Cloud-Induced Uncertainty for Visual Navigation

DTIC Science & Technology

2014-12-26

images at the pixel level. The result is a method that can overlay clouds with various structures on top of any desired image to produce realistic...cloud-shaped structures . The primary contribution of this research, however, is to investigate and quantify the errors in features due to clouds. The...of clouds types, this method does not emulate the true structure of clouds. An alternative popular modern method of creating synthetic clouds is known

WalkThrough Example Procedures for MAMA

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

Ruggiero, Christy E.; Gaschen, Brian Keith; Bloch, Jeffrey Joseph

This documentation is a growing set of walk through examples of analyses using the MAMA V2.0 software. It does not cover all the features or possibilities with the MAMA software, but will address using many of the basic analysis tools to quantify particle size and shape in an image. This document will continue to evolve as additional procedures and examples are added. The starting assumption is that the MAMA software has been successfully installed.

Computer-aided diagnosis of liver tumors on computed tomography images.

PubMed

Chang, Chin-Chen; Chen, Hong-Hao; Chang, Yeun-Chung; Yang, Ming-Yang; Lo, Chung-Ming; Ko, Wei-Chun; Lee, Yee-Fan; Liu, Kao-Lang; Chang, Ruey-Feng

2017-07-01

Liver cancer is the tenth most common cancer in the USA, and its incidence has been increasing for several decades. Early detection, diagnosis, and treatment of the disease are very important. Computed tomography (CT) is one of the most common and robust imaging techniques for the detection of liver cancer. CT scanners can provide multiple-phase sequential scans of the whole liver. In this study, we proposed a computer-aided diagnosis (CAD) system to diagnose liver cancer using the features of tumors obtained from multiphase CT images. A total of 71 histologically-proven liver tumors including 49 benign and 22 malignant lesions were evaluated with the proposed CAD system to evaluate its performance. Tumors were identified by the user and then segmented using a region growing algorithm. After tumor segmentation, three kinds of features were obtained for each tumor, including texture, shape, and kinetic curve. The texture was quantified using 3 dimensional (3-D) texture data of the tumor based on the grey level co-occurrence matrix (GLCM). Compactness, margin, and an elliptic model were used to describe the 3-D shape of the tumor. The kinetic curve was established from each phase of tumor and represented as variations in density between each phase. Backward elimination was used to select the best combination of features, and binary logistic regression analysis was used to classify the tumors with leave-one-out cross validation. The accuracy and sensitivity for the texture were 71.82% and 68.18%, respectively, which were better than for the shape and kinetic curve under closed specificity. Combining all of the features achieved the highest accuracy (58/71, 81.69%), sensitivity (18/22, 81.82%), and specificity (40/49, 81.63%). The Az value of combining all features was 0.8713. Combining texture, shape, and kinetic curve features may be able to differentiate benign from malignant tumors in the liver using our proposed CAD system. Copyright © 2017 Elsevier B.V. All rights reserved.

Accuracy in breast shape alignment with 3D surface fitting algorithms.

PubMed

Riboldi, Marco; Gierga, David P; Chen, George T Y; Baroni, Guido

2009-04-01

Surface imaging is in use in radiotherapy clinical practice for patient setup optimization and monitoring. Breast alignment is accomplished by searching for a tentative spatial correspondence between the reference and daily surface shape models. In this study, the authors quantify whole breast shape alignment by relying on texture features digitized on 3D surface models. Texture feature localization was validated through repeated measurements in a silicone breast phantom, mounted on a high precision mechanical stage. Clinical investigations on breast shape alignment included 133 fractions in 18 patients treated with accelerated partial breast irradiation. The breast shape was detected with a 3D video based surface imaging system so that breathing was compensated. An in-house algorithm for breast alignment, based on surface fitting constrained by nipple matching (constrained surface fitting), was applied. Results were compared with a commercial software where no constraints are utilized (unconstrained surface fitting). Texture feature localization was validated within 2 mm in each anatomical direction. Clinical data show that unconstrained surface fitting achieves adequate accuracy in most cases, though nipple mismatch is considerably higher than residual surface distances (3.9 mm vs 0.6 mm on average). Outliers beyond 1 cm can be experienced as the result of a degenerate surface fit, where unconstrained surface fitting is not sufficient to establish spatial correspondence. In the constrained surface fitting algorithm, average surface mismatch within 1 mm was obtained when nipple position was forced to match in the [1.5; 5] mm range. In conclusion, optimal results can be obtained by trading off the desired overall surface congruence vs matching of selected landmarks (constraint). Constrained surface fitting is put forward to represent an improvement in setup accuracy for those applications where whole breast positional reproducibility is an issue.

A Statistical Skull Geometry Model for Children 0-3 Years Old

PubMed Central

Li, Zhigang; Park, Byoung-Keon; Liu, Weiguo; Zhang, Jinhuan; Reed, Matthew P.; Rupp, Jonathan D.; Hoff, Carrie N.; Hu, Jingwen

2015-01-01

Head injury is the leading cause of fatality and long-term disability for children. Pediatric heads change rapidly in both size and shape during growth, especially for children under 3 years old (YO). To accurately assess the head injury risks for children, it is necessary to understand the geometry of the pediatric head and how morphologic features influence injury causation within the 0–3 YO population. In this study, head CT scans from fifty-six 0–3 YO children were used to develop a statistical model of pediatric skull geometry. Geometric features important for injury prediction, including skull size and shape, skull thickness and suture width, along with their variations among the sample population, were quantified through a series of image and statistical analyses. The size and shape of the pediatric skull change significantly with age and head circumference. The skull thickness and suture width vary with age, head circumference and location, which will have important effects on skull stiffness and injury prediction. The statistical geometry model developed in this study can provide a geometrical basis for future development of child anthropomorphic test devices and pediatric head finite element models. PMID:25992998

A statistical skull geometry model for children 0-3 years old.

PubMed

Li, Zhigang; Park, Byoung-Keon; Liu, Weiguo; Zhang, Jinhuan; Reed, Matthew P; Rupp, Jonathan D; Hoff, Carrie N; Hu, Jingwen

2015-01-01

Head injury is the leading cause of fatality and long-term disability for children. Pediatric heads change rapidly in both size and shape during growth, especially for children under 3 years old (YO). To accurately assess the head injury risks for children, it is necessary to understand the geometry of the pediatric head and how morphologic features influence injury causation within the 0-3 YO population. In this study, head CT scans from fifty-six 0-3 YO children were used to develop a statistical model of pediatric skull geometry. Geometric features important for injury prediction, including skull size and shape, skull thickness and suture width, along with their variations among the sample population, were quantified through a series of image and statistical analyses. The size and shape of the pediatric skull change significantly with age and head circumference. The skull thickness and suture width vary with age, head circumference and location, which will have important effects on skull stiffness and injury prediction. The statistical geometry model developed in this study can provide a geometrical basis for future development of child anthropomorphic test devices and pediatric head finite element models.

Population Distribution Analyses Reveal a Hierarchy of Molecular Players Underlying Parallel Endocytic Pathways

PubMed Central

Gupta, Gagan D.; Howes, Mark T.; Chandran, Ruma; Das, Anupam; Menon, Sindhu; Parton, Robert G.; Sowdhamini, R.; Thattai, Mukund; Mayor, Satyajit

2014-01-01

Single-cell-resolved measurements reveal heterogeneous distributions of clathrin-dependent (CD) and -independent (CLIC/GEEC: CG) endocytic activity in Drosophila cell populations. dsRNA-mediated knockdown of core versus peripheral endocytic machinery induces strong changes in the mean, or subtle changes in the shapes of these distributions, respectively. By quantifying these subtle shape changes for 27 single-cell features which report on endocytic activity and cell morphology, we organize 1072 Drosophila genes into a tree-like hierarchy. We find that tree nodes contain gene sets enriched in functional classes and protein complexes, providing a portrait of core and peripheral control of CD and CG endocytosis. For 470 genes we obtain additional features from separate assays and classify them into early- or late-acting genes of the endocytic pathways. Detailed analyses of specific genes at intermediate levels of the tree suggest that Vacuolar ATPase and lysosomal genes involved in vacuolar biogenesis play an evolutionarily conserved role in CG endocytosis. PMID:24971745

Automatic analysis and quantification of fluorescently labeled synapses in microscope images

NASA Astrophysics Data System (ADS)

Yona, Shai; Katsman, Alex; Orenbuch, Ayelet; Gitler, Daniel; Yitzhaky, Yitzhak

2011-09-01

The purpose of this work is to classify and quantify synapses and their properties in the cultures of a mouse's hippocampus, from images acquired by a fluorescent microscope. Quantification features include the number of synapses, their intensity and their size characteristics. The images obtained by the microscope contain hundreds to several thousands of synapses with various elliptic-like shape features and intensities. These images also include other features such as glia cells and other biological objects beyond the focus plane; those features reduce the visibility of the synapses and interrupt the segmentation process. The proposed method comprises several steps, including background subtraction, identification of suspected centers of synapses as local maxima of small neighborhoods, evaluation of the tendency of objects to be synapses according to intensity properties at their larger neighborhoods, classification of detected synapses into categories as bulks or single synapses and finally, delimiting the borders of each synapse.

Self-Affinity and Lacunarity of Chromatin Texture in Benign and Malignant Breast Epithelial Cell Nuclei

NASA Astrophysics Data System (ADS)

Einstein, Andrew J.; Wu, Hai-Shan; Gil, Joan

1998-01-01

Methods are presented for characterizing the self-affinity and lacunarity of arbitrarily shaped images. Chromatin appearance in breast epithelial cell nuclei is shown to be statistically self-affine. Spectral and Minkowski dimensions are lesser in nuclei of malignant cases than in nuclei of benign cases, and lacunarity further quantifies morphologic differences such as chromatin clumping and nucleoli. Fractal texture features are used as the basis for an accurate cytologic diagnosis of breast cancer.

Statistical shape modelling to aid surgical planning: associations between surgical parameters and head shapes following spring-assisted cranioplasty.

PubMed

Rodriguez-Florez, Naiara; Bruse, Jan L; Borghi, Alessandro; Vercruysse, Herman; Ong, Juling; James, Greg; Pennec, Xavier; Dunaway, David J; Jeelani, N U Owase; Schievano, Silvia

2017-10-01

Spring-assisted cranioplasty is performed to correct the long and narrow head shape of children with sagittal synostosis. Such corrective surgery involves osteotomies and the placement of spring-like distractors, which gradually expand to widen the skull until removal about 4 months later. Due to its dynamic nature, associations between surgical parameters and post-operative 3D head shape features are difficult to comprehend. The current study aimed at applying population-based statistical shape modelling to gain insight into how the choice of surgical parameters such as craniotomy size and spring positioning affects post-surgical head shape. Twenty consecutive patients with sagittal synostosis who underwent spring-assisted cranioplasty at Great Ormond Street Hospital for Children (London, UK) were prospectively recruited. Using a nonparametric statistical modelling technique based on mathematical currents, a 3D head shape template was computed from surface head scans of sagittal patients after spring removal. Partial least squares (PLS) regression was employed to quantify and visualise trends of localised head shape changes associated with the surgical parameters recorded during spring insertion: anterior-posterior and lateral craniotomy dimensions, anterior spring position and distance between anterior and posterior springs. Bivariate correlations between surgical parameters and corresponding PLS shape vectors demonstrated that anterior-posterior (Pearson's [Formula: see text]) and lateral craniotomy dimensions (Spearman's [Formula: see text]), as well as the position of the anterior spring ([Formula: see text]) and the distance between both springs ([Formula: see text]) on average had significant effects on head shapes at the time of spring removal. Such effects were visualised on 3D models. Population-based analysis of 3D post-operative medical images via computational statistical modelling tools allowed for detection of novel associations between surgical parameters and head shape features achieved following spring-assisted cranioplasty. The techniques described here could be extended to other cranio-maxillofacial procedures in order to assess post-operative outcomes and ultimately facilitate surgical decision making.

An evaluation of Seasat-A data in relation to optimum track ship weather routing and site specific forecasting for the offshore oil industry

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

Daley, C.; Johnson, R.G.; Thomson, J.C.

1981-07-01

The usefulness of Seasat-A SASS and altimeter measurements is reviewed. Five oceanic areas were selected: the Gulf of Alaska, central and western north Atlantic, eastern north Pacific, southern Indian Ocean, and the North Sea. Both Seasat-aided and conventional analyses were used in offshore hindcast and optimum ship routing situations. Where conventional observations are relatively dense, Seasat wind and wave data have greater impact in determining the shape of major map features than in positioning the features. In data sparse areas, Seasat data permit greater definition of surface features as well as their precise location. The use of Seasat data inmore » optimum ship routing is quantified by means of comparative studies in the Gulf of Alaska.« less

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.

Feature precedence in processing multifeature visual information in the human brain: an event-related potential study.

PubMed

Liu, B; Meng, X; Wu, G; Huang, Y

2012-05-17

In this article, we aimed to study whether feature precedence existed in the cognitive processing of multifeature visual information in the human brain. In our experiment, we paid attention to two important visual features as follows: color and shape. In order to avoid the presence of semantic constraints between them and the resulting impact, pure color and simple geometric shape were chosen as the color feature and shape feature of visual stimulus, respectively. We adopted an "old/new" paradigm to study the cognitive processing of color feature, shape feature and the combination of color feature and shape feature, respectively. The experiment consisted of three tasks as follows: Color task, Shape task and Color-Shape task. The results showed that the feature-based pattern would be activated in the human brain in processing multifeature visual information without semantic association between features. Furthermore, shape feature was processed earlier than color feature, and the cognitive processing of color feature was more difficult than that of shape feature. Copyright © 2012 IBRO. Published by Elsevier Ltd. All rights reserved.

BEYOND ELLIPSE(S): ACCURATELY MODELING THE ISOPHOTAL STRUCTURE OF GALAXIES WITH ISOFIT AND CMODEL

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

Ciambur, B. C., E-mail: bciambur@swin.edu.au

2015-09-10

This work introduces a new fitting formalism for isophotes that enables more accurate modeling of galaxies with non-elliptical shapes, such as disk galaxies viewed edge-on or galaxies with X-shaped/peanut bulges. Within this scheme, the angular parameter that defines quasi-elliptical isophotes is transformed from the commonly used, but inappropriate, polar coordinate to the “eccentric anomaly.” This provides a superior description of deviations from ellipticity, better capturing the true isophotal shape. Furthermore, this makes it possible to accurately recover both the surface brightness profile, using the correct azimuthally averaged isophote, and the two-dimensional model of any galaxy: the hitherto ubiquitous, but artificial,more » cross-like features in residual images are completely removed. The formalism has been implemented into the Image Reduction and Analysis Facility tasks Ellipse and Bmodel to create the new tasks “Isofit,” and “Cmodel.” The new tools are demonstrated here with application to five galaxies, chosen to be representative case-studies for several areas where this technique makes it possible to gain new scientific insight. Specifically: properly quantifying boxy/disky isophotes via the fourth harmonic order in edge-on galaxies, quantifying X-shaped/peanut bulges, higher-order Fourier moments for modeling bars in disks, and complex isophote shapes. Higher order (n > 4) harmonics now become meaningful and may correlate with structural properties, as boxyness/diskyness is known to do. This work also illustrates how the accurate construction, and subtraction, of a model from a galaxy image facilitates the identification and recovery of over-lapping sources such as globular clusters and the optical counterparts of X-ray sources.« less

Quantitative assessment of human body shape using Fourier analysis

NASA Astrophysics Data System (ADS)

Friess, Martin; Rohlf, F. J.; Hsiao, Hongwei

2004-04-01

Fall protection harnesses are commonly used to reduce the number and severity of injuries. Increasing the efficiency of harness design requires the size and shape variation of the user population to be assessed as detailed and as accurately as possible. In light of the unsatisfactory performance of traditional anthropometry with respect to such assessments, we propose the use of 3D laser surface scans of whole bodies and the statistical analysis of elliptic Fourier coefficients. Ninety-eight male and female adults were scanned. Key features of each torso were extracted as a 3D curve along front, back and the thighs. A 3D extension of Elliptic Fourier analysis4 was used to quantify their shape through multivariate statistics. Shape change as a function of size (allometry) was predicted by regressing the coefficients onto stature, weight and hip circumference. Upper and lower limits of torso shape variation were determined and can be used to redefine the design of the harness that will fit most individual body shapes. Observed allometric changes are used for adjustments to the harness shape in each size. Finally, the estimated outline data were used as templates for a free-form deformation of the complete torso surface using NURBS models (non-uniform rational B-splines).

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.

Filler features and their effects on wear and degree of conversion of particulate dental resin composites.

PubMed

Turssi, C P; Ferracane, J L; Vogel, K

2005-08-01

Based on the incomplete understanding on how filler features influence the wear resistance and monomer conversion of resin composites, this study sought to evaluate whether materials containing different shapes and combinations of size of filler particles would perform similarly in terms of three-body abrasion and degree of conversion. Twelve experimental monomodal, bimodal or trimodal composites containing either spherical or irregular shaped fillers ranging from 100 to 1500 nm were examined. Wear testings were conducted in the OHSU wear machine (n = 6) and quantified after 10(5) cycles using a profilometer. Degree of conversion (DC) was measured by FTIR spectrometry at the surface of the composites (n = 6). Data sets were analyzed using one-way Anova and Tukey's test at a significance level of 0.05. Filler size and geometry was found to have a significant effect on wear resistance and DC of composites. At specific sizes and combinations, the presence of small filler particles, either spherical or irregular, may aid in enhancing the wear resistance of composites, without compromising the percentage of reacted carbon double bonds.

Quantifying Melt Ponds in the Beaufort MIZ using Linear Support Vector Machines from High Resolution Panchromatic Images

NASA Astrophysics Data System (ADS)

Ortiz, M.; Graber, H. C.; Wilkinson, J.; Nyman, L. M.; Lund, B.

2017-12-01

Much work has been done on determining changes in summer ice albedo and morphological properties of melt ponds such as depth, shape and distribution using in-situ measurements and satellite-based sensors. Although these studies have dedicated much pioneering work in this area, there still lacks sufficient spatial and temporal scales. We present a prototype algorithm using Linear Support Vector Machines (LSVMs) designed to quantify the evolution of melt pond fraction from a recently government-declassified high-resolution panchromatic optical dataset. The study area of interest lies within the Beaufort marginal ice zone (MIZ), where several in-situ instruments were deployed by the British Antarctic Survey in joint with the MIZ Program, from April-September, 2014. The LSVM uses four dimensional feature data from the intensity image itself, and from various textures calculated from a modified first-order histogram technique using probability density of occurrences. We explore both the temporal evolution of melt ponds and spatial statistics such as pond fraction, pond area, and number pond density, to name a few. We also introduce a linear regression model that can potentially be used to estimate average pond area by ingesting several melt pond statistics and shape parameters.

Stability, surface features, and atom leaching of palladium nanoparticles: toward prediction of catalytic functionality.

PubMed

Ramezani-Dakhel, Hadi; Mirau, Peter A; Naik, Rajesh R; Knecht, Marc R; Heinz, Hendrik

2013-04-21

Surfactant-stabilized metal nanoparticles have shown promise as catalysts although specific surface features and their influence on catalytic performance have not been well understood. We quantify the thermodynamic stability, the facet composition of the surface, and distinct atom types that affect rates of atom leaching for a series of twenty near-spherical Pd nanoparticles of 1.8 to 3.1 nm size using computational models. Cohesive energies indicate higher stability of certain particles that feature an approximate 60/20/20 ratio of {111}, {100}, and {110} facets while less stable particles exhibit widely variable facet composition. Unique patterns of atom types on the surface cause apparent differences in binding energies and changes in reactivity. Estimates of the relative rate of atom leaching as a function of particle size were obtained by the summation of Boltzmann-weighted binding energies over all surface atoms. Computed leaching rates are in good qualitative correlation with the measured catalytic activity of peptide-stabilized Pd nanoparticles of the same shape and size in Stille coupling reactions. The agreement supports rate-controlling contributions by atom leaching in the presence of reactive substrates. The computational approach provides a pathway to estimate the catalytic activity of metal nanostructures of engineered shape and size, and possible further refinements are described.

Early identification of radiographic osteoarthritis of the hip using an active shape model to quantify changes in bone morphometric features: can hip shape tell us anything about the progression of osteoarthritis?

PubMed

Gregory, Jennifer S; Waarsing, Jan H; Day, Judd; Pols, Huibert A; Reijman, Max; Weinans, Harrie; Aspden, Richard M

2007-11-01

Few methods exist to measure the progression of osteoarthritis (OA) or to identify people at high risk of developing OA. Striking radiographic changes include deformation of the femoral head and osteophyte growth, which are usually measured semiquantitatively following visual assessment. In this study, an active shape model (ASM) of the proximal femur was used to determine whether morphologic changes to the bone could be quantified and used as a marker of hip OA. One hundred ten subjects who had no signs of radiographic hip OA at baseline (Kellgren/Lawrence [K/L] scores 0-1) were selected from the Rotterdam Study cohort of subjects ages > or = 55 years. To measure the progression of OA, subjects were followed up with radiographic assessment after 6 years. At the 6-year followup, 55 subjects had established OA (K/L score 3), and in 12 of these OA subjects, the progression of the disease required a total hip replacement (THR). Age- and sex-matched control subjects had a K/L score of 0 at followup. Using the ASM, subjects were assessed for shape changes in the femoral head and neck before, during, and after the development of radiographic OA. Scores of shape variance, or mode scores, were assigned for 10 modes of variation in each subject, and differences in mode scores were determined. During followup, significant changes in shape of the proximal femur occurred within the OA group from baseline to followup (P < 0.0001 for mode 1 and P = 0.002 for mode 6) but not within the control group. At baseline (all subjects having K/L scores 0-1), there were significant differences in mode 6 between the OA group and the control group (P = 0.020), and in modes 3 and 6 between the OA subjects who underwent THR and the remaining OA subjects (P = 0.012 and P = 0.019, respectively). Compared with traditional scoring methods, the ASM can be used more precisely to quantify the deforming effect of OA on the proximal femur and to identify, at an earlier stage of disease, those subjects at highest risk of developing radiographic OA or needing a THR. The ASM may therefore be useful as an imaging biomarker in the assessment of patients with hip OA.

Whole-organ cell shape analysis reveals the developmental basis of ascidian notochord taper.

PubMed

Veeman, Michael T; Smith, William C

2013-01-15

Here we use in toto imaging together with computational segmentation and analysis methods to quantify the shape of every cell at multiple stages in the development of a simple organ: the notochord of the ascidian Ciona savignyi. We find that cell shape in the intercalated notochord depends strongly on anterior-posterior (AP) position, with cells in the middle of the notochord consistently wider than cells at the anterior or posterior. This morphological feature of having a tapered notochord is present in many chordates. We find that ascidian notochord taper involves three main mechanisms: Planar Cell Polarity (PCP) pathway-independent sibling cell volume asymmetries that precede notochord cell intercalation; the developmental timing of intercalation, which proceeds from the anterior and posterior towards the middle; and the differential rates of notochord cell narrowing after intercalation. A quantitative model shows how the morphology of an entire developing organ can be controlled by this small set of cellular mechanisms. Copyright © 2012 Elsevier Inc. All rights reserved.

Whole-organ cell shape analysis reveals the developmental basis of ascidian notochord taper

PubMed Central

Veeman, Michael T.; Smith, William C.

2012-01-01

Here we use in toto imaging together with computational segmentation and analysis methods to quantify the shape of every cell at multiple stages in the development of a simple organ: the notochord of the ascidian Ciona savignyi. We find that cell shape in the intercalated notochord depends strongly on anterior-posterior (AP) position, with cells in the middle of the notochord consistently wider than cells at the anterior or posterior. This morphological feature of having a tapered notochord is present in many chordates. We find that ascidian notochord taper involves three main mechanisms: Planar Cell Polarity (PCP) pathway-independent sibling cell volume asymmetries that precede notochord cell intercalation; the developmental timing of intercalation, which proceeds from the anterior and posterior towards the middle; and the differential rates of notochord cell narrowing after intercalation. A quantitative model shows how the morphology of an entire developing organ can be controlled by this small set of cellular mechanisms. PMID:23165294

High-resolution 3D analyses of the shape and internal constituents of small volcanic ash particles: The contribution of SEM micro-computed tomography (SEM micro-CT)

NASA Astrophysics Data System (ADS)

Vonlanthen, Pierre; Rausch, Juanita; Ketcham, Richard A.; Putlitz, Benita; Baumgartner, Lukas P.; Grobéty, Bernard

2015-02-01

The morphology of small volcanic ash particles is fundamental to our understanding of magma fragmentation, and in transport modeling of volcanic plumes and clouds. Until recently, the analysis of 3D features in small objects (< 250 μm) was either restricted to extrapolations from 2D approaches, partial stereo-imaging, or CT methods having limited spatial resolution and/or accessibility. In this study, an X-ray computed-tomography technique known as SEM micro-CT, also called 3D X-ray ultramicroscopy (3D XuM), was used to investigate the 3D morphology of small volcanic ash particles (125-250 μm sieve fraction), as well as their vesicle and microcrystal distribution. The samples were selected from four stratigraphically well-established tephra layers of the Meerfelder Maar (West Eifel Volcanic Field, Germany). Resolution tests performed on a Beametr v1 pattern sample along with Monte Carlo simulations of X-ray emission volumes indicated that a spatial resolution of 0.65 μm was obtained for X-ray shadow projections using a standard thermionic SEM and a bulk brass target as X-ray source. Analysis of a smaller volcanic ash particle (64-125 μm sieve fraction) showed that features with volumes > 20 μm3 (~ 3.5 μm in diameter) can be successfully reconstructed and quantified. In addition, new functionalities of the Blob3D software were developed to allow the particle shape factors frequently used as input parameters in ash transport and dispersion models to be calculated. This study indicates that SEM micro-CT is very well suited to quantify the various aspects of shape in fine volcanic ash, and potentially also to investigate the 3D morphology and internal structure of any object < 0.1 mm3.

Shapes, scents and sounds: quantifying the full multi-sensory basis of conceptual knowledge.

PubMed

Hoffman, Paul; Lambon Ralph, Matthew A

2013-01-01

Contemporary neuroscience theories assume that concepts are formed through experience in multiple sensory-motor modalities. Quantifying the contribution of each modality to different object categories is critical to understanding the structure of the conceptual system and to explaining category-specific knowledge deficits. Verbal feature listing is typically used to elicit this information but has a number of drawbacks: sensory knowledge often cannot easily be translated into verbal features and many features are experienced in multiple modalities. Here, we employed a more direct approach in which subjects rated their knowledge of objects in each sensory-motor modality separately. Compared with these ratings, feature listing over-estimated the importance of visual form and functional knowledge and under-estimated the contributions of other sensory channels. An item's sensory rating proved to be a better predictor of lexical-semantic processing speed than the number of features it possessed, suggesting that ratings better capture the overall quantity of sensory information associated with a concept. Finally, the richer, multi-modal rating data not only replicated the sensory-functional distinction between animals and non-living things but also revealed novel distinctions between different types of artefact. Hierarchical cluster analyses indicated that mechanical devices (e.g., vehicles) were distinct from other non-living objects because they had strong sound and motion characteristics, making them more similar to animals in this respect. Taken together, the ratings align with neuroscience evidence in suggesting that a number of distinct sensory processing channels make important contributions to object knowledge. Multi-modal ratings for 160 objects are provided as supplementary materials. Copyright © 2012 Elsevier Ltd. All rights reserved.

Hierarchical Adaptive Regression Kernels for Regression with Functional Predictors.

PubMed

Woodard, Dawn B; Crainiceanu, Ciprian; Ruppert, David

2013-01-01

We propose a new method for regression using a parsimonious and scientifically interpretable representation of functional predictors. Our approach is designed for data that exhibit features such as spikes, dips, and plateaus whose frequency, location, size, and shape varies stochastically across subjects. We propose Bayesian inference of the joint functional and exposure models, and give a method for efficient computation. We contrast our approach with existing state-of-the-art methods for regression with functional predictors, and show that our method is more effective and efficient for data that include features occurring at varying locations. We apply our methodology to a large and complex dataset from the Sleep Heart Health Study, to quantify the association between sleep characteristics and health outcomes. Software and technical appendices are provided in online supplemental materials.

A Normative-Speaker Validation Study of Two Indices Developed to Quantify Tongue Dorsum Activity from Midsagittal Tongue Shapes

ERIC Educational Resources Information Center

Zharkova, Natalia

2013-01-01

This study reported adult scores on two measures of tongue shape, based on midsagittal tongue shape data from ultrasound imaging. One of the measures quantified the extent of tongue dorsum excursion, and the other measure represented the place of maximal excursion. Data from six adult speakers of Scottish Standard English without speech disorders…

Operator for object recognition and scene analysis by estimation of set occupancy with noisy and incomplete data sets

NASA Astrophysics Data System (ADS)

Rees, S. J.; Jones, Bryan F.

1992-11-01

Once feature extraction has occurred in a processed image, the recognition problem becomes one of defining a set of features which maps sufficiently well onto one of the defined shape/object models to permit a claimed recognition. This process is usually handled by aggregating features until a large enough weighting is obtained to claim membership, or an adequate number of located features are matched to the reference set. A requirement has existed for an operator or measure capable of a more direct assessment of membership/occupancy between feature sets, particularly where the feature sets may be defective representations. Such feature set errors may be caused by noise, by overlapping of objects, and by partial obscuration of features. These problems occur at the point of acquisition: repairing the data would then assume a priori knowledge of the solution. The technique described in this paper offers a set theoretical measure for partial occupancy defined in terms of the set of minimum additions to permit full occupancy and the set of locations of occupancy if such additions are made. As is shown, this technique permits recognition of partial feature sets with quantifiable degrees of uncertainty. A solution to the problems of obscuration and overlapping is therefore available.

When things go pear shaped: contour variations of contacts

NASA Astrophysics Data System (ADS)

Utzny, Clemens

2013-04-01

Traditional control of critical dimensions (CD) on photolithographic masks considers the CD average and a measure for the CD variation such as the CD range or the standard deviation. Also systematic CD deviations from the mean such as CD signatures are subject to the control. These measures are valid for mask quality verification as long as patterns across a mask exhibit only size variations and no shape variation. The issue of shape variations becomes especially important in the context of contact holes on EUV masks. For EUV masks the CD error budget is much smaller than for standard optical masks. This means that small deviations from the contact shape can impact EUV waver prints in the sense that contact shape deformations induce asymmetric bridging phenomena. In this paper we present a detailed study of contact shape variations based on regular product data. Two data sets are analyzed: 1) contacts of varying target size and 2) a regularly spaced field of contacts. Here, the methods of statistical shape analysis are used to analyze CD SEM generated contour data. We demonstrate that contacts on photolithographic masks do not only show size variations but exhibit also pronounced nontrivial shape variations. In our data sets we find pronounced shape variations which can be interpreted as asymmetrical shape squeezing and contact rounding. Thus we demonstrate the limitations of classic CD measures for describing the feature variations on masks. Furthermore we show how the methods of statistical shape analysis can be used for quantifying the contour variations thus paving the way to a new understanding of mask linearity and its specification.

Atlas-Based Ventricular Shape Analysis for Understanding Congenital Heart Disease.

PubMed

Farrar, Genevieve; Suinesiaputra, Avan; Gilbert, Kathleen; Perry, James C; Hegde, Sanjeet; Marsden, Alison; Young, Alistair A; Omens, Jeffrey H; McCulloch, Andrew D

2016-12-01

Congenital heart disease is associated with abnormal ventricular shape that can affect wall mechanics and may be predictive of long-term adverse outcomes. Atlas-based parametric shape analysis was used to analyze ventricular geometries of eight adolescent or adult single-ventricle CHD patients with tricuspid atresia and Fontans. These patients were compared with an "atlas" of non-congenital asymptomatic volunteers, resulting in a set of z-scores which quantify deviations from the control population distribution on a patient-by-patient basis. We examined the potential of these scores to: (1) quantify abnormalities of ventricular geometry in single ventricle physiologies relative to the normal population; (2) comprehensively quantify wall motion in CHD patients; and (3) identify possible relationships between ventricular shape and wall motion that may reflect underlying functional defects or remodeling in CHD patients. CHD ventricular geometries at end-diastole and end-systole were individually compared with statistical shape properties of an asymptomatic population from the Cardiac Atlas Project. Shape analysis-derived model properties, and myocardial wall motions between end-diastole and end-systole, were compared with physician observations of clinical functional parameters. Relationships between altered shape and altered function were evaluated via correlations between atlas-based shape and wall motion scores. Atlas-based shape analysis identified a diverse set of specific quantifiable abnormalities in ventricular geometry or myocardial wall motion in all subjects. Moreover, this initial cohort displayed significant relationships between specific shape abnormalities such as increased ventricular sphericity and functional defects in myocardial deformation, such as decreased long-axis wall motion. These findings suggest that atlas-based ventricular shape analysis may be a useful new tool in the management of patients with CHD who are at risk of impaired ventricular wall mechanics and chamber remodeling.

Chinese wine classification system based on micrograph using combination of shape and structure features

NASA Astrophysics Data System (ADS)

Wan, Yi

2011-06-01

Chinese wines can be classification or graded by the micrographs. Micrographs of Chinese wines show floccules, stick and granule of variant shape and size. Different wines have variant microstructure and micrographs, we study the classification of Chinese wines based on the micrographs. Shape and structure of wines' particles in microstructure is the most important feature for recognition and classification of wines. So we introduce a feature extraction method which can describe the structure and region shape of micrograph efficiently. First, the micrographs are enhanced using total variation denoising, and segmented using a modified Otsu's method based on the Rayleigh Distribution. Then features are extracted using proposed method in the paper based on area, perimeter and traditional shape feature. Eight kinds total 26 features are selected. Finally, Chinese wine classification system based on micrograph using combination of shape and structure features and BP neural network have been presented. We compare the recognition results for different choices of features (traditional shape features or proposed features). The experimental results show that the better classification rate have been achieved using the combinational features proposed in this paper.

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

Improved pulmonary nodule classification utilizing quantitative lung parenchyma features.

PubMed

Dilger, Samantha K N; Uthoff, Johanna; Judisch, Alexandra; Hammond, Emily; Mott, Sarah L; Smith, Brian J; Newell, John D; Hoffman, Eric A; Sieren, Jessica C

2015-10-01

Current computer-aided diagnosis (CAD) models for determining pulmonary nodule malignancy characterize nodule shape, density, and border in computed tomography (CT) data. Analyzing the lung parenchyma surrounding the nodule has been minimally explored. We hypothesize that improved nodule classification is achievable by including features quantified from the surrounding lung tissue. To explore this hypothesis, we have developed expanded quantitative CT feature extraction techniques, including volumetric Laws texture energy measures for the parenchyma and nodule, border descriptors using ray-casting and rubber-band straightening, histogram features characterizing densities, and global lung measurements. Using stepwise forward selection and leave-one-case-out cross-validation, a neural network was used for classification. When applied to 50 nodules (22 malignant and 28 benign) from high-resolution CT scans, 52 features (8 nodule, 39 parenchymal, and 5 global) were statistically significant. Nodule-only features yielded an area under the ROC curve of 0.918 (including nodule size) and 0.872 (excluding nodule size). Performance was improved through inclusion of parenchymal (0.938) and global features (0.932). These results show a trend toward increased performance when the parenchyma is included, coupled with the large number of significant parenchymal features that support our hypothesis: the pulmonary parenchyma is influenced differentially by malignant versus benign nodules, assisting CAD-based nodule characterizations.

Improvements in Mixing Time and Mixing Uniformity in Devices Designed for Studies of Protein Folding Kinetics

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

Yao, Shuhuai; Bakajin, Olgica

2007-08-01

Using a microfluidic laminar flow mixer designed for studies of protein folding kinetics, we demonstrate a mixing time of 1 +/- 1 micros with sample consumption on the order of femtomoles. We recognize two limitations of previously proposed designs: (1) size and shape of the mixing region, which limits mixing uniformity and (2) the formation of Dean vortices at high flow rates, which limits the mixing time. We address these limitations by using a narrow shape-optimized nozzle and by reducing the bend of the side channel streamlines. The final design, which combines both of these features, achieves the best performance.more » We quantified the mixing performance of the different designs by numerical simulation of coupled Navier-Stokes and convection-diffusion equations and experiments using fluorescence resonance energy-transfer (FRET)-labeled DNA.« less

Decoding tumour phenotype by noninvasive imaging using a quantitative radiomics approach

PubMed Central

Aerts, Hugo J. W. L.; Velazquez, Emmanuel Rios; Leijenaar, Ralph T. H.; Parmar, Chintan; Grossmann, Patrick; Cavalho, Sara; Bussink, Johan; Monshouwer, René; Haibe-Kains, Benjamin; Rietveld, Derek; Hoebers, Frank; Rietbergen, Michelle M.; Leemans, C. René; Dekker, Andre; Quackenbush, John; Gillies, Robert J.; Lambin, Philippe

2014-01-01

Human cancers exhibit strong phenotypic differences that can be visualized noninvasively by medical imaging. Radiomics refers to the comprehensive quantification of tumour phenotypes by applying a large number of quantitative image features. Here we present a radiomic analysis of 440 features quantifying tumour image intensity, shape and texture, which are extracted from computed tomography data of 1,019 patients with lung or head-and-neck cancer. We find that a large number of radiomic features have prognostic power in independent data sets of lung and head-and-neck cancer patients, many of which were not identified as significant before. Radiogenomics analysis reveals that a prognostic radiomic signature, capturing intratumour heterogeneity, is associated with underlying gene-expression patterns. These data suggest that radiomics identifies a general prognostic phenotype existing in both lung and head-and-neck cancer. This may have a clinical impact as imaging is routinely used in clinical practice, providing an unprecedented opportunity to improve decision-support in cancer treatment at low cost. PMID:24892406

Joint Prediction of Longitudinal Development of Cortical Surfaces and White Matter Fibers from Neonatal MRI

PubMed Central

Rekik, Islem; Li, Gang; Yap, Pew-Thian; Chen, Geng; Lin, Weili; Shen, Dinggang

2017-01-01

The human brain can be modeled as multiple interrelated shapes (or a multishape), each for characterizing one aspect of the brain, such as the cortex and white matter pathways. Predicting the developing multishape is a very challenging task due to the contrasting nature of the developmental trajectories of the constituent shapes: smooth for the cortical surface and non-smooth for white matter tracts due to changes such as bifurcation. We recently addressed this problem and proposed an approach for predicting the multishape developmental spatiotemporal trajectories of infant brains based only on neonatal MRI data using a set of geometric, dynamic, and fiber-to-surface connectivity features. In this paper, we propose two key innovations to further improve the prediction of multishape evolution. First, for a more accurate cortical surface prediction, instead of simply relying on one neonatal atlas to guide the prediction of the multishape, we propose to use multiple neonatal atlases to build a spatially heterogeneous atlas using the multidirectional varifold representation. This individualizes the atlas by locally maximizing its similarity to the testing baseline cortical shape for each cortical region, thereby better representing the baseline testing cortical surface, which founds the multishape prediction process. Second, for temporally consistent fiber prediction, we propose to reliably estimate spatiotemporal connectivity features using low-rank tensor completion, thereby capturing the variability and richness of the temporal development of fibers. Experimental results confirm that the proposed variants significantly improve the prediction performance of our original multishape prediction framework for both cortical surfaces and fiber tracts shape at 3, 6, and 9 months of age. Our pioneering model will pave the way for learning how to predict the evolution of anatomical shapes with abnormal changes. Ultimately, devising accurate shape evolution prediction models that can help quantify and predict the severity of a brain disorder as it progresses will be of great aid in individualized treatment planning. PMID:28284800

Joint prediction of longitudinal development of cortical surfaces and white matter fibers from neonatal MRI.

PubMed

Rekik, Islem; Li, Gang; Yap, Pew-Thian; Chen, Geng; Lin, Weili; Shen, Dinggang

2017-05-15

The human brain can be modeled as multiple interrelated shapes (or a multishape), each for characterizing one aspect of the brain, such as the cortex and white matter pathways. Predicting the developing multishape is a very challenging task due to the contrasting nature of the developmental trajectories of the constituent shapes: smooth for the cortical surface and non-smooth for white matter tracts due to changes such as bifurcation. We recently addressed this problem and proposed an approach for predicting the multishape developmental spatiotemporal trajectories of infant brains based only on neonatal MRI data using a set of geometric, dynamic, and fiber-to-surface connectivity features. In this paper, we propose two key innovations to further improve the prediction of multishape evolution. First, for a more accurate cortical surface prediction, instead of simply relying on one neonatal atlas to guide the prediction of the multishape, we propose to use multiple neonatal atlases to build a spatially heterogeneous atlas using the multidirectional varifold representation. This individualizes the atlas by locally maximizing its similarity to the testing baseline cortical shape for each cortical region, thereby better representing the baseline testing cortical surface, which founds the multishape prediction process. Second, for temporally consistent fiber prediction, we propose to reliably estimate spatiotemporal connectivity features using low-rank tensor completion, thereby capturing the variability and richness of the temporal development of fibers. Experimental results confirm that the proposed variants significantly improve the prediction performance of our original multishape prediction framework for both cortical surfaces and fiber tracts shape at 3, 6, and 9 months of age. Our pioneering model will pave the way for learning how to predict the evolution of anatomical shapes with abnormal changes. Ultimately, devising accurate shape evolution prediction models that can help quantify and predict the severity of a brain disorder as it progresses will be of great aid in individualized treatment planning. Copyright © 2017 Elsevier Inc. All rights reserved.

An Effective 3D Shape Descriptor for Object Recognition with RGB-D Sensors

PubMed Central

Liu, Zhong; Zhao, Changchen; Wu, Xingming; Chen, Weihai

2017-01-01

RGB-D sensors have been widely used in various areas of computer vision and graphics. A good descriptor will effectively improve the performance of operation. This article further analyzes the recognition performance of shape features extracted from multi-modality source data using RGB-D sensors. A hybrid shape descriptor is proposed as a representation of objects for recognition. We first extracted five 2D shape features from contour-based images and five 3D shape features over point cloud data to capture the global and local shape characteristics of an object. The recognition performance was tested for category recognition and instance recognition. Experimental results show that the proposed shape descriptor outperforms several common global-to-global shape descriptors and is comparable to some partial-to-global shape descriptors that achieved the best accuracies in category and instance recognition. Contribution of partial features and computational complexity were also analyzed. The results indicate that the proposed shape features are strong cues for object recognition and can be combined with other features to boost accuracy. PMID:28245553

Diversity of dermal denticle structure in sharks: Skin surface roughness and three-dimensional morphology.

PubMed

Ankhelyi, Madeleine V; Wainwright, Dylan K; Lauder, George V

2018-05-29

Shark skin is covered with numerous placoid scales or dermal denticles. While previous research has used scanning electron microscopy and histology to demonstrate that denticles vary both around the body of a shark and among species, no previous study has quantified three-dimensional (3D) denticle structure and surface roughness to provide a quantitative analysis of skin surface texture. We quantified differences in denticle shape and size on the skin of three individual smooth dogfish sharks (Mustelus canis) using micro-CT scanning, gel-based surface profilometry, and histology. On each smooth dogfish, we imaged between 8 and 20 distinct areas on the body and fins, and obtained further comparative skin surface data from leopard, Atlantic sharpnose, shortfin mako, spiny dogfish, gulper, angel, and white sharks. We generated 3D images of individual denticles and measured denticle volume, surface area, and crown angle from the micro-CT scans. Surface profilometry was used to quantify metrology variables such as roughness, skew, kurtosis, and the height and spacing of surface features. These measurements confirmed that denticles on different body areas of smooth dogfish varied widely in size, shape, and spacing. Denticles near the snout are smooth, paver-like, and large relative to denticles on the body. Body denticles on smooth dogfish generally have between one and three distinct ridges, a diamond-like surface shape, and a dorsoventral gradient in spacing and roughness. Ridges were spaced on average 56 µm apart, and had a mean height of 6.5 µm, comparable to denticles from shortfin mako sharks, and with narrower spacing and lower heights than other species measured. We observed considerable variation in denticle structure among regions on the pectoral, dorsal, and caudal fins, including a leading-to-trailing edge gradient in roughness for each region. Surface roughness in smooth dogfish varied around the body from 3 to 42 microns. © 2018 Wiley Periodicals, Inc.

Morphological and wavelet features towards sonographic thyroid nodules evaluation.

PubMed

Tsantis, Stavros; Dimitropoulos, Nikos; Cavouras, Dionisis; Nikiforidis, George

2009-03-01

This paper presents a computer-based classification scheme that utilized various morphological and novel wavelet-based features towards malignancy risk evaluation of thyroid nodules in ultrasonography. The study comprised 85 ultrasound images-patients that were cytological confirmed (54 low-risk and 31 high-risk). A set of 20 features (12 based on nodules boundary shape and 8 based on wavelet local maxima located within each nodule) has been generated. Two powerful pattern recognition algorithms (support vector machines and probabilistic neural networks) have been designed and developed in order to quantify the power of differentiation of the introduced features. A comparative study has also been held, in order to estimate the impact speckle had onto the classification procedure. The diagnostic sensitivity and specificity of both classifiers was made by means of receiver operating characteristics (ROC) analysis. In the speckle-free feature set, the area under the ROC curve was 0.96 for the support vector machines classifier whereas for the probabilistic neural networks was 0.91. In the feature set with speckle, the corresponding areas under the ROC curves were 0.88 and 0.86 respectively for the two classifiers. The proposed features can increase the classification accuracy and decrease the rate of missing and misdiagnosis in thyroid cancer control.

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.

Principal component analysis of three-dimensional face shape: Identifying shape features that change with age.

PubMed

Kurosumi, M; Mizukoshi, K

2018-05-01

The types of shape feature that constitutes a face have not been comprehensively established, and most previous studies of age-related changes in facial shape have focused on individual characteristics, such as wrinkle, sagging skin, etc. In this study, we quantitatively measured differences in face shape between individuals and investigated how shape features changed with age. We analyzed three-dimensionally the faces of 280 Japanese women aged 20-69 years and used principal component analysis to establish the shape features that characterized individual differences. We also evaluated the relationships between each feature and age, clarifying the shape features characteristic of different age groups. Changes in facial shape in middle age were a decreased volume of the upper face and increased volume of the whole cheeks and around the chin. Changes in older people were an increased volume of the lower cheeks and around the chin, sagging skin, and jaw distortion. Principal component analysis was effective for identifying facial shape features that represent individual and age-related differences. This method allowed straightforward measurements, such as the increase or decrease in cheeks caused by soft tissue changes or skeletal-based changes to the forehead or jaw, simply by acquiring three-dimensional facial images. © 2017 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.

Mutual information-based feature selection for radiomics

NASA Astrophysics Data System (ADS)

Oubel, Estanislao; Beaumont, Hubert; Iannessi, Antoine

2016-03-01

Background The extraction and analysis of image features (radiomics) is a promising field in the precision medicine era, with applications to prognosis, prediction, and response to treatment quantification. In this work, we present a mutual information - based method for quantifying reproducibility of features, a necessary step for qualification before their inclusion in big data systems. Materials and Methods Ten patients with Non-Small Cell Lung Cancer (NSCLC) lesions were followed over time (7 time points in average) with Computed Tomography (CT). Five observers segmented lesions by using a semi-automatic method and 27 features describing shape and intensity distribution were extracted. Inter-observer reproducibility was assessed by computing the multi-information (MI) of feature changes over time, and the variability of global extrema. Results The highest MI values were obtained for volume-based features (VBF). The lesion mass (M), surface to volume ratio (SVR) and volume (V) presented statistically significant higher values of MI than the rest of features. Within the same VBF group, SVR showed also the lowest variability of extrema. The correlation coefficient (CC) of feature values was unable to make a difference between features. Conclusions MI allowed to discriminate three features (M, SVR, and V) from the rest in a statistically significant manner. This result is consistent with the order obtained when sorting features by increasing values of extrema variability. MI is a promising alternative for selecting features to be considered as surrogate biomarkers in a precision medicine context.

Use of the alpha shape to quantify finite helical axis dispersion during simulated spine movements.

PubMed

McLachlin, Stewart D; Bailey, Christopher S; Dunning, Cynthia E

2016-01-04

In biomechanical studies examining joint kinematics the most common measurement is range of motion (ROM), yet other techniques, such as the finite helical axis (FHA), may elucidate the changes in the 3D motion pathology more effectively. One of the deficiencies with the FHA technique is in quantifying the axes generated throughout a motion sequence. This study attempted to solve this issue via a computational geometric technique known as the alpha shape, which bounds a set of point data within a closed boundary similar to a convex hull. The purpose of this study was to use the alpha shape as an additional tool to visualize and quantify FHA dispersion between intact and injured cadaveric spine movements and compare these changes to the gold-standard ROM measurements. Flexion-extension, axial rotation, and lateral bending were simulated with five C5-C6 motion segments using a spinal loading simulator and Optotrak motion tracking system. Specimens were first tested intact followed by a simulated injury model. ROM and the FHAs were calculated post-hoc, with alpha shapes and convex hulls generated from the anatomic planar intercept points of the FHAs. While both ROM and the boundary shape areas increased with injury (p<0.05), no consistent geometric trends in the alpha shape growth were identified. The alpha shape area was sensitive to the alpha value chosen and values examined below 2.5 created more than one closed boundary. Ultimately, the alpha shape presents as a useful technique to quantify sequences of joint kinematics described by scatter plots such as FHA intercept data. Copyright © 2015. Published by Elsevier Ltd.

Quantifying floral shape variation in 3D using microcomputed tomography: a case study of a hybrid line between actinomorphic and zygomorphic flowers.

PubMed

Wang, Chun-Neng; Hsu, Hao-Chun; Wang, Cheng-Chun; Lee, Tzu-Kuei; Kuo, Yan-Fu

2015-01-01

The quantification of floral shape variations is difficult because flower structures are both diverse and complex. Traditionally, floral shape variations are quantified using the qualitative and linear measurements of two-dimensional (2D) images. The 2D images cannot adequately describe flower structures, and thus lead to unsatisfactory discrimination of the flower shape. This study aimed to acquire three-dimensional (3D) images by using microcomputed tomography (μCT) and to examine the floral shape variations by using geometric morphometrics (GM). To demonstrate the advantages of the 3D-μCT-GM approach, we applied the approach to a second-generation population of florist's gloxinia (Sinningia speciosa) crossed from parents of zygomorphic and actinomorphic flowers. The flowers in the population considerably vary in size and shape, thereby served as good materials to test the applicability of the proposed phenotyping approach. Procedures were developed to acquire 3D volumetric flower images using a μCT scanner, to segment the flower regions from the background, and to select homologous characteristic points (i.e., landmarks) from the flower images for the subsequent GM analysis. The procedures identified 95 landmarks for each flower and thus improved the capability of describing and illustrating the flower shapes, compared with typically lower number of landmarks in 2D analyses. The GM analysis demonstrated that flower opening and dorsoventral symmetry were the principal shape variations of the flowers. The degrees of flower opening and corolla asymmetry were then subsequently quantified directly from the 3D flower images. The 3D-μCT-GM approach revealed shape variations that could not be identified using typical 2D approaches and accurately quantified the flower traits that presented a challenge in 2D images. The approach opens new avenues to investigate floral shape variations.

Comprehensive machine learning analysis of Hydra behavior reveals a stable basal behavioral repertoire

PubMed Central

Taralova, Ekaterina; Dupre, Christophe; Yuste, Rafael

2018-01-01

Animal behavior has been studied for centuries, but few efficient methods are available to automatically identify and classify it. Quantitative behavioral studies have been hindered by the subjective and imprecise nature of human observation, and the slow speed of annotating behavioral data. Here, we developed an automatic behavior analysis pipeline for the cnidarian Hydra vulgaris using machine learning. We imaged freely behaving Hydra, extracted motion and shape features from the videos, and constructed a dictionary of visual features to classify pre-defined behaviors. We also identified unannotated behaviors with unsupervised methods. Using this analysis pipeline, we quantified 6 basic behaviors and found surprisingly similar behavior statistics across animals within the same species, regardless of experimental conditions. Our analysis indicates that the fundamental behavioral repertoire of Hydra is stable. This robustness could reflect a homeostatic neural control of "housekeeping" behaviors which could have been already present in the earliest nervous systems. PMID:29589829

Comparing the role of shape and texture on staging hepatic fibrosis from medical imaging

NASA Astrophysics Data System (ADS)

Zhang, Xuejun; Louie, Ryan; Liu, Brent J.; Gao, Xin; Tan, Xiaomin; Qu, Xianghe; Long, Liling

2016-03-01

The purpose of this study is to investigate the role of shape and texture in the classification of hepatic fibrosis by selecting the optimal parameters for a better Computer-aided diagnosis (CAD) system. 10 surface shape features are extracted from a standardized profile of liver; while15 texture features calculated from gray level co-occurrence matrix (GLCM) are extracted within an ROI in liver. Each combination of these input subsets is checked by using support vector machine (SVM) with leave-one-case-out method to differentiate fibrosis into two groups: normal or abnormal. The accurate rate value of all 10/15 types number of features is 66.83% by texture, while 85.74% by shape features, respectively. The irregularity of liver shape can demonstrate fibrotic grade efficiently and texture feature of CT image is not recommended to use with shape feature for interpretation of cirrhosis.

Evaluating stability of histomorphometric features across scanner and staining variations: predicting biochemical recurrence from prostate cancer whole slide images

NASA Astrophysics Data System (ADS)

Leo, Patrick; Lee, George; Madabhushi, Anant

2016-03-01

Quantitative histomorphometry (QH) is the process of computerized extraction of features from digitized tissue slide images. Typically these features are used in machine learning classifiers to predict disease presence, behavior and outcome. Successful robust classifiers require features that both discriminate between classes of interest and are stable across data from multiple sites. Feature stability may be compromised by variation in slide staining and scanning procedures. These laboratory specific variables include dye batch, slice thickness and the whole slide scanner used to digitize the slide. The key therefore is to be able to identify features that are not only discriminating between the classes of interest (e.g. cancer and non-cancer or biochemical recurrence and non- recurrence) but also features that will not wildly fluctuate on slides representing the same tissue class but from across multiple different labs and sites. While there has been some recent efforts at understanding feature stability in the context of radiomics applications (i.e. feature analysis of radiographic images), relatively few attempts have been made at studying the trade-off between feature stability and discriminability for histomorphometric and digital pathology applications. In this paper we present two new measures, preparation-induced instability score (PI) and latent instability score (LI), to quantify feature instability across and within datasets. Dividing PI by LI yields a ratio for how often a feature for a specific tissue class (e.g. low grade prostate cancer) is different between datasets from different sites versus what would be expected from random chance alone. Using this ratio we seek to quantify feature vulnerability to variations in slide preparation and digitization. Since our goal is to identify stable QH features we evaluate these features for their stability and thus inclusion in machine learning based classifiers in a use case involving prostate cancer. Specifically we examine QH features which may predict 5 year biochemical recurrence for prostate cancer patients who have undergone radical prostatectomy from digital slide images of surgically excised tissue specimens, 5 year biochemical recurrence being a strong predictor of disease recurrence. In this study we evaluated the ability of our feature robustness indices to identify the most stable and predictive features of 5 year biochemical recurrence using digitized slide images of surgically excised prostate cancer specimens from 80 different patients across 4 different sites. A total of 242 features from 5 different feature families were investigated to identify the most stable QH features from our set. Our feature robustness indices (PI and LI) suggested that five feature families (graph, shape, co-occurring gland tensors, gland sub-graphs, texture) were susceptible to variations in slide preparation and digitization across various sites. The family least affected was shape features in which 19.3% of features varied across laboratories while the most vulnerable family, at 55.6%, was the gland disorder features. However the disorder features were the most stable within datasets being different between random halves of a dataset in an average of just 4.1% of comparisons while texture features were the most unstable being different at a rate of 4.7%. We also compared feature stability across two datasets before and after color normalization. Color normalization decreased feature stability with 8% and 34% of features different between the two datasets in two outcome groups prior to normalization and 49% and 51% different afterwards. Our results appear to suggest that evaluation of QH features across multiple sites needs to be undertaken to assess robustness and class discriminability alone should not represent the benchmark for selection of QH features to build diagnostic and prognostic digital pathology classifiers.

Beyond the sniffer: frontal sinuses in Carnivora.

PubMed

Curtis, Abigail A; Van Valkenburgh, Blaire

2014-11-01

Paranasal sinuses are some of the most poorly understood features of mammalian cranial anatomy. They are highly variable in presence and form among species, but their function is not well understood. The best-supported explanations for the function of sinuses is that they opportunistically fill mechanically unnecessary space, but that in some cases, sinuses in combination with the configuration of the frontal bone may improve skull performance by increasing skull strength and dissipating stresses more evenly. We used CT technology to investigate patterns in frontal sinus size and shape disparity among three families of carnivores: Canidae, Felidae, and Hyaenidae. We provide some of the first quantitative data on sinus morphology for these three families, and employ a novel method to quantify the relationship between three-dimensional sinus shape and skull shape. As expected, frontal sinus size and shape were more strongly correlated with frontal bone size and shape than with the morphology of the skull as a whole. However, sinus morphology was also related to allometric differences among families that are linked to biomechanical function. Our results support the hypothesis that frontal sinuses most often opportunistically fill space that is mechanically unnecessary, and they can facilitate cranial shape changes that reduce stress during feeding. Moreover, we suggest that the ability to form frontal sinuses allows species to modify skull function without compromising the performance of more functionally constrained regions such as the nasal chamber (heat/water conservation, olfaction), and braincase (housing the brain and sensory structures). © 2014 Wiley Periodicals, Inc.

Synoptic evaluation of scale-dependent metrics for hydrographic line feature geometry

USGS Publications Warehouse

Stanislawski, Larry V.; Buttenfield, Barbara P.; Raposo, Paulo; Cameron, Madeline; Falgout, Jeff T.

2015-01-01

Methods of acquisition and feature simplification for vector feature data impact cartographic representations and scientific investigations of these data, and are therefore important considerations for geographic information science (Haunert and Sester 2008). After initial collection, linear features may be simplified to reduce excessive detail or to furnish a reduced-scale version of the features through cartographic generalization (Regnauld and McMaster 2008, Stanislawski et al. 2014). A variety of algorithms exist to simplify linear cartographic features, and all of the methods affect the positional accuracy of the features (Shahriari and Tao 2002, Regnauld and McMaster 2008, Stanislawski et al. 2012). In general, simplification operations are controlled by one or more tolerance parameters that limit the amount of positional change the operation can make to features. Using a single tolerance value can have varying levels of positional change on features; depending on local shape, texture, or geometric characteristics of the original features (McMaster and Shea 1992, Shahriari and Tao 2002, Buttenfield et al. 2010). Consequently, numerous researchers have advocated calibration of simplification parameters to control quantifiable properties of resulting changes to the features (Li and Openshaw 1990, Raposo 2013, Tobler 1988, Veregin 2000, and Buttenfield, 1986, 1989).This research identifies relations between local topographic conditions and geometric characteristics of linear features that are available in the National Hydrography Dataset (NHD). The NHD is a comprehensive vector dataset of surface 18 th ICA Workshop on Generalisation and Multiple Representation, Rio de Janiero, Brazil 2015 2 water features within the United States that is maintained by the U.S. Geological Survey (USGS). In this paper, geometric characteristics of cartographic representations for natural stream and river features are summarized for subbasin watersheds within entire regions of the conterminous United States and compared to topographic metrics. A concurrent processing workflow is implemented using a Linux high-performance computing cluster to simultaneously process multiple subbasins, and thereby complete the work in a fraction of the time required for a single-process environment. In addition, similar metrics are generated for several levels of simplification of the hydrographic features to quantify the effects of simplification over the various landscape conditions. Objectives of this exploratory investigation are to quantify geometric characteristics of linear hydrographic features over the various terrain conditions within the conterminous United States and thereby illuminate relations between stream geomorphological conditions and cartographic representation. The synoptic view of these characteristics over regional watersheds that is afforded through concurrent processing, in conjunction with terrain conditions, may reveal patterns for classifying cartographic stream features into stream geomorphological classes. Furthermore, the synoptic measurement of the amount of change in geometric characteristics caused by the several levels of simplification can enable estimation of tolerance values that appropriately control simplification-induced geometric change of the cartographic features within the various geomorphological classes in the country. Hence, these empirically derived rules or relations could help generate multiscale-representations of features through automated generalization that adequately maintain surface drainage variations and patterns reflective of the natural stream geomorphological conditions across the country.

Full-physics 3D heterogeneous simulations of electromagnetic induction fields on level and deformed sea ice

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

Samluk, Jesse P.; Geiger, Cathleen A.; Weiss, Chester J.

In this article we explore simulated responses of electromagnetic (EM) signals relative to in situ field surveys and quantify the effects that different values of conductivity in sea ice have on the EM fields. We compute EM responses of ice types with a three-dimensional (3-D) finite-volume discretization of Maxwell's equations and present 2-D sliced visualizations of their associated EM fields at discrete frequencies. Several interesting observations result: First, since the simulator computes the fields everywhere, each gridcell acts as a receiver within the model volume, and captures the complete, coupled interactions between air, snow, sea ice and sea water asmore » a function of their conductivity; second, visualizations demonstrate how 1-D approximations near deformed ice features are violated. But the most important new finding is that changes in conductivity affect EM field response by modifying the magnitude and spatial patterns (i.e. footprint size and shape) of current density and magnetic fields. These effects are demonstrated through a visual feature we define as 'null lines'. Null line shape is affected by changes in conductivity near material boundaries as well as transmitter location. Our results encourage the use of null lines as a planning tool for better ground-truth field measurements near deformed ice types.« less

Full-physics 3D heterogeneous simulations of electromagnetic induction fields on level and deformed sea ice

DOE PAGES

Samluk, Jesse P.; Geiger, Cathleen A.; Weiss, Chester J.; ...

2015-10-01

In this article we explore simulated responses of electromagnetic (EM) signals relative to in situ field surveys and quantify the effects that different values of conductivity in sea ice have on the EM fields. We compute EM responses of ice types with a three-dimensional (3-D) finite-volume discretization of Maxwell's equations and present 2-D sliced visualizations of their associated EM fields at discrete frequencies. Several interesting observations result: First, since the simulator computes the fields everywhere, each gridcell acts as a receiver within the model volume, and captures the complete, coupled interactions between air, snow, sea ice and sea water asmore » a function of their conductivity; second, visualizations demonstrate how 1-D approximations near deformed ice features are violated. But the most important new finding is that changes in conductivity affect EM field response by modifying the magnitude and spatial patterns (i.e. footprint size and shape) of current density and magnetic fields. These effects are demonstrated through a visual feature we define as 'null lines'. Null line shape is affected by changes in conductivity near material boundaries as well as transmitter location. Our results encourage the use of null lines as a planning tool for better ground-truth field measurements near deformed ice types.« less

Separating morphologically similar pollen types using basic shape features from digital images: A preliminary study1

PubMed Central

Holt, Katherine A.; Bebbington, Mark S.

2014-01-01

• Premise of the study: One of the many advantages offered by automated palynology systems is the ability to vastly increase the number of observations made on a particular sample or samples. This is of particular benefit when attempting to fully quantify the degree of variation within or between closely related pollen types. • Methods: An automated palynology system (Classifynder) has been used to further investigate the variation in pollen morphology between two New Zealand species of Myrtaceae (Leptospermum scoparium and Kunzea ericoides) that are of significance in the New Zealand honey industry. Seven geometric features extracted from automatically gathered digital images were used to characterize the range of shape and size of the two taxa, and to examine the extent of previously reported overlap in these variables. • Results: Our results indicate a degree of overlap in all cases. The narrowest overlap was in measurements of maximum Feret diameter (MFD) in grains oriented in polar view. Multivariate statistical analysis using all seven factors provided the most robust discrimination between the two types. • Discussion: Further work is required before this approach could be routinely applied to separating the two pollen types used in this study, most notably the development of comprehensive reference distributions for the types in question. PMID:25202650

Quantifying shapes of volcanoes on Venus

NASA Technical Reports Server (NTRS)

Garvin, J. B.

1994-01-01

A large population of discrete volcanic edifices on Venus has been identified and cataloged by means of Magellan SAR images, and an extensive database describing thousands of such features is in final preparation. Those volcanoes categorized as Intermediate to Large in scale, while relatively small in number (approx. 400), nonetheless constitute a significant volumetric component (approx. 13 x 10(exp 6) cu km) of the total apparent crustal volume of Venus. For this reason, we have focused attention on the morphometry of a representative suite of the larger edifices on Venus and, in particular, on ways of constraining the eruptive histories of these possibly geologically youthful landforms. Our approach has been to determine a series of reproducible morphometric parameters for as many of the discrete volcanoes on Venus that have an obvious expression within the global altimetry data acquired by Magellan. In addition, we have attempted to objectively and systematically define the mathematical essence of the shapes of these larger volcanoes using a polynomial cross-section approximation involving only parameters easily measured from digital topography, as well as with simple surface cylindrical harmonic expansions. The goal is to reduce the topological complexities of the larger edifices to a few simple parameters which can then be related to similar expressions for well-studied terrestrial and martian features.

Analyzing surface features on icy satellites using a new two-layer analogue model

NASA Astrophysics Data System (ADS)

Morales, K. M.; Leonard, E. J.; Pappalardo, R. T.; Yin, A.

2017-12-01

The appearance of similar surface morphologies across many icy satellites suggests potentially unified formation mechanisms. Constraining the processes that shape the surfaces of these icy worlds is fundamental to understanding their rheology and thermal evolution—factors that have implications for potential habitability. Analogue models have proven useful for investigating and quantifying surface structure formation on Earth, but have only been sparsely applied to icy bodies. In this study, we employ an innovative two-layer analogue model that simulates a warm, ductile ice layer overlain by brittle surface ice on satellites such as Europa and Enceladus. The top, brittle layer is composed of fine-grained sand while the ductile, lower viscosity layer is made of putty. These materials were chosen because they scale up reasonably to the conditions on Europa and Enceladus. Using this analogue model, we investigate the role of the ductile layer in forming contractional structures (e.g. folds) that would compensate for the over-abundance of extensional features observed on icy satellites. We do this by simulating different compressional scenarios in the analogue model and analyzing whether the resulting features resemble those on icy bodies. If the resulting structures are similar, then the model can be used to quantify the deformation by calculating strain. These values can then be scaled up to Europa or Enceladus and used to quantity the observed surface morphologies and the amount of extensional strain accommodated by certain features. This presentation will focus on the resulting surface morphologies and the calculated strain values from several analogue experiments. The methods and findings from this work can then be expanded and used to study other icy bodies, such as Triton, Miranda, Ariel, and Pluto.

Personal recognition using hand shape and texture.

PubMed

Kumar, Ajay; Zhang, David

2006-08-01

This paper proposes a new bimodal biometric system using feature-level fusion of hand shape and palm texture. The proposed combination is of significance since both the palmprint and hand-shape images are proposed to be extracted from the single hand image acquired from a digital camera. Several new hand-shape features that can be used to represent the hand shape and improve the performance are investigated. The new approach for palmprint recognition using discrete cosine transform coefficients, which can be directly obtained from the camera hardware, is demonstrated. None of the prior work on hand-shape or palmprint recognition has given any attention on the critical issue of feature selection. Our experimental results demonstrate that while majority of palmprint or hand-shape features are useful in predicting the subjects identity, only a small subset of these features are necessary in practice for building an accurate model for identification. The comparison and combination of proposed features is evaluated on the diverse classification schemes; naive Bayes (normal, estimated, multinomial), decision trees (C4.5, LMT), k-NN, SVM, and FFN. Although more work remains to be done, our results to date indicate that the combination of selected hand-shape and palmprint features constitutes a promising addition to the biometrics-based personal recognition systems.

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

Fang, X.; Xia, C.; Keppens, R.

We present the first multidimensional, magnetohydrodynamic simulations that capture the initial formation and long-term sustainment of the enigmatic coronal rain phenomenon. We demonstrate how thermal instability can induce a spectacular display of in situ forming blob-like condensations which then start their intimate ballet on top of initially linear force-free arcades. Our magnetic arcades host a chromospheric, transition region, and coronal plasma. Following coronal rain dynamics for over 80 minutes of physical time, we collect enough statistics to quantify blob widths, lengths, velocity distributions, and other characteristics which directly match modern observational knowledge. Our virtual coronal rain displays the deformation ofmore » blobs into V-shaped features, interactions of blobs due to mostly pressure-mediated levitations, and gives the first views of blobs that evaporate in situ or are siphoned over the apex of the background arcade. Our simulations pave the way for systematic surveys of coronal rain showers in true multidimensional settings to connect parameterized heating prescriptions with rain statistics, ultimately allowing us to quantify the coronal heating input.« less

Multidimensional Modeling of Coronal Rain Dynamics

NASA Astrophysics Data System (ADS)

Fang, X.; Xia, C.; Keppens, R.

2013-07-01

We present the first multidimensional, magnetohydrodynamic simulations that capture the initial formation and long-term sustainment of the enigmatic coronal rain phenomenon. We demonstrate how thermal instability can induce a spectacular display of in situ forming blob-like condensations which then start their intimate ballet on top of initially linear force-free arcades. Our magnetic arcades host a chromospheric, transition region, and coronal plasma. Following coronal rain dynamics for over 80 minutes of physical time, we collect enough statistics to quantify blob widths, lengths, velocity distributions, and other characteristics which directly match modern observational knowledge. Our virtual coronal rain displays the deformation of blobs into V-shaped features, interactions of blobs due to mostly pressure-mediated levitations, and gives the first views of blobs that evaporate in situ or are siphoned over the apex of the background arcade. Our simulations pave the way for systematic surveys of coronal rain showers in true multidimensional settings to connect parameterized heating prescriptions with rain statistics, ultimately allowing us to quantify the coronal heating input.

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.

Heart-Shaped Feature in Arabia Terra

NASA Image and Video Library

2011-02-14

This picture of a heart-shaped feature in Arabia Terra on Mars was taken on May 23, 2010, by NASA Mars Reconnaissance Orbiter. A small impact crater near the tip of the heart is responsible for the formation of the bright, heart-shaped feature.

Rotation and scale invariant shape context registration for remote sensing images with background variations

NASA Astrophysics Data System (ADS)

Jiang, Jie; Zhang, Shumei; Cao, Shixiang

2015-01-01

Multitemporal remote sensing images generally suffer from background variations, which significantly disrupt traditional region feature and descriptor abstracts, especially between pre and postdisasters, making registration by local features unreliable. Because shapes hold relatively stable information, a rotation and scale invariant shape context based on multiscale edge features is proposed. A multiscale morphological operator is adapted to detect edges of shapes, and an equivalent difference of Gaussian scale space is built to detect local scale invariant feature points along the detected edges. Then, a rotation invariant shape context with improved distance discrimination serves as a feature descriptor. For a distance shape context, a self-adaptive threshold (SAT) distance division coordinate system is proposed, which improves the discriminative property of the feature descriptor in mid-long pixel distances from the central point while maintaining it in shorter ones. To achieve rotation invariance, the magnitude of Fourier transform in one-dimension is applied to calculate angle shape context. Finally, the residual error is evaluated after obtaining thin-plate spline transformation between reference and sensed images. Experimental results demonstrate the robustness, efficiency, and accuracy of this automatic algorithm.

Lunar Regolith Particle Shape Analysis

NASA Technical Reports Server (NTRS)

Kiekhaefer, Rebecca; Hardy, Sandra; Rickman, Douglas; Edmunson, Jennifer

2013-01-01

Future engineering of structures and equipment on the lunar surface requires significant understanding of particle characteristics of the lunar regolith. Nearly all sediment characteristics are influenced by particle shape; therefore a method of quantifying particle shape is useful both in lunar and terrestrial applications. We have created a method to quantify particle shape, specifically for lunar regolith, using image processing. Photomicrographs of thin sections of lunar core material were obtained under reflected light. Three photomicrographs were analyzed using ImageJ and MATLAB. From the image analysis measurements for area, perimeter, Feret diameter, orthogonal Feret diameter, Heywood factor, aspect ratio, sieve diameter, and sieve number were recorded. Probability distribution functions were created from the measurements of Heywood factor and aspect ratio.

Comparison of the effectiveness of alternative feature sets in shape retrieval of multicomponent images

NASA Astrophysics Data System (ADS)

Eakins, John P.; Edwards, Jonathan D.; Riley, K. Jonathan; Rosin, Paul L.

2001-01-01

Many different kinds of features have been used as the basis for shape retrieval from image databases. This paper investigates the relative effectiveness of several types of global shape feature, both singly and in combination. The features compared include well-established descriptors such as Fourier coefficients and moment invariants, as well as recently-proposed measures of triangularity and ellipticity. Experiments were conducted within the framework of the ARTISAN shape retrieval system, and retrieval effectiveness assessed on a database of over 10,000 images, using 24 queries and associated ground truth supplied by the UK Patent Office . Our experiments revealed only minor differences in retrieval effectiveness between different measures, suggesting that a wide variety of shape feature combinations can provide adequate discriminating power for effective shape retrieval in multi-component image collections such as trademark registries. Marked differences between measures were observed for some individual queries, suggesting that there could be considerable scope for improving retrieval effectiveness by providing users with an improved framework for searching multi-dimensional feature space.

Comparison of the effectiveness of alternative feature sets in shape retrieval of multicomponent images

NASA Astrophysics Data System (ADS)

Eakins, John P.; Edwards, Jonathan D.; Riley, K. Jonathan; Rosin, Paul L.

2000-12-01

Many different kinds of features have been used as the basis for shape retrieval from image databases. This paper investigates the relative effectiveness of several types of global shape feature, both singly and in combination. The features compared include well-established descriptors such as Fourier coefficients and moment invariants, as well as recently-proposed measures of triangularity and ellipticity. Experiments were conducted within the framework of the ARTISAN shape retrieval system, and retrieval effectiveness assessed on a database of over 10,000 images, using 24 queries and associated ground truth supplied by the UK Patent Office . Our experiments revealed only minor differences in retrieval effectiveness between different measures, suggesting that a wide variety of shape feature combinations can provide adequate discriminating power for effective shape retrieval in multi-component image collections such as trademark registries. Marked differences between measures were observed for some individual queries, suggesting that there could be considerable scope for improving retrieval effectiveness by providing users with an improved framework for searching multi-dimensional feature space.

Quantifying Electrical Interactions between Cardiomyocytes and Other Cells in Micropatterned Cell Pairs

PubMed Central

Nguyen, Hung; Badie, Nima; McSpadden, Luke; Pedrotty, Dawn; Bursac, Nenad

2014-01-01

Micropatterning is a powerful technique to control cell shape and position on a culture substrate. In this chapter, we describe the method to reproducibly create large numbers of micropatterned heterotypic cell pairs with defined size, shape, and length of cell–cell contact. These cell pairs can be utilized in patch clamp recordings to quantify electrical interactions between cardiomyocytes and non-cardiomyocytes. PMID:25070342

The performance improvement of automatic classification among obstructive lung diseases on the basis of the features of shape analysis, in addition to texture analysis at HRCT

NASA Astrophysics Data System (ADS)

Lee, Youngjoo; Kim, Namkug; Seo, Joon Beom; Lee, JuneGoo; Kang, Suk Ho

2007-03-01

In this paper, we proposed novel shape features to improve classification performance of differentiating obstructive lung diseases, based on HRCT (High Resolution Computerized Tomography) images. The images were selected from HRCT images, obtained from 82 subjects. For each image, two experienced radiologists selected rectangular ROIs with various sizes (16x16, 32x32, and 64x64 pixels), representing each disease or normal lung parenchