometrics of juveniles and females matched perfectly with Meloidogyne africana, whereas morphology of the males matched identically with those of Meloidogyne decalineata. Based on their Cox1 sequence, however, the recovered juveniles, females and males were confirmed to belong to the same species, creating a taxonomic conundrum. Adding further to this puzzle, re-examination of M. oteifae type material showed insufficient morphological evidence to maintain its status as a separate species. Consequently, M. decalineata and M. oteifae are synonymized with M. africana, which is herewith redescribed based on results of light and scanning electron microscopy, ribosomal and mitochondrial DNA sequences, isozyme electrophoresis, along with bionomic and cytogenetic features. Multi-gene phylogenetic analysis placed M. africana outside of the three major clades, together with M. coffeicola, M. ichinohei and M. camelliae. This phylogenetic position was confirmed by several morphological features, including cellular structure of the spermatheca, egg mass position, perineal pattern and head shape. Moreover, M. africana was found to be a polyphagous species, demonstrating that “early-branching” Meloidogyne spp. are not as oligophagous as had previously been assumed. Cytogenetic information indicates M. africana (2n = 21) and M. ardenensis (2n = 51–54) to be a triploid mitotic parthenogenetic species, revealing at least four independent origins of mitotic parthenogenesis within the genus Meloidogyne. Furthermore, M. mali (n = 12) was found to reproduce by amphimixis, indicating that amphimictic species with a limited number of chromosomes are widespread in the genus, potentially reflecting the ancestral state of the genus. The wide variation in chromosome numbers and associated changes in reproduction modes indicate that cytogenetic evolution played a crucial role in the speciation of root-knot nematodes and plant-parasitic nematodes in general. PMID:28257464

An improved feature extraction algorithm based on KAZE for multi-spectral image

NASA Astrophysics Data System (ADS)

Yang, Jianping; Li, Jun

2018-02-01

Multi-spectral image contains abundant spectral information, which is widely used in all fields like resource exploration, meteorological observation and modern military. Image preprocessing, such as image feature extraction and matching, is indispensable while dealing with multi-spectral remote sensing image. Although the feature matching algorithm based on linear scale such as SIFT and SURF performs strong on robustness, the local accuracy cannot be guaranteed. Therefore, this paper proposes an improved KAZE algorithm, which is based on nonlinear scale, to raise the number of feature and to enhance the matching rate by using the adjusted-cosine vector. The experiment result shows that the number of feature and the matching rate of the improved KAZE are remarkably than the original KAZE algorithm.

Parallel computation of GA search for the artery shape determinants with CFD

NASA Astrophysics Data System (ADS)

Himeno, M.; Noda, S.; Fukasaku, K.; Himeno, R.

2010-06-01

We studied which factors play important role to determine the shape of arteries at the carotid artery bifurcation by performing multi-objective optimization with computation fluid dynamics (CFD) and the genetic algorithm (GA). To perform it, the most difficult problem is how to reduce turn-around time of the GA optimization with 3D unsteady computation of blood flow. We devised two levels of parallel computation method with the following features: level 1: parallel CFD computation with appropriate number of cores; level 2: parallel jobs generated by "master", which finds quickly available job cue and dispatches jobs, to reduce turn-around time. As a result, the turn-around time of one GA trial, which would have taken 462 days with one core, was reduced to less than two days on RIKEN supercomputer system, RICC, with 8192 cores. We performed a multi-objective optimization to minimize the maximum mean WSS and to minimize the sum of circumference for four different shapes and obtained a set of trade-off solutions for each shape. In addition, we found that the carotid bulb has the feature of the minimum local mean WSS and minimum local radius. We confirmed that our method is effective for examining determinants of artery shapes.

Interevent time distributions of human multi-level activity in a virtual world

NASA Astrophysics Data System (ADS)

Mryglod, O.; Fuchs, B.; Szell, M.; Holovatch, Yu.; Thurner, S.

2015-02-01

Studying human behavior in virtual environments provides extraordinary opportunities for a quantitative analysis of social phenomena with levels of accuracy that approach those of the natural sciences. In this paper we use records of player activities in the massive multiplayer online game Pardus over 1238 consecutive days, and analyze dynamical features of sequences of actions of players. We build on previous work where temporal structures of human actions of the same type were quantified, and provide an empirical understanding of human actions of different types. This study of multi-level human activity can be seen as a dynamic counterpart of static multiplex network analysis. We show that the interevent time distributions of actions in the Pardus universe follow highly non-trivial distribution functions, from which we extract action-type specific characteristic 'decay constants'. We discuss characteristic features of interevent time distributions, including periodic patterns on different time scales, bursty dynamics, and various functional forms on different time scales. We comment on gender differences of players in emotional actions, and find that while males and females act similarly when performing some positive actions, females are slightly faster for negative actions. We also observe effects on the age of players: more experienced players are generally faster in making decisions about engaging in and terminating enmity and friendship, respectively.

Nonlocal atlas-guided multi-channel forest learning for human brain labeling

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ma, Guangkai; Gao, Yaozong; Wu, Guorong

Purpose: It is important for many quantitative brain studies to label meaningful anatomical regions in MR brain images. However, due to high complexity of brain structures and ambiguous boundaries between different anatomical regions, the anatomical labeling of MR brain images is still quite a challenging task. In many existing label fusion methods, appearance information is widely used. However, since local anatomy in the human brain is often complex, the appearance information alone is limited in characterizing each image point, especially for identifying the same anatomical structure across different subjects. Recent progress in computer vision suggests that the context features canmore » be very useful in identifying an object from a complex scene. In light of this, the authors propose a novel learning-based label fusion method by using both low-level appearance features (computed from the target image) and high-level context features (computed from warped atlases or tentative labeling maps of the target image). Methods: In particular, the authors employ a multi-channel random forest to learn the nonlinear relationship between these hybrid features and target labels (i.e., corresponding to certain anatomical structures). Specifically, at each of the iterations, the random forest will output tentative labeling maps of the target image, from which the authors compute spatial label context features and then use in combination with original appearance features of the target image to refine the labeling. Moreover, to accommodate the high inter-subject variations, the authors further extend their learning-based label fusion to a multi-atlas scenario, i.e., they train a random forest for each atlas and then obtain the final labeling result according to the consensus of results from all atlases. Results: The authors have comprehensively evaluated their method on both public LONI-LBPA40 and IXI datasets. To quantitatively evaluate the labeling accuracy, the authors use the dice similarity coefficient to measure the overlap degree. Their method achieves average overlaps of 82.56% on 54 regions of interest (ROIs) and 79.78% on 80 ROIs, respectively, which significantly outperform the baseline method (random forests), with the average overlaps of 72.48% on 54 ROIs and 72.09% on 80 ROIs, respectively. Conclusions: The proposed methods have achieved the highest labeling accuracy, compared to several state-of-the-art methods in the literature.« less

Nonlocal atlas-guided multi-channel forest learning for human brain labeling

PubMed Central

Ma, Guangkai; Gao, Yaozong; Wu, Guorong; Wu, Ligang; Shen, Dinggang

2016-01-01

Purpose: It is important for many quantitative brain studies to label meaningful anatomical regions in MR brain images. However, due to high complexity of brain structures and ambiguous boundaries between different anatomical regions, the anatomical labeling of MR brain images is still quite a challenging task. In many existing label fusion methods, appearance information is widely used. However, since local anatomy in the human brain is often complex, the appearance information alone is limited in characterizing each image point, especially for identifying the same anatomical structure across different subjects. Recent progress in computer vision suggests that the context features can be very useful in identifying an object from a complex scene. In light of this, the authors propose a novel learning-based label fusion method by using both low-level appearance features (computed from the target image) and high-level context features (computed from warped atlases or tentative labeling maps of the target image). Methods: In particular, the authors employ a multi-channel random forest to learn the nonlinear relationship between these hybrid features and target labels (i.e., corresponding to certain anatomical structures). Specifically, at each of the iterations, the random forest will output tentative labeling maps of the target image, from which the authors compute spatial label context features and then use in combination with original appearance features of the target image to refine the labeling. Moreover, to accommodate the high inter-subject variations, the authors further extend their learning-based label fusion to a multi-atlas scenario, i.e., they train a random forest for each atlas and then obtain the final labeling result according to the consensus of results from all atlases. Results: The authors have comprehensively evaluated their method on both public LONI_LBPA40 and IXI datasets. To quantitatively evaluate the labeling accuracy, the authors use the dice similarity coefficient to measure the overlap degree. Their method achieves average overlaps of 82.56% on 54 regions of interest (ROIs) and 79.78% on 80 ROIs, respectively, which significantly outperform the baseline method (random forests), with the average overlaps of 72.48% on 54 ROIs and 72.09% on 80 ROIs, respectively. Conclusions: The proposed methods have achieved the highest labeling accuracy, compared to several state-of-the-art methods in the literature. PMID:26843260

IMU-Based Gait Recognition Using Convolutional Neural Networks and Multi-Sensor Fusion.

PubMed

Dehzangi, Omid; Taherisadr, Mojtaba; ChangalVala, Raghvendar

2017-11-27

The wide spread usage of wearable sensors such as in smart watches has provided continuous access to valuable user generated data such as human motion that could be used to identify an individual based on his/her motion patterns such as, gait. Several methods have been suggested to extract various heuristic and high-level features from gait motion data to identify discriminative gait signatures and distinguish the target individual from others. However, the manual and hand crafted feature extraction is error prone and subjective. Furthermore, the motion data collected from inertial sensors have complex structure and the detachment between manual feature extraction module and the predictive learning models might limit the generalization capabilities. In this paper, we propose a novel approach for human gait identification using time-frequency (TF) expansion of human gait cycles in order to capture joint 2 dimensional (2D) spectral and temporal patterns of gait cycles. Then, we design a deep convolutional neural network (DCNN) learning to extract discriminative features from the 2D expanded gait cycles and jointly optimize the identification model and the spectro-temporal features in a discriminative fashion. We collect raw motion data from five inertial sensors placed at the chest, lower-back, right hand wrist, right knee, and right ankle of each human subject synchronously in order to investigate the impact of sensor location on the gait identification performance. We then present two methods for early (input level) and late (decision score level) multi-sensor fusion to improve the gait identification generalization performance. We specifically propose the minimum error score fusion (MESF) method that discriminatively learns the linear fusion weights of individual DCNN scores at the decision level by minimizing the error rate on the training data in an iterative manner. 10 subjects participated in this study and hence, the problem is a 10-class identification task. Based on our experimental results, 91% subject identification accuracy was achieved using the best individual IMU and 2DTF-DCNN. We then investigated our proposed early and late sensor fusion approaches, which improved the gait identification accuracy of the system to 93.36% and 97.06%, respectively.

MORPHOMETRIC EVIDENCE FOR NUTRITIONAL STRESS IN ENGLISH SOLE

EPA Science Inventory

We present an application of the powerful thin plate spline method of morphometric analysis to demonstrate its utility for detecting environmental stress in an estuarine flatfish. Juvenile English sole (Pleuronectes vetulus) were captured from Yaquina Bay, Oregon, photographed w...

Revisiting the Robustness of PET-Based Textural Features in the Context of Multi-Centric Trials

PubMed Central

Bailly, Clément; Bodet-Milin, Caroline; Couespel, Solène; Necib, Hatem; Kraeber-Bodéré, Françoise; Ansquer, Catherine; Carlier, Thomas

2016-01-01

Purpose This study aimed to investigate the variability of textural features (TF) as a function of acquisition and reconstruction parameters within the context of multi-centric trials. Methods The robustness of 15 selected TFs were studied as a function of the number of iterations, the post-filtering level, input data noise, the reconstruction algorithm and the matrix size. A combination of several reconstruction and acquisition settings was devised to mimic multi-centric conditions. We retrospectively studied data from 26 patients enrolled in a diagnostic study that aimed to evaluate the performance of PET/CT 68Ga-DOTANOC in gastro-entero-pancreatic neuroendocrine tumors. Forty-one tumors were extracted and served as the database. The coefficient of variation (COV) or the absolute deviation (for the noise study) was derived and compared statistically with SUVmax and SUVmean results. Results The majority of investigated TFs can be used in a multi-centric context when each parameter is considered individually. The impact of voxel size and noise in the input data were predominant as only 4 TFs presented a high/intermediate robustness against SUV-based metrics (Entropy, Homogeneity, RP and ZP). When combining several reconstruction settings to mimic multi-centric conditions, most of the investigated TFs were robust enough against SUVmax except Correlation, Contrast, LGRE, LGZE and LZLGE. Conclusion Considering previously published results on either reproducibility or sensitivity against delineation approach and our findings, it is feasible to consider Homogeneity, Entropy, Dissimilarity, HGRE, HGZE and ZP as relevant for being used in multi-centric trials. PMID:27467882

Morphometric study of the Habo dome, Kachchh, Gujarat, India: implications on neotectonic activity

NASA Astrophysics Data System (ADS)

Bhattacharjee, N.; Mohanty, S. P.

2017-12-01

The Kachchh Basin of western India was developed during the separation of the Indian plate from the Gondwanaland in Mesozoic. Series of E-W striking master faults were generated during this extensional phase. The collision of the Indian and Eurasian plates in Eocene time resulted in the change of stress regime to a compressional setting when the built-up stress developed NNW-SSE to NNE-SSW striking transverse faults and reactivated the earlier E-W master faults. The present work was carried out in the Habo dome, located in the central part of the Kachchh Basin, to analyse the morphometric features such as the bifurcation ratio, circulation ratio, drainage texture, asymmetric factor, hypsometric indices and mountain front sinuosity of selected sub-watersheds of the area to understand the effects of fault reactivation and neotectonic activities on the geometry of the dome. Shuttle Radar Topographic Mission (SRTM) Digital Elevation Model (DEM) data were used to extract drainage network for morphometric analysis of the Kaswati, Khari, and Pur river basins. The study area is elliptical in outline with the long axis trending approximately E-W. The evolution of this domal structure is interpreted to be the result of fault-bound nature of the block. The northern slope of the dome is bound by the Kachchh Mainland Fault and the eastern and western boundaries are marked by transverse faults. The undulating topography was developed by differential movements along several transverse faults striking NW-SE, N-S, and NE-SW. The earlier interpretation of laccolith intrusion into the sedimentary rocks is not supported by the data analysis and field mapping. Stress propagations from the Himalayan range in the northeast and Sulaiman range in the northwest are identified to be the causative factor for historical seismicity and drainage anomalies in the area. Keywords: Basin morphometry, Geographical Information System, Lineament patterns, Kachchh basin, Neotectonics, Fault reactivation

Automated classification of cell morphology by coherence-controlled holographic microscopy

NASA Astrophysics Data System (ADS)

Strbkova, Lenka; Zicha, Daniel; Vesely, Pavel; Chmelik, Radim

2017-08-01

In the last few years, classification of cells by machine learning has become frequently used in biology. However, most of the approaches are based on morphometric (MO) features, which are not quantitative in terms of cell mass. This may result in poor classification accuracy. Here, we study the potential contribution of coherence-controlled holographic microscopy enabling quantitative phase imaging for the classification of cell morphologies. We compare our approach with the commonly used method based on MO features. We tested both classification approaches in an experiment with nutritionally deprived cancer tissue cells, while employing several supervised machine learning algorithms. Most of the classifiers provided higher performance when quantitative phase features were employed. Based on the results, it can be concluded that the quantitative phase features played an important role in improving the performance of the classification. The methodology could be valuable help in refining the monitoring of live cells in an automated fashion. We believe that coherence-controlled holographic microscopy, as a tool for quantitative phase imaging, offers all preconditions for the accurate automated analysis of live cell behavior while enabling noninvasive label-free imaging with sufficient contrast and high-spatiotemporal phase sensitivity.

Automated classification of cell morphology by coherence-controlled holographic microscopy.

PubMed

Strbkova, Lenka; Zicha, Daniel; Vesely, Pavel; Chmelik, Radim

2017-08-01

In the last few years, classification of cells by machine learning has become frequently used in biology. However, most of the approaches are based on morphometric (MO) features, which are not quantitative in terms of cell mass. This may result in poor classification accuracy. Here, we study the potential contribution of coherence-controlled holographic microscopy enabling quantitative phase imaging for the classification of cell morphologies. We compare our approach with the commonly used method based on MO features. We tested both classification approaches in an experiment with nutritionally deprived cancer tissue cells, while employing several supervised machine learning algorithms. Most of the classifiers provided higher performance when quantitative phase features were employed. Based on the results, it can be concluded that the quantitative phase features played an important role in improving the performance of the classification. The methodology could be valuable help in refining the monitoring of live cells in an automated fashion. We believe that coherence-controlled holographic microscopy, as a tool for quantitative phase imaging, offers all preconditions for the accurate automated analysis of live cell behavior while enabling noninvasive label-free imaging with sufficient contrast and high-spatiotemporal phase sensitivity. (2017) COPYRIGHT Society of Photo-Optical Instrumentation Engineers (SPIE).

Touch the Invisible Sky: A multi-wavelength Braille book featuring NASA images

NASA Astrophysics Data System (ADS)

Steel, S.; Grice, N.; Daou, D.

2008-06-01

Multi-wavelength astronomy - the study of the Universe at wavelengths beyond the visible, has revolutionised our understanding and appreciation of the cosmos. Hubble, Chandra and Spitzer are examples of powerful, space-based telescopes that complement each other in their observations spanning the electromagnetic spectrum. While several Braille books on astronomical topics have been published, to this point, no printed material accessible to the sight disabled or Braille reading public has been available on the topic of multi-wavelength astronomy. Touch the Invisible Sky presents the first printed introduction to modern, multi-wavelength astronomy studies to the disabled sight community. On a more fundamental level, tactile images of a Universe that had, until recently, been invisible to all, sighted or non-sighted, is an important learning message on how science and technology broadens our senses and our understanding of the natural world.

Radiation Tests of Highly Scaled, High-Density, Commercial, Nonvolatile NAND Flash Memories - Update 2012

NASA Technical Reports Server (NTRS)

Irom, Farokh; Allen, Gregory R.

2012-01-01

The space radiation environment poses a certain risk to all electronic components on Earth-orbiting and planetary mission spacecraft. In recent years, there has been increased interest in the use of high-density, commercial, nonvolatile flash memories in space because of ever-increasing data volumes and strict power requirements. They are used in a wide variety of spacecraft subsystems. At one end of the spectrum, flash memories are used to store small amounts of mission-critical data such as boot code or configuration files and, at the other end, they are used to construct multi-gigabyte data recorders that record mission science data. This report examines single-event effect (SEE) and total ionizing dose (TID) response in single-level cell (SLC) 32-Gb, multi-level cell (MLC) 64-Gb, and Triple-level (TLC) 64-Gb NAND flash memories manufactured by Micron Technology with feature size of 25 nm.

Vibration and acoustic frequency spectra for industrial process modeling using selective fusion multi-condition samples and multi-source features

NASA Astrophysics Data System (ADS)

Tang, Jian; Qiao, Junfei; Wu, ZhiWei; Chai, Tianyou; Zhang, Jian; Yu, Wen

2018-01-01

Frequency spectral data of mechanical vibration and acoustic signals relate to difficult-to-measure production quality and quantity parameters of complex industrial processes. A selective ensemble (SEN) algorithm can be used to build a soft sensor model of these process parameters by fusing valued information selectively from different perspectives. However, a combination of several optimized ensemble sub-models with SEN cannot guarantee the best prediction model. In this study, we use several techniques to construct mechanical vibration and acoustic frequency spectra of a data-driven industrial process parameter model based on selective fusion multi-condition samples and multi-source features. Multi-layer SEN (MLSEN) strategy is used to simulate the domain expert cognitive process. Genetic algorithm and kernel partial least squares are used to construct the inside-layer SEN sub-model based on each mechanical vibration and acoustic frequency spectral feature subset. Branch-and-bound and adaptive weighted fusion algorithms are integrated to select and combine outputs of the inside-layer SEN sub-models. Then, the outside-layer SEN is constructed. Thus, "sub-sampling training examples"-based and "manipulating input features"-based ensemble construction methods are integrated, thereby realizing the selective information fusion process based on multi-condition history samples and multi-source input features. This novel approach is applied to a laboratory-scale ball mill grinding process. A comparison with other methods indicates that the proposed MLSEN approach effectively models mechanical vibration and acoustic signals.

Real-Time Visual Tracking through Fusion Features

PubMed Central

Ruan, Yang; Wei, Zhenzhong

2016-01-01

Due to their high-speed, correlation filters for object tracking have begun to receive increasing attention. Traditional object trackers based on correlation filters typically use a single type of feature. In this paper, we attempt to integrate multiple feature types to improve the performance, and we propose a new DD-HOG fusion feature that consists of discriminative descriptors (DDs) and histograms of oriented gradients (HOG). However, fusion features as multi-vector descriptors cannot be directly used in prior correlation filters. To overcome this difficulty, we propose a multi-vector correlation filter (MVCF) that can directly convolve with a multi-vector descriptor to obtain a single-channel response that indicates the location of an object. Experiments on the CVPR2013 tracking benchmark with the evaluation of state-of-the-art trackers show the effectiveness and speed of the proposed method. Moreover, we show that our MVCF tracker, which uses the DD-HOG descriptor, outperforms the structure-preserving object tracker (SPOT) in multi-object tracking because of its high-speed and ability to address heavy occlusion. PMID:27347951

Phenotypic variation in a significant spore character in Kudoa (Myxosporea: Multivalvulida) species infecting brain tissue.

PubMed

Burger, Mieke A A; Adlard, Robert D

2010-10-01

Some Kudoa species display variations in the number of polar capsules in spores within an individual pseudocyst. Nonetheless, there is usually a dominant morphotype which forms a significant element of diagnosis. In 2007, a Kudoa isolate from whiting (spores with 5 (dominant) or 6 (minor) polar capsules) was characterized by Burger et al. (2007) as being 100% identical in SSU rDNA to Kudoa yasunagai (spores with 7 polar capsules) from a halibut, despite its obvious morphological differences. The authors hypothesized that either SSU rDNA had reached its level of resolution or that the genetic identity revealed conspecificity. To further investigate these hypotheses, SSU and LSU rDNA sequence data were coupled with principal components, correlation, and regression analyses of morphometric data from different kudoid isolates that infect brain tissue to determine the relationships between spore morphotypes and different kudoid isolates. The trends in morphometrics between the spores of particular isolates were so similar that it was concluded that the molecular results did indicate conspecificity rather than SSU reaching its level of resolution. This phenotypic influence on a significant diagnostic character within the Kudoidae has a major impact on the diagnosis of this, and potentially other, pathogenic species.

An enhanced data visualization method for diesel engine malfunction classification using multi-sensor signals.

PubMed

Li, Yiqing; Wang, Yu; Zi, Yanyang; Zhang, Mingquan

2015-10-21

The various multi-sensor signal features from a diesel engine constitute a complex high-dimensional dataset. The non-linear dimensionality reduction method, t-distributed stochastic neighbor embedding (t-SNE), provides an effective way to implement data visualization for complex high-dimensional data. However, irrelevant features can deteriorate the performance of data visualization, and thus, should be eliminated a priori. This paper proposes a feature subset score based t-SNE (FSS-t-SNE) data visualization method to deal with the high-dimensional data that are collected from multi-sensor signals. In this method, the optimal feature subset is constructed by a feature subset score criterion. Then the high-dimensional data are visualized in 2-dimension space. According to the UCI dataset test, FSS-t-SNE can effectively improve the classification accuracy. An experiment was performed with a large power marine diesel engine to validate the proposed method for diesel engine malfunction classification. Multi-sensor signals were collected by a cylinder vibration sensor and a cylinder pressure sensor. Compared with other conventional data visualization methods, the proposed method shows good visualization performance and high classification accuracy in multi-malfunction classification of a diesel engine.

An Enhanced Data Visualization Method for Diesel Engine Malfunction Classification Using Multi-Sensor Signals

PubMed Central

Li, Yiqing; Wang, Yu; Zi, Yanyang; Zhang, Mingquan

2015-01-01

The various multi-sensor signal features from a diesel engine constitute a complex high-dimensional dataset. The non-linear dimensionality reduction method, t-distributed stochastic neighbor embedding (t-SNE), provides an effective way to implement data visualization for complex high-dimensional data. However, irrelevant features can deteriorate the performance of data visualization, and thus, should be eliminated a priori. This paper proposes a feature subset score based t-SNE (FSS-t-SNE) data visualization method to deal with the high-dimensional data that are collected from multi-sensor signals. In this method, the optimal feature subset is constructed by a feature subset score criterion. Then the high-dimensional data are visualized in 2-dimension space. According to the UCI dataset test, FSS-t-SNE can effectively improve the classification accuracy. An experiment was performed with a large power marine diesel engine to validate the proposed method for diesel engine malfunction classification. Multi-sensor signals were collected by a cylinder vibration sensor and a cylinder pressure sensor. Compared with other conventional data visualization methods, the proposed method shows good visualization performance and high classification accuracy in multi-malfunction classification of a diesel engine. PMID:26506347

Morphology of a submerged insular shelves in the West Alboran Basin.

NASA Astrophysics Data System (ADS)

Lafosse, Manfred; Le Roy, Pascal; Gorini, Christian; Rabineau, Marina; d'Acremont, Elia; Rabaute, Alain

2017-04-01

The dynamic of the seafloor in the Western Mediterranean Sea reflects the variety of the natural processes shaping it. Each of the sub-surface features is the result of tectonic, sedimentary and oceanic processes and eustatic sea-level variations. This study is focused on the morphology of three flat bathymetric highs and on the continental shelf in the Alboran Sea that show a variety of detailed seabed features that we attribute to a combination of present-day Mediterranean water mass flows, Quaternary active folding and faulting, differential erosion linked to relative-sea-level variation and local hydrodynamic. Swath bathymetry and reflectivity data, 2D seismic lines of multiple resolutions (12 channels, SPARKER source, and TOPAS seismic lines) have been acquired during three successive cruises: the MARLBORO-1 (2011), the MARLBORO-2 (2012) and the SARAS (2012) surveys. Our study deciphers the seabed structure of the banks with morphometric measurements (slope gradient, plan curvature, and topographic index) and correlates these structures to the stratigraphy of surrounding shelf. We show that the competition between active folding of the Miocene units and the erosion linked to the late Quaternary lowstands is creates the topography of the banks. The elevations of the flat surfaces measured on the banks are close to -110m and -80m. They are interpreted as submerged depositional surfaces linked to glacial and post-glacial deposit and wave-ravinement erosional surfaces as observed in other Mediterranean continental shelves. The analysis of the altitudinal spacing of these marine terraces indicates a spatial pattern with varying uplift rates. Furthermore, the characterization of sub-aqueous dune patterns locally linked to potential cold carbonate seamount could reflect the influence of water-masses current on the stratigraphic organization.

Clastic polygonal networks around Lyot crater, Mars: Possible formation mechanisms from morphometric analysis

NASA Astrophysics Data System (ADS)

Brooker, L. M.; Balme, M. R.; Conway, S. J.; Hagermann, A.; Barrett, A. M.; Collins, G. S.; Soare, R. J.

2018-03-01

Polygonal networks of patterned ground are a common feature in cold-climate environments. They can form through the thermal contraction of ice-cemented sediment (i.e. formed from fractures), or the freezing and thawing of ground ice (i.e. formed by patterns of clasts, or ground deformation). The characteristics of these landforms provide information about environmental conditions. Analogous polygonal forms have been observed on Mars leading to inferences about environmental conditions. We have identified clastic polygonal features located around Lyot crater, Mars (50°N, 30°E). These polygons are unusually large (>100 m diameter) compared to terrestrial clastic polygons, and contain very large clasts, some of which are up to 15 metres in diameter. The polygons are distributed in a wide arc around the eastern side of Lyot crater, at a consistent distance from the crater rim. Using high-resolution imaging data, we digitised these features to extract morphological information. These data are compared to existing terrestrial and Martian polygon data to look for similarities and differences and to inform hypotheses concerning possible formation mechanisms. Our results show the clastic polygons do not have any morphometric features that indicate they are similar to terrestrial sorted, clastic polygons formed by freeze-thaw processes. They are too large, do not show the expected variation in form with slope, and have clasts that do not scale in size with polygon diameter. However, the clastic networks are similar in network morphology to thermal contraction cracks, and there is a potential direct Martian analogue in a sub-type of thermal contraction polygons located in Utopia Planitia. Based upon our observations, we reject the hypothesis that polygons located around Lyot formed as freeze-thaw polygons and instead an alternative mechanism is put forward: they result from the infilling of earlier thermal contraction cracks by wind-blown material, which then became compressed and/or cemented resulting in a resistant fill. Erosion then leads to preservation of these polygons in positive relief, while later weathering results in the fracturing of the fill material to form angular clasts. These results suggest that there was an extensive area of ice-rich terrain, the extent of which is linked to ejecta from Lyot crater.

Geometric morphometrics and virtual anthropology: advances in human evolutionary studies.

PubMed

Rein, Thomas R; Harvati, Katerina

2014-01-01

Geometric morphometric methods have been increasingly used in paleoanthropology in the last two decades, lending greater power to the analysis and interpretation of the human fossil record. More recently the advent of the wide use of computed tomography and surface scanning, implemented in combination with geometric morphometrics (GM), characterizes a new approach, termed Virtual Anthropology (VA). These methodological advances have led to a number of developments in human evolutionary studies. We present some recent examples of GM and VA related research in human evolution with an emphasis on work conducted at the University of Tübingen and other German research institutions.

Host-based identification is not supported by morphometrics in natural populations of Gyrodactylus salaris and G. thymalli (Platyhelminthes, Monogenea).

PubMed

Olstad, K; Shinn, A P; Bachmann, L; Bakke, T A

2007-12-01

Gyrodactylus salaris is a serious pest of wild pre-smolt Atlantic salmon (Salmo salar) in Norway. The closely related G. thymalli, originally described from grayling (Thymallus thymallus), is assumed harmless to both grayling and salmon. The 2 species are difficult to distinguish using traditional, morphometric methods or molecular approaches. The aim of this study was to explore whether there is a consistent pattern of morphometrical variation between G. salaris and G. thymalli and to analyse the morphometric variation in the context of 'diagnostic realism' (in natural populations). Specimens from the type-material for the 2 species are also included. In total, 27 point-to-point measurements from the opisthaptoral hard parts were used and analysed by digital image processing and uni- and multivariate morphometry. All populations most closely resembled its respective type material, as expected from host species, with the exception of G. thymalli from the Norwegian river Trysilelva. We, therefore, did not find clear support in the morphometrical variation among G. salaris and G. thymalli for an a priori species delineation based on host. The present study also indicates an urgent need for more detailed knowledge on the influence of environmental factors on the phenotype of gyrodactylid populations.

Energy-related parameters and their association with age, gender, and morphometric measurements in healthy donkeys.

PubMed

Mendoza, F J; Estepa, J C; Gonzalez-De Cara, C A; Aguilera-Aguilera, R; Toribio, R E; Perez-Ecija, A

2015-05-01

Donkeys are commonly afflicted by endocrine and metabolic disturbances but few studies have investigated endocrine variables involved in energy regulation and their association with morphometric indices, age or gender in this species. Hemostatic and clinical differences have been demonstrated between horses and donkeys, so to consider both species as metabolically and endocrinologically similar could lead to misdiagnosis. In this study, plasma concentrations of glucose, triglycerides and endocrine factors involved in energy homeostasis (insulin, glucagon, leptin, adiponectin, ghrelin and insulin-like growth factor [IGF]-1) were measured and their association with morphometric variables (body condition score, neck scoring and body mass index), gender and age was determined in 62 healthy donkeys. In addition, a neck scoring system specific for donkeys was developed. Insulin, glucagon, leptin and IGF-1 concentrations were found to be similar between donkeys and other species, but adiponectin and active ghrelin were lower in donkeys than horses. Donkeys with larger neck scores and body mass indices had higher triglyceride, leptin and IGF-1 concentrations. A sexual dimorphism was observed on all morphometric measurements and plasma glucose concentrations independent of adiposity. Younger animals had lower morphometric measurements and triglyceride and leptin concentrations. Copyright © 2015 Elsevier Ltd. All rights reserved.

Wing morphometrics as a possible tool for the diagnosis of the Ceratitis fasciventris, C. anonae, C. rosa complex (Diptera, Tephritidae).

PubMed

Van Cann, Joannes; Virgilio, Massimiliano; Jordaens, Kurt; De Meyer, Marc

2015-01-01

Previous attempts to resolve the Ceratitis FAR complex (Ceratitis fasciventris, Ceratitis anonae, Ceratitis rosa, Diptera, Tephritidae) showed contrasting results and revealed the occurrence of five microsatellite genotypic clusters (A, F1, F2, R1, R2). In this paper we explore the potential of wing morphometrics for the diagnosis of FAR morphospecies and genotypic clusters. We considered a set of 227 specimens previously morphologically identified and genotyped at 16 microsatellite loci. Seventeen wing landmarks and 6 wing band areas were used for morphometric analyses. Permutational multivariate analysis of variance detected significant differences both across morphospecies and genotypic clusters (for both males and females). Unconstrained and constrained ordinations did not properly resolve groups corresponding to morphospecies or genotypic clusters. However, posterior group membership probabilities (PGMPs) of the Discriminant Analysis of Principal Components (DAPC) allowed the consistent identification of a relevant proportion of specimens (but with performances differing across morphospecies and genotypic clusters). This study suggests that wing morphometrics and PGMPs might represent a possible tool for the diagnosis of species within the FAR complex. Here, we propose a tentative diagnostic method and provide a first reference library of morphometric measures that might be used for the identification of additional and unidentified FAR specimens.

Automatic QRS complex detection using two-level convolutional neural network.

PubMed

Xiang, Yande; Lin, Zhitao; Meng, Jianyi

2018-01-29

The QRS complex is the most noticeable feature in the electrocardiogram (ECG) signal, therefore, its detection is critical for ECG signal analysis. The existing detection methods largely depend on hand-crafted manual features and parameters, which may introduce significant computational complexity, especially in the transform domains. In addition, fixed features and parameters are not suitable for detecting various kinds of QRS complexes under different circumstances. In this study, based on 1-D convolutional neural network (CNN), an accurate method for QRS complex detection is proposed. The CNN consists of object-level and part-level CNNs for extracting different grained ECG morphological features automatically. All the extracted morphological features are used by multi-layer perceptron (MLP) for QRS complex detection. Additionally, a simple ECG signal preprocessing technique which only contains difference operation in temporal domain is adopted. Based on the MIT-BIH arrhythmia (MIT-BIH-AR) database, the proposed detection method achieves overall sensitivity Sen = 99.77%, positive predictivity rate PPR = 99.91%, and detection error rate DER = 0.32%. In addition, the performance variation is performed according to different signal-to-noise ratio (SNR) values. An automatic QRS detection method using two-level 1-D CNN and simple signal preprocessing technique is proposed for QRS complex detection. Compared with the state-of-the-art QRS complex detection approaches, experimental results show that the proposed method acquires comparable accuracy.

Estimating cognitive workload using wavelet entropy-based features during an arithmetic task.

PubMed

Zarjam, Pega; Epps, Julien; Chen, Fang; Lovell, Nigel H

2013-12-01

Electroencephalography (EEG) has shown promise as an indicator of cognitive workload; however, precise workload estimation is an ongoing research challenge. In this investigation, seven levels of workload were induced using an arithmetic task, and the entropy of wavelet coefficients extracted from EEG signals is shown to distinguish all seven levels. For a subject-independent multi-channel classification scheme, the entropy features achieved high accuracy, up to 98% for channels from the frontal lobes, in the delta frequency band. This suggests that a smaller number of EEG channels in only one frequency band can be deployed for an effective EEG-based workload classification system. Together with analysis based on phase locking between channels, these results consistently suggest increased synchronization of neural responses for higher load levels. Copyright © 2013 Elsevier Ltd. All rights reserved.

Detection of relationships among multi-modal brain imaging meta-features via information flow.

PubMed

Miller, Robyn L; Vergara, Victor M; Calhoun, Vince D

2018-01-15

Neuroscientists and clinical researchers are awash in data from an ever-growing number of imaging and other bio-behavioral modalities. This flow of brain imaging data, taken under resting and various task conditions, combines with available cognitive measures, behavioral information, genetic data plus other potentially salient biomedical and environmental information to create a rich but diffuse data landscape. The conditions being studied with brain imaging data are often extremely complex and it is common for researchers to employ more than one imaging, behavioral or biological data modality (e.g., genetics) in their investigations. While the field has advanced significantly in its approach to multimodal data, the vast majority of studies still ignore joint information among two or more features or modalities. We propose an intuitive framework based on conditional probabilities for understanding information exchange between features in what we are calling a feature meta-space; that is, a space consisting of many individual featurae spaces. Features can have any dimension and can be drawn from any data source or modality. No a priori assumptions are made about the functional form (e.g., linear, polynomial, exponential) of captured inter-feature relationships. We demonstrate the framework's ability to identify relationships between disparate features of varying dimensionality by applying it to a large multi-site, multi-modal clinical dataset, balance between schizophrenia patients and controls. In our application it exposes both expected (previously observed) relationships, and novel relationships rarely considered investigated by clinical researchers. To the best of our knowledge there is not presently a comparably efficient way to capture relationships of indeterminate functional form between features of arbitrary dimension and type. We are introducing this method as an initial foray into a space that remains relatively underpopulated. The framework we propose is powerful, intuitive and very efficiently provides a high-level overview of a massive data space. In our application it exposes both expected relationships and relationships very rarely considered worth investigating by clinical researchers. Copyright © 2017 Elsevier B.V. All rights reserved.

Label-aligned Multi-task Feature Learning for Multimodal Classification of Alzheimer’s Disease and Mild Cognitive Impairment

PubMed Central

Zu, Chen; Jie, Biao; Liu, Mingxia; Chen, Songcan

2015-01-01

Multimodal classification methods using different modalities of imaging and non-imaging data have recently shown great advantages over traditional single-modality-based ones for diagnosis and prognosis of Alzheimer’s disease (AD), as well as its prodromal stage, i.e., mild cognitive impairment (MCI). However, to the best of our knowledge, most existing methods focus on mining the relationship across multiple modalities of the same subjects, while ignoring the potentially useful relationship across different subjects. Accordingly, in this paper, we propose a novel learning method for multimodal classification of AD/MCI, by fully exploring the relationships across both modalities and subjects. Specifically, our proposed method includes two subsequent components, i.e., label-aligned multi-task feature selection and multimodal classification. In the first step, the feature selection learning from multiple modalities are treated as different learning tasks and a group sparsity regularizer is imposed to jointly select a subset of relevant features. Furthermore, to utilize the discriminative information among labeled subjects, a new label-aligned regularization term is added into the objective function of standard multi-task feature selection, where label-alignment means that all multi-modality subjects with the same class labels should be closer in the new feature-reduced space. In the second step, a multi-kernel support vector machine (SVM) is adopted to fuse the selected features from multi-modality data for final classification. To validate our method, we perform experiments on the Alzheimer’s Disease Neuroimaging Initiative (ADNI) database using baseline MRI and FDG-PET imaging data. The experimental results demonstrate that our proposed method achieves better classification performance compared with several state-of-the-art methods for multimodal classification of AD/MCI. PMID:26572145

Multi-stage classification method oriented to aerial image based on low-rank recovery and multi-feature fusion sparse representation.

PubMed

Ma, Xu; Cheng, Yongmei; Hao, Shuai

2016-12-10

Automatic classification of terrain surfaces from an aerial image is essential for an autonomous unmanned aerial vehicle (UAV) landing at an unprepared site by using vision. Diverse terrain surfaces may show similar spectral properties due to the illumination and noise that easily cause poor classification performance. To address this issue, a multi-stage classification algorithm based on low-rank recovery and multi-feature fusion sparse representation is proposed. First, color moments and Gabor texture feature are extracted from training data and stacked as column vectors of a dictionary. Then we perform low-rank matrix recovery for the dictionary by using augmented Lagrange multipliers and construct a multi-stage terrain classifier. Experimental results on an aerial map database that we prepared verify the classification accuracy and robustness of the proposed method.

Multi-Atlas Based Segmentation of Brainstem Nuclei from MR Images by Deep Hyper-Graph Learning.

PubMed

Dong, Pei; Guo, Yangrong; Gao, Yue; Liang, Peipeng; Shi, Yonghong; Wang, Qian; Shen, Dinggang; Wu, Guorong

2016-10-01

Accurate segmentation of brainstem nuclei (red nucleus and substantia nigra) is very important in various neuroimaging applications such as deep brain stimulation and the investigation of imaging biomarkers for Parkinson's disease (PD). Due to iron deposition during aging, image contrast in the brainstem is very low in Magnetic Resonance (MR) images. Hence, the ambiguity of patch-wise similarity makes the recently successful multi-atlas patch-based label fusion methods have difficulty to perform as competitive as segmenting cortical and sub-cortical regions from MR images. To address this challenge, we propose a novel multi-atlas brainstem nuclei segmentation method using deep hyper-graph learning. Specifically, we achieve this goal in three-fold. First , we employ hyper-graph to combine the advantage of maintaining spatial coherence from graph-based segmentation approaches and the benefit of harnessing population priors from multi-atlas based framework. Second , besides using low-level image appearance, we also extract high-level context features to measure the complex patch-wise relationship. Since the context features are calculated on a tentatively estimated label probability map, we eventually turn our hyper-graph learning based label propagation into a deep and self-refining model. Third , since anatomical labels on some voxels (usually located in uniform regions) can be identified much more reliably than other voxels (usually located at the boundary between two regions), we allow these reliable voxels to propagate their labels to the nearby difficult-to-label voxels. Such hierarchical strategy makes our proposed label fusion method deep and dynamic. We evaluate our proposed label fusion method in segmenting substantia nigra (SN) and red nucleus (RN) from 3.0 T MR images, where our proposed method achieves significant improvement over the state-of-the-art label fusion methods.

Time-Frequency Feature Representation Using Multi-Resolution Texture Analysis and Acoustic Activity Detector for Real-Life Speech Emotion Recognition

PubMed Central

Wang, Kun-Ching

2015-01-01

The classification of emotional speech is mostly considered in speech-related research on human-computer interaction (HCI). In this paper, the purpose is to present a novel feature extraction based on multi-resolutions texture image information (MRTII). The MRTII feature set is derived from multi-resolution texture analysis for characterization and classification of different emotions in a speech signal. The motivation is that we have to consider emotions have different intensity values in different frequency bands. In terms of human visual perceptual, the texture property on multi-resolution of emotional speech spectrogram should be a good feature set for emotion classification in speech. Furthermore, the multi-resolution analysis on texture can give a clearer discrimination between each emotion than uniform-resolution analysis on texture. In order to provide high accuracy of emotional discrimination especially in real-life, an acoustic activity detection (AAD) algorithm must be applied into the MRTII-based feature extraction. Considering the presence of many blended emotions in real life, in this paper make use of two corpora of naturally-occurring dialogs recorded in real-life call centers. Compared with the traditional Mel-scale Frequency Cepstral Coefficients (MFCC) and the state-of-the-art features, the MRTII features also can improve the correct classification rates of proposed systems among different language databases. Experimental results show that the proposed MRTII-based feature information inspired by human visual perception of the spectrogram image can provide significant classification for real-life emotional recognition in speech. PMID:25594590

Integration of co-localized glandular morphometry and protein biomarker expression in immunofluorescent images for prostate cancer prognosis

NASA Astrophysics Data System (ADS)

Scott, Richard; Khan, Faisal M.; Zeineh, Jack; Donovan, Michael; Fernandez, Gerardo

2015-03-01

Immunofluorescent (IF) image analysis of tissue pathology has proven to be extremely valuable and robust in developing prognostic assessments of disease, particularly in prostate cancer. There have been significant advances in the literature in quantitative biomarker expression as well as characterization of glandular architectures in discrete gland rings. However, while biomarker and glandular morphometric features have been combined as separate predictors in multivariate models, there is a lack of integrative features for biomarkers co-localized within specific morphological sub-types; for example the evaluation of androgen receptor (AR) expression within Gleason 3 glands only. In this work we propose a novel framework employing multiple techniques to generate integrated metrics of morphology and biomarker expression. We demonstrate the utility of the approaches in predicting clinical disease progression in images from 326 prostate biopsies and 373 prostatectomies. Our proposed integrative approaches yield significant improvements over existing IF image feature metrics. This work presents some of the first algorithms for generating innovative characteristics in tissue diagnostics that integrate co-localized morphometry and protein biomarker expression.

GIS analysis of effects of future Baltic sea level rise on the island of Gotland, Sweden

NASA Astrophysics Data System (ADS)

Ebert, Karin; Ekstedt, Karin; Jarsjö, Jerker

2016-07-01

Future sea level rise as a consequence of global warming will affect the world's coastal regions. Even though the pace of sea level rise is not clear, the consequences will be severe and global. Commonly the effects of future sea level rise are investigated for relatively vulnerable development countries; however, a whole range of varying regions needs to be considered in order to improve the understanding of global consequences. In this paper we investigate consequences of future sea level rise along the coast of the Baltic Sea island of Gotland, Sweden, with the aim to fill knowledge gaps regarding comparatively well-suited areas in developed countries. We study both the quantity of the loss of features of infrastructure, cultural, and natural value in the case of a 2 m sea level rise of the Baltic Sea and the effects of climate change on seawater intrusion in coastal aquifers, which indirectly cause saltwater intrusion in wells. We conduct a multi-criteria risk analysis by using lidar data on land elevation and GIS-vulnerability mapping, which gives the application of distance and elevation parameters formerly unimaginable precision. We find that in case of a 2 m sea level rise, 3 % of the land area of Gotland, corresponding to 99 km2, will be inundated. The features most strongly affected are items of touristic or nature value, including camping places, shore meadows, sea stack areas, and endangered plants and species habitats. In total, 231 out of 7354 wells will be directly inundated, and the number of wells in the high-risk zone for saltwater intrusion in wells will increase considerably. Some valuable features will be irreversibly lost due to, for example, inundation of sea stacks and the passing of tipping points for seawater intrusion into coastal aquifers; others might simply be moved further inland, but this requires considerable economic means and prioritization. With nature tourism being one of the main income sources of Gotland, monitoring and planning are required to meet the changes. Seeing Gotland in a global perspective, this island shows that holistic multi-feature studies of future consequences of sea level rise are required to identify overall consequences for individual regions.

A graph-based approach for the retrieval of multi-modality medical images.

PubMed

Kumar, Ashnil; Kim, Jinman; Wen, Lingfeng; Fulham, Michael; Feng, Dagan

2014-02-01

In this paper, we address the retrieval of multi-modality medical volumes, which consist of two different imaging modalities, acquired sequentially, from the same scanner. One such example, positron emission tomography and computed tomography (PET-CT), provides physicians with complementary functional and anatomical features as well as spatial relationships and has led to improved cancer diagnosis, localisation, and staging. The challenge of multi-modality volume retrieval for cancer patients lies in representing the complementary geometric and topologic attributes between tumours and organs. These attributes and relationships, which are used for tumour staging and classification, can be formulated as a graph. It has been demonstrated that graph-based methods have high accuracy for retrieval by spatial similarity. However, naïvely representing all relationships on a complete graph obscures the structure of the tumour-anatomy relationships. We propose a new graph structure derived from complete graphs that structurally constrains the edges connected to tumour vertices based upon the spatial proximity of tumours and organs. This enables retrieval on the basis of tumour localisation. We also present a similarity matching algorithm that accounts for different feature sets for graph elements from different imaging modalities. Our method emphasises the relationships between a tumour and related organs, while still modelling patient-specific anatomical variations. Constraining tumours to related anatomical structures improves the discrimination potential of graphs, making it easier to retrieve similar images based on tumour location. We evaluated our retrieval methodology on a dataset of clinical PET-CT volumes. Our results showed that our method enabled the retrieval of multi-modality images using spatial features. Our graph-based retrieval algorithm achieved a higher precision than several other retrieval techniques: gray-level histograms as well as state-of-the-art methods such as visual words using the scale- invariant feature transform (SIFT) and relational matrices representing the spatial arrangements of objects. Copyright © 2013 Elsevier B.V. All rights reserved.

DEVELOPMENTAL NEUROTOXICITY TESTING GUIDELINES: VARIABILITY IN MORPHOMETRIC ASSESSMENTS OF NEUROPATHOLOGY.

EPA Science Inventory

The USEPA Developmental Neurotoxicity (DNT) Study Test Guideline (OPPTS 870.6300) calls for neuropathological and morphometric assessments of rat pups on postnatal day (PND) 11 and at study termination (after PND 60). In recent discussions about conducting these studies on pesti...

eDNAoccupancy: An R package for multi-scale occupancy modeling of environmental DNA data

USGS Publications Warehouse

Dorazio, Robert; Erickson, Richard A.

2017-01-01

In this article we describe eDNAoccupancy, an R package for fitting Bayesian, multi-scale occupancy models. These models are appropriate for occupancy surveys that include three, nested levels of sampling: primary sample units within a study area, secondary sample units collected from each primary unit, and replicates of each secondary sample unit. This design is commonly used in occupancy surveys of environmental DNA (eDNA). eDNAoccupancy allows users to specify and fit multi-scale occupancy models with or without covariates, to estimate posterior summaries of occurrence and detection probabilities, and to compare different models using Bayesian model-selection criteria. We illustrate these features by analyzing two published data sets: eDNA surveys of a fungal pathogen of amphibians and eDNA surveys of an endangered fish species.

A Integrated Service Platform for Remote Sensing Image 3D Interpretation and Draughting based on HTML5

NASA Astrophysics Data System (ADS)

LIU, Yiping; XU, Qing; ZhANG, Heng; LV, Liang; LU, Wanjie; WANG, Dandi

2016-11-01

The purpose of this paper is to solve the problems of the traditional single system for interpretation and draughting such as inconsistent standards, single function, dependence on plug-ins, closed system and low integration level. On the basis of the comprehensive analysis of the target elements composition, map representation and similar system features, a 3D interpretation and draughting integrated service platform for multi-source, multi-scale and multi-resolution geospatial objects is established based on HTML5 and WebGL, which not only integrates object recognition, access, retrieval, three-dimensional display and test evaluation but also achieves collection, transfer, storage, refreshing and maintenance of data about Geospatial Objects and shows value in certain prospects and potential for growth.

Change Detection of High-Resolution Remote Sensing Images Based on Adaptive Fusion of Multiple Features

NASA Astrophysics Data System (ADS)

Wang, G. H.; Wang, H. B.; Fan, W. F.; Liu, Y.; Chen, C.

2018-04-01

In view of the traditional change detection algorithm mainly depends on the spectral information image spot, failed to effectively mining and fusion of multi-image feature detection advantage, the article borrows the ideas of object oriented analysis proposed a multi feature fusion of remote sensing image change detection algorithm. First by the multi-scale segmentation of image objects based; then calculate the various objects of color histogram and linear gradient histogram; utilizes the color distance and edge line feature distance between EMD statistical operator in different periods of the object, using the adaptive weighted method, the color feature distance and edge in a straight line distance of combination is constructed object heterogeneity. Finally, the curvature histogram analysis image spot change detection results. The experimental results show that the method can fully fuse the color and edge line features, thus improving the accuracy of the change detection.

Feature-based Alignment of Volumetric Multi-modal Images

PubMed Central

Toews, Matthew; Zöllei, Lilla; Wells, William M.

2014-01-01

This paper proposes a method for aligning image volumes acquired from different imaging modalities (e.g. MR, CT) based on 3D scale-invariant image features. A novel method for encoding invariant feature geometry and appearance is developed, based on the assumption of locally linear intensity relationships, providing a solution to poor repeatability of feature detection in different image modalities. The encoding method is incorporated into a probabilistic feature-based model for multi-modal image alignment. The model parameters are estimated via a group-wise alignment algorithm, that iteratively alternates between estimating a feature-based model from feature data, then realigning feature data to the model, converging to a stable alignment solution with few pre-processing or pre-alignment requirements. The resulting model can be used to align multi-modal image data with the benefits of invariant feature correspondence: globally optimal solutions, high efficiency and low memory usage. The method is tested on the difficult RIRE data set of CT, T1, T2, PD and MP-RAGE brain images of subjects exhibiting significant inter-subject variability due to pathology. PMID:24683955

Identification and phenology of Hyalesthes obsoletus (Hemiptera: Auchenorrhyncha: Cixiidae) nymphal instars.

PubMed

Cargnus, E; Pavan, F; Mori, N; Martini, M

2012-10-01

Urtica dioica and Convolvulus arvensis are the main host plants of Hyalesthes obsoletus and play an important role in the epidemiology of Bois noir of grapevines. The earliest survey, which was carried out to compare the phenology of nymphal instars on U. dioica and C. arvensis, had highlighted some problems in the identification of the instars. Therefore, the correct identification of nymphs to species and instar level became a preliminary aim of this research. Adults and nymphs attributable to H. obsoletus were collected during 2008-2010 in three flatland vineyard habitats of northern Italy on U. dioica, C. arvensis and Artemisia verlotorum. Nymphs and morphologically identified adults of H. obsoletus were submitted to molecular identification. Morphometric and morphological studies were carried out on nymphs collected in the field or obtained in laboratory rearings. Molecular methods not only confirmed the identity of adults, but also allowed the assignment of the nymphs to this species. Morphometric and morphological characteristics (e.g. body and head-thoracic lengths, number of thoracic pits) showed the existence of five nymphal instars. Morphometric differences between newly hatched and older first-instar nymphs were observed. A key to distinguish the five instars was proposed. Evident differences between H. obsoletus nymphs studied here and elsewhere were identified. According to differences in adult-flight period, an earlier phenology of nymphs on C. arvensis than on U. dioica was observed. In particular, the typical overwintering instar was the second on U. dioica and the third on C. arvensis.

Analysing the floral elements of the lost tree of Easter Island: a morphometric comparison between the remaining ex-situ lines of the endemic extinct species Sophora toromiro.

PubMed

Püschel, Thomas A; Espejo, Jaime; Sanzana, María-José; Benítez, Hugo A

2014-01-01

Sophora toromiro (Phil) Skottsb. is a species that has been extinct in its natural habitat Easter Island (Rapa Nui) for over 50 years. However, seed collections carried out before its extinction have allowed its persistence ex-situ in different botanical gardens and private collections around the world. The progenies of these diverse collections have been classified in different lines, most of them exhibiting high similarity as corroborated by molecular markers. In spite of this resemblance observed between the different lines, one of them (Titze) has dissimilar floral elements, thus generating doubts regarding its species classification. The floral elements (wing, standard and keel) belonging to three different S. toromiro lines and two related species were analyzed using geometric morphometrics. This method was applied in order to quantify the floral shape variation of the standard, wing, and keel between the different lines and control species. Geometric morphometrics analyses were able to distinguish the floral elements at both intra (lines) and inter-specific levels. The present results are on line with the cumulative evidence that supports the Titze line as not being a proper member of the S. toromiro species, but probably a hybridization product or even another species of the Edwardsia section. The reintroduction programs of S. toromiro should consider this information when assessing the authenticity and origin of the lines that will be used to repopulate the island.

Are cats (Felis catus) from multi-cat households more stressed? Evidence from assessment of fecal glucocorticoid metabolite analysis.

PubMed

Ramos, D; Reche-Junior, A; Fragoso, P L; Palme, R; Yanasse, N K; Gouvêa, V R; Beck, A; Mills, D S

2013-10-02

Given the social and territorial features described in feral cats, it is commonly assumed that life in multi-cat households is stressful for domestic cats and suggested that cats kept as single pets are likely to have better welfare. On the other hand, it has been hypothesized that under high densities cats can organize themselves socially thus preventing stress when spatial dispersion is unavailable. This study was aimed at comparing the general arousal underpinning emotional distress in single housed cats and in cats from multi-cat households (2 and 3-4 cats) on the basis of fecal glucocorticoid metabolites (GCM) measured via enzyme immunoassay (EIA). GCM did not significantly vary as a function of living style (single, double or group-housing); highly stressed individuals were equally likely in the three groups. Young cats in multi-cat households had lower GCM, and overall cats that tolerate (as opposed to dislike) petting by the owners tended to have higher GCM levels. Other environmental aspects within cat houses (e.g. relationship with humans, resource availability) may play a more important role in day to day feline arousal levels than the number of cats per se. © 2013.

Multi-class computational evolution: development, benchmark evaluation and application to RNA-Seq biomarker discovery.

PubMed

Crabtree, Nathaniel M; Moore, Jason H; Bowyer, John F; George, Nysia I

2017-01-01

A computational evolution system (CES) is a knowledge discovery engine that can identify subtle, synergistic relationships in large datasets. Pareto optimization allows CESs to balance accuracy with model complexity when evolving classifiers. Using Pareto optimization, a CES is able to identify a very small number of features while maintaining high classification accuracy. A CES can be designed for various types of data, and the user can exploit expert knowledge about the classification problem in order to improve discrimination between classes. These characteristics give CES an advantage over other classification and feature selection algorithms, particularly when the goal is to identify a small number of highly relevant, non-redundant biomarkers. Previously, CESs have been developed only for binary class datasets. In this study, we developed a multi-class CES. The multi-class CES was compared to three common feature selection and classification algorithms: support vector machine (SVM), random k-nearest neighbor (RKNN), and random forest (RF). The algorithms were evaluated on three distinct multi-class RNA sequencing datasets. The comparison criteria were run-time, classification accuracy, number of selected features, and stability of selected feature set (as measured by the Tanimoto distance). The performance of each algorithm was data-dependent. CES performed best on the dataset with the smallest sample size, indicating that CES has a unique advantage since the accuracy of most classification methods suffer when sample size is small. The multi-class extension of CES increases the appeal of its application to complex, multi-class datasets in order to identify important biomarkers and features.

Genre Analysis of Personal Statements: Analysis of Moves in Application Essays to Medical and Dental Schools

ERIC Educational Resources Information Center

Ding, Huiling

2007-01-01

Despite the important role the personal statement plays in the graduate school application processes, little research has been done on its functional features and little instruction has been given about it in academic writing courses. The author conducted a multi-level discourse analysis on a corpus of 30 medical/dental school application letters,…

An Evolutionary Framework for Understanding the Origin of Eukaryotes.

PubMed

Blackstone, Neil W

2016-04-27

Two major obstacles hinder the application of evolutionary theory to the origin of eukaryotes. The first is more apparent than real-the endosymbiosis that led to the mitochondrion is often described as "non-Darwinian" because it deviates from the incremental evolution championed by the modern synthesis. Nevertheless, endosymbiosis can be accommodated by a multi-level generalization of evolutionary theory, which Darwin himself pioneered. The second obstacle is more serious-all of the major features of eukaryotes were likely present in the last eukaryotic common ancestor thus rendering comparative methods ineffective. In addition to a multi-level theory, the development of rigorous, sequence-based phylogenetic and comparative methods represents the greatest achievement of modern evolutionary theory. Nevertheless, the rapid evolution of major features in the eukaryotic stem group requires the consideration of an alternative framework. Such a framework, based on the contingent nature of these evolutionary events, is developed and illustrated with three examples: the putative intron proliferation leading to the nucleus and the cell cycle; conflict and cooperation in the origin of eukaryotic bioenergetics; and the inter-relationship between aerobic metabolism, sterol synthesis, membranes, and sex. The modern synthesis thus provides sufficient scope to develop an evolutionary framework to understand the origin of eukaryotes.

Generative mechanistic explanation building in undergraduate molecular and cellular biology

NASA Astrophysics Data System (ADS)

Southard, Katelyn M.; Espindola, Melissa R.; Zaepfel, Samantha D.; Bolger, Molly S.

2017-09-01

When conducting scientific research, experts in molecular and cellular biology (MCB) use specific reasoning strategies to construct mechanistic explanations for the underlying causal features of molecular phenomena. We explored how undergraduate students applied this scientific practice in MCB. Drawing from studies of explanation building among scientists, we created and applied a theoretical framework to explore the strategies students use to construct explanations for 'novel' biological phenomena. Specifically, we explored how students navigated the multi-level nature of complex biological systems using generative mechanistic reasoning. Interviews were conducted with introductory and upper-division biology students at a large public university in the United States. Results of qualitative coding revealed key features of students' explanation building. Students used modular thinking to consider the functional subdivisions of the system, which they 'filled in' to varying degrees with mechanistic elements. They also hypothesised the involvement of mechanistic entities and instantiated abstract schema to adapt their explanations to unfamiliar biological contexts. Finally, we explored the flexible thinking that students used to hypothesise the impact of mutations on multi-leveled biological systems. Results revealed a number of ways that students drew mechanistic connections between molecules, functional modules (sets of molecules with an emergent function), cells, tissues, organisms and populations.

Tesevatinib ameliorates progression of polycystic kidney disease in rodent models of autosomal recessive polycystic kidney disease

PubMed Central

Sweeney, William E; Frost, Philip; Avner, Ellis D

2017-01-01

AIM To investigate the therapeutic potential of tesevatinib (TSV), a unique multi-kinase inhibitor currently in Phase II clinical trials for autosomal dominant polycystic kidney disease (ADPKD), in well-defined rodent models of autosomal recessive polycystic kidney disease (ARPKD). METHODS We administered TSV in daily doses of 7.5 and 15 mg/kg per day by I.P. to the well characterized bpk model of polycystic kidney disease starting at postnatal day (PN) 4 through PN21 to assess efficacy and toxicity in neonatal mice during postnatal development and still undergoing renal maturation. We administered TSV by oral gavage in the same doses to the orthologous PCK model (from PN30 to PN90) to assess efficacy and toxicity in animals where developmental processes are complete. The following parameters were assessed: Body weight, total kidney weight; kidney weight to body weight ratios; and morphometric determination of a cystic index and a measure of hepatic disease. Renal function was assessed by: Serum BUN; creatinine; and a 12 h urinary concentrating ability. Validation of reported targets including the level of angiogenesis and inhibition of angiogenesis (active VEGFR2/KDR) was assessed by Western analysis. RESULTS This study demonstrates that: (1) in vivo pharmacological inhibition of multiple kinase cascades with TSV reduced phosphorylation of key mediators of cystogenesis: EGFR, ErbB2, c-Src and KDR; and (2) this reduction of kinase activity resulted in significant reduction of renal and biliary disease in both bpk and PCK models of ARPKD. The amelioration of disease by TSV was not associated with any apparent toxicity. CONCLUSION The data supports the hypothesis that this multi-kinase inhibitor TSV may provide an effective clinical therapy for human ARPKD. PMID:28729967

Multi-Feature Classification of Multi-Sensor Satellite Imagery Based on Dual-Polarimetric Sentinel-1A, Landsat-8 OLI, and Hyperion Images for Urban Land-Cover Classification

PubMed Central

Pan, Jianjun

2018-01-01

This paper focuses on evaluating the ability and contribution of using backscatter intensity, texture, coherence, and color features extracted from Sentinel-1A data for urban land cover classification and comparing different multi-sensor land cover mapping methods to improve classification accuracy. Both Landsat-8 OLI and Hyperion images were also acquired, in combination with Sentinel-1A data, to explore the potential of different multi-sensor urban land cover mapping methods to improve classification accuracy. The classification was performed using a random forest (RF) method. The results showed that the optimal window size of the combination of all texture features was 9 × 9, and the optimal window size was different for each individual texture feature. For the four different feature types, the texture features contributed the most to the classification, followed by the coherence and backscatter intensity features; and the color features had the least impact on the urban land cover classification. Satisfactory classification results can be obtained using only the combination of texture and coherence features, with an overall accuracy up to 91.55% and a kappa coefficient up to 0.8935, respectively. Among all combinations of Sentinel-1A-derived features, the combination of the four features had the best classification result. Multi-sensor urban land cover mapping obtained higher classification accuracy. The combination of Sentinel-1A and Hyperion data achieved higher classification accuracy compared to the combination of Sentinel-1A and Landsat-8 OLI images, with an overall accuracy of up to 99.12% and a kappa coefficient up to 0.9889. When Sentinel-1A data was added to Hyperion images, the overall accuracy and kappa coefficient were increased by 4.01% and 0.0519, respectively. PMID:29382073

Multi-view and 3D deformable part models.

PubMed

Pepik, Bojan; Stark, Michael; Gehler, Peter; Schiele, Bernt

2015-11-01

As objects are inherently 3D, they have been modeled in 3D in the early days of computer vision. Due to the ambiguities arising from mapping 2D features to 3D models, 3D object representations have been neglected and 2D feature-based models are the predominant paradigm in object detection nowadays. While such models have achieved outstanding bounding box detection performance, they come with limited expressiveness, as they are clearly limited in their capability of reasoning about 3D shape or viewpoints. In this work, we bring the worlds of 3D and 2D object representations closer, by building an object detector which leverages the expressive power of 3D object representations while at the same time can be robustly matched to image evidence. To that end, we gradually extend the successful deformable part model [1] to include viewpoint information and part-level 3D geometry information, resulting in several different models with different level of expressiveness. We end up with a 3D object model, consisting of multiple object parts represented in 3D and a continuous appearance model. We experimentally verify that our models, while providing richer object hypotheses than the 2D object models, provide consistently better joint object localization and viewpoint estimation than the state-of-the-art multi-view and 3D object detectors on various benchmarks (KITTI [2] , 3D object classes [3] , Pascal3D+ [4] , Pascal VOC 2007 [5] , EPFL multi-view cars[6] ).

Texture feature extraction based on wavelet transform and gray-level co-occurrence matrices applied to osteosarcoma diagnosis.

PubMed

Hu, Shan; Xu, Chao; Guan, Weiqiao; Tang, Yong; Liu, Yana

2014-01-01

Osteosarcoma is the most common malignant bone tumor among children and adolescents. In this study, image texture analysis was made to extract texture features from bone CR images to evaluate the recognition rate of osteosarcoma. To obtain the optimal set of features, Sym4 and Db4 wavelet transforms and gray-level co-occurrence matrices were applied to the image, with statistical methods being used to maximize the feature selection. To evaluate the performance of these methods, a support vector machine algorithm was used. The experimental results demonstrated that the Sym4 wavelet had a higher classification accuracy (93.44%) than the Db4 wavelet with respect to osteosarcoma occurrence in the epiphysis, whereas the Db4 wavelet had a higher classification accuracy (96.25%) for osteosarcoma occurrence in the diaphysis. Results including accuracy, sensitivity, specificity and ROC curves obtained using the wavelets were all higher than those obtained using the features derived from the GLCM method. It is concluded that, a set of texture features can be extracted from the wavelets and used in computer-aided osteosarcoma diagnosis systems. In addition, this study also confirms that multi-resolution analysis is a useful tool for texture feature extraction during bone CR image processing.

Discriminative Multi-View Interactive Image Re-Ranking.

PubMed

Li, Jun; Xu, Chang; Yang, Wankou; Sun, Changyin; Tao, Dacheng

2017-07-01

Given an unreliable visual patterns and insufficient query information, content-based image retrieval is often suboptimal and requires image re-ranking using auxiliary information. In this paper, we propose a discriminative multi-view interactive image re-ranking (DMINTIR), which integrates user relevance feedback capturing users' intentions and multiple features that sufficiently describe the images. In DMINTIR, heterogeneous property features are incorporated in the multi-view learning scheme to exploit their complementarities. In addition, a discriminatively learned weight vector is obtained to reassign updated scores and target images for re-ranking. Compared with other multi-view learning techniques, our scheme not only generates a compact representation in the latent space from the redundant multi-view features but also maximally preserves the discriminative information in feature encoding by the large-margin principle. Furthermore, the generalization error bound of the proposed algorithm is theoretically analyzed and shown to be improved by the interactions between the latent space and discriminant function learning. Experimental results on two benchmark data sets demonstrate that our approach boosts baseline retrieval quality and is competitive with the other state-of-the-art re-ranking strategies.

Histopathological and Digital Morphometrical Evaluation of Uterine Leiomyoma in Brazilian Women

PubMed Central

da Silva, Ana Paula Fernandes; Mello, Luciano de Albuquerque; dos Santos, Erlene Roberta Ribeiro; Paz, Silvania Tavares; Cavalcanti, Carmelita Lima Bezerra; de Melo-Junior, Mario Ribeiro

2016-01-01

The current study aims to evaluate histopathological and digital morphometrical aspects associated with uterine leiomyomas in one hundred and fifty (150) patients diagnosed with leiomyoma. Uterine tissues were subjected to the histopathological and digital morphometric analyses of the interstitial collagen distribution. The analysis of medical records indicates that most of the women diagnosed with uterine leiomyomas (68.7%) are between 37 and 48 years old. As for the anatomic location of the tumors, approximately 61.4% of the patients had intramural and subserosal lesions. In 50% of the studied cases, the patients developed uterine leiomyomatosis (with more than eight tumors). As for the morphometric study, the average size of the interstitial collagen distribution held approximately 28.53% of the capture area, whereas it was of 7.43% in the normal tissue adjacent to the tumor. Another important aspect observed in the current study was the high rate of young women subjected to total hysterectomy, a fact that resulted in early and definitive sterility. PMID:27293441

A new lizard species of the Phymaturus patagonicus group (Squamata: Liolaemini) from northern Patagonia, Neuquén, Argentina.

PubMed

Marín, Andrea González; Pérez, Cristian Hernán Fulvio; Minoli, Ignacio; Morando, Mariana; Avila, Luciano Javier

2016-06-10

The integrative taxonomy framework allows developing robust hypotheses of species limits based on the integration of results from different data sets and analytical methods. In this work, we test a candidate species hypothesis previously suggested based on molecular data, with geometric and traditional morphometrics analyses (multivariate and univariate). This new lizard species is part of the Phymaturus patagonicus group (payuniae clade) that is distributed in Neuquén and Mendoza provinces (Argentina). Our results showed that Phymaturus rahuensis sp. nov. differs from the other species of the payuniae clade by a higher number of midbody scales, and fewer supralabials scales, finger lamellae and toe lamellae. Also, its multidimensional spaces, both based on continuous lineal variables and geometric morphometrics (shape) characters, do not overlap with those of the other species in this clade. The results of the morphometric and geometric morphometric analyses presented here, coupled with previously published molecular data, represent three independent lines of evidence that support the diagnosis of this new taxon.

Morphometric abnormalities of the lateral ventricles in methamphetamine-dependent subjects☆

PubMed Central

Jeong, Hyeonseok S.; Lee, Sunho; Yoon, Sujung; Jung, Jiyoung J.; Cho, Han Byul; Kim, Binna N.; Ma, Jiyoung; Ko, Eun; Im, Jooyeon Jamie; Ban, Soonhyun; Renshaw, Perry F.; Lyoo, In Kyoon

2017-01-01

Background The presence of morphometric abnormalities of the lateral ventricles, which can reflect focal or diffuse atrophic changes of nearby brain structures, is not well characterized in methamphetamine dependence. The current study was aimed to examine the size and shape alterations of the lateral ventricles in methamphetamine-dependent subjects. Methods High-resolution brain structural images were obtained from 37 methamphetamine-dependent subjects and 25 demographically matched healthy individuals. Using a combined volumetric and surface-based morphometric approach, the structural variability of the lateral ventricles, with respect to extent and location, was examined. Results Methamphetamine-dependent subjects had an enlarged right lateral ventricle compared with healthy individuals. Morphometric analysis revealed a region-specific pattern of lateral ventricular expansion associated with methamphetamine dependence, which was mainly distributed in the areas adjacent to the ventral striatum, medial prefrontal cortex, and thalamus. Conclusions Patterns of shape decomposition in the lateral ventricles may have relevance to the structural vulnerability of the prefrontal-ventral striatal-thalamic circuit to methamphetamine-induced neurotoxicity. PMID:23769159

The use of maxillary sinus dimensions in gender determination: a thin-slice multidetector computed tomography assisted morphometric study.

PubMed

Ekizoglu, Oguzhan; Inci, Ercan; Hocaoglu, Elif; Sayin, Ibrahim; Kayhan, Fatma Tulin; Can, Ismail Ozgur

2014-05-01

Gender determination is an important step in identification. For gender determination, anthropometric evaluation is one of the main forensic evaluations. In the present study, morphometric analysis of maxillary sinuses was performed to determine gender. For morphometric analysis, coronal and axial paranasal sinus computed tomography (CT) scan with 1-mm slice thickness was used. For this study, 140 subjects (70 women and 70 men) were enrolled (age ranged between 18 and 63). The size of each subject's maxillary sinuses was measured in anteroposterior, transverse, cephalocaudal, and volume directions. In each measurement, the size of the maxillary sinus is significantly small in female gender (P < 0.001). When discrimination analysis was performed, the accuracy rate was detected as 80% for women and 74.3% for men with an overall rate of 77.15%. With the use of 1-mm slice thickness CT, morphometric analysis of maxillary sinuses will be helpful for gender determination.

Cluster Analysis of Longidorus Species (Nematoda: Longidoridae), a New Approach in Species Identification

PubMed Central

Ye, Weimin; Robbins, R. T.

2004-01-01

Hierarchical cluster analysis based on female morphometric character means including body length, distance from vulva opening to anterior end, head width, odontostyle length, esophagus length, body width, tail length, and tail width were used to examine the morphometric relationships and create dendrograms for (i) 62 populations belonging to 9 Longidorus species from Arkansas, (ii) 137 published Longidorus species, and (iii) 137 published Longidorus species plus 86 populations of 16 Longidorus species from Arkansas and various other locations by using JMP 4.02 software (SAS Institute, Cary, NC). Cluster analysis dendograms visually illustrated the grouping and morphometric relationships of the species and populations. It provided a computerized statistical approach to assist by helping to identify and distinguish species, by indicating morphometric relationships among species, and by assisting with new species diagnosis. The preliminary species identification can be accomplished by running cluster analysis for unknown species together with the data matrix of known published Longidorus species. PMID:19262809

A sea-land segmentation algorithm based on multi-feature fusion for a large-field remote sensing image

NASA Astrophysics Data System (ADS)

Li, Jing; Xie, Weixin; Pei, Jihong

2018-03-01

Sea-land segmentation is one of the key technologies of sea target detection in remote sensing images. At present, the existing algorithms have the problems of low accuracy, low universality and poor automatic performance. This paper puts forward a sea-land segmentation algorithm based on multi-feature fusion for a large-field remote sensing image removing island. Firstly, the coastline data is extracted and all of land area is labeled by using the geographic information in large-field remote sensing image. Secondly, three features (local entropy, local texture and local gradient mean) is extracted in the sea-land border area, and the three features combine a 3D feature vector. And then the MultiGaussian model is adopted to describe 3D feature vectors of sea background in the edge of the coastline. Based on this multi-gaussian sea background model, the sea pixels and land pixels near coastline are classified more precise. Finally, the coarse segmentation result and the fine segmentation result are fused to obtain the accurate sea-land segmentation. Comparing and analyzing the experimental results by subjective vision, it shows that the proposed method has high segmentation accuracy, wide applicability and strong anti-disturbance ability.

Morphometric Analysis of the Occipital Condyle and Its Surgical Importance

PubMed Central

Das, Sushant Swaroop; Vasudeva, Neelam

2016-01-01

Introduction The Occipital Condyle (OC) is an integral component of craniovertebral region which is predisposed to a wide array of traumatic, degenerative and neoplastic diseases. Frequent surgical interventions of OC are required for successful management of these conditions. Hence a meticulous anatomical knowledge of the OC is vital but variability in morphometric dimensions exist amongst different races and hinder the standardization of measurements. Aim The aim of this study was to present a morphometric reference database for OC of the Indian population and enable comparisons with other populations. Materials and Methods The study was performed on 228 OC of 114 adult human skulls. Linear measurements of the OC were taken with the help of digital Vernier’s Calliper and angular measurements were determined with software Image J. Statistical Analysis Mean and standard deviation of the morphometric parameters taken into account were analysed. The comparison of morphometric dimensions of the right and left sides was carried out using Student’s t-test and p-value was calculated. Results The morphometric analysis of the OC established that mean width was larger (12.97 mm) in Indians population when compared to other races. The anterior and posterior intercondylar distances as well as the distances between the tips of OC and opisthion and basion were observed to be shorter in Indians. We found a significant difference (p=0.01) among the distance between Posterior tip of Occipital Condyle (POC) and basion of the right and left sides. The sagittal condylar angle and sagittal intercondylar angle were found to be greater in our study when compared to other researchers. There existed a highly significant difference (p=0.001) between the sagittal condylar angles of the right and left sides. Conclusion The present morphometric study would be valuable for the successful instrumentation of the OC as wider and ventrally oriented OC as well as smaller intercondylar distances may pose challenge to the surgeons during condylectomy. The data of present study offer anatomical reference to the surgeons and would be helpful in designing implants for the OC. PMID:28050351

Biomechanical aspects of initial intraosseous stability and implant design: a quantitative micro-morphometric analysis.

PubMed

Akça, Kivanç; Chang, Ting-Ling; Tekdemir, Ibrahim; Fanuscu, Mete I

2006-08-01

The objective of this biomechanical study was to explore the effect of bone micro-morphology on initial intraosseous stability of implants with different designs. Straumann and Astra Tech dental implants were placed into anterior and posterior regions of completely edentulous maxilla and mandible of a human cadaver. Experiments were undertaken to quantify initial implant stability and bone micro-morphology. Installation torque values (ITVs) and implant stability quotients (ISQs) were measured to determine initial intraosseous implant stability. For quantification of relative bone volume and micro-architecture, sectioned implant-bone and bone core specimens of each implant placement site were consecutively scanned and trabecular bone was analyzed in a micro-computed tomography (micro-CT) unit. Experimental outcomes were evaluated for correlations among implant designs, initial intraosseous implant stability and bone micro-structural parameters. ITVs correlated higher with bone volume fraction (BV/TV) than ISQs, at 88.1% and 68.9% levels, respectively. Correlations between ITVs and micro-morphometric parameters were significant at the 95% confidence level (P<0.05) while ISQs were not. Differences in ITVs, ISQs and BV/TV data in regards to implant designs used were not significant at the 95% confidence level (P>0.05). Bone micro-morphology has a prevailing effect over implant design on intraosseus initial implant stability, and ITV is more sensitive in terms of revealing biomechanical properties at the bone-implant interface in comparison with ISQ.

A wireless modular multi-modal multi-node patch platform for robust biosignal monitoring.

PubMed

Pantelopoulos, Alexandros; Saldivar, Enrique; Roham, Masoud

2011-01-01

In this paper a wireless modular, multi-modal, multi-node patch platform is described. The platform comprises low-cost semi-disposable patch design aiming at unobtrusive ambulatory monitoring of multiple physiological parameters. Owing to its modular design it can be interfaced with various low-power RF communication and data storage technologies, while the data fusion of multi-modal and multi-node features facilitates measurement of several biosignals from multiple on-body locations for robust feature extraction. Preliminary results of the patch platform are presented which illustrate the capability to extract respiration rate from three different independent metrics, which combined together can give a more robust estimate of the actual respiratory rate.

The evaluation of multi-structure, multi-atlas pelvic anatomy features in a prostate MR lymphography CAD system

NASA Astrophysics Data System (ADS)

Meijs, M.; Debats, O.; Huisman, H.

2015-03-01

In prostate cancer, the detection of metastatic lymph nodes indicates progression from localized disease to metastasized cancer. The detection of positive lymph nodes is, however, a complex and time consuming task for experienced radiologists. Assistance of a two-stage Computer-Aided Detection (CAD) system in MR Lymphography (MRL) is not yet feasible due to the large number of false positives in the first stage of the system. By introducing a multi-structure, multi-atlas segmentation, using an affine transformation followed by a B-spline transformation for registration, the organ location is given by a mean density probability map. The atlas segmentation is semi-automatically drawn with ITK-SNAP, using Active Contour Segmentation. Each anatomic structure is identified by a label number. Registration is performed using Elastix, using Mutual Information and an Adaptive Stochastic Gradient optimization. The dataset consists of the MRL scans of ten patients, with lymph nodes manually annotated in consensus by two expert readers. The feature map of the CAD system consists of the Multi-Atlas and various other features (e.g. Normalized Intensity and multi-scale Blobness). The voxel-based Gentleboost classifier is evaluated using ROC analysis with cross validation. We show in a set of 10 studies that adding multi-structure, multi-atlas anatomical structure likelihood features improves the quality of the lymph node voxel likelihood map. Multiple structure anatomy maps may thus make MRL CAD more feasible.

Human impacts affect tree community features of 20 forest fragments of a vanishing neotropical hotspot.

PubMed

Pereira, José Aldo Alves; de Oliveira-Filho, Ary Teixeira; Eisenlohr, Pedro V; Miranda, Pedro L S; de Lemos Filho, José Pires

2015-02-01

The loss in forest area due to human occupancy is not the only threat to the remaining biodiversity: forest fragments are susceptible to additional human impact. Our aim was to investigate the effect of human impact on tree community features (species composition and abundance, and structural descriptors) and check if there was a decrease in the number of slender trees, an increase in the amount of large trees, and also a reduction in the number of tree species that occur in 20 fragments of Atlantic montane semideciduous forest in southeastern Brazil. We produced digital maps of each forest fragment using Landsat 7 satellite images and processed the maps to obtain morphometric variables. We used investigative questionnaires and field observations to survey the history of human impact. We then converted the information into scores given to the extent, severity, and duration of each impact, including proportional border area, fire, trails, coppicing, logging, and cattle, and converted these scores into categorical levels. We used linear models to assess the effect of impacts on tree species abundance distribution and stand structural descriptors. Part of the variation in floristic patterns was significantly correlated to the impacts of fire, logging, and proportional border area. Structural descriptors were influenced by cattle and outer roads. Our results provided, for the first time, strong evidence that tree species occurrence and abundance, and forest structure of Atlantic seasonal forest fragments respond differently to various modes of disturbance by humans.

Morphological and morphometric analysis of scutella of six species and two subspecies of Triatoma (Hemiptera: Reduviidae) in Mexico.

PubMed

Rivas, Nancy; Sánchez-Cordero, Víctor; Camacho, Alejandro D; Córdoba-Aguilar, Alejandro; Alejandre-Aguilar, Ricardo

2017-12-01

Morphological characters can be used to distinguish the vast majority of triatomine species, but the existence of high levels of phenotypic plasticity and recently diverged species can lead to erroneous determinations. To approach this problem, we analyzed the male and female morphologies of the scutella of Triatoma barberi, T. dimidiata, T. lecticularia, T. mexicana, T. recurva, T. rubida, and two sub-species, T. protracta protracta and T. protracta nahuatlae. Scutellum samples were observed by scanning electron microscopy and subjected to morphological analysis and morphometric investigation using a canonical discriminant analysis. The results revealed differences primarily in central depression shape, posterior process, and vestiture. We observed clear dimension-based differences in scutellum morphometry in all the taxa under study, providing sound evidence for species and subspecies differentiation. On the other hand, there is no difference between sexes in T. lecticularia, T. protracta protracta, and T. protracta nahuatlae. Our methodology can be implemented to differentiate species of the genus Triatoma. © 2017 The Society for Vector Ecology.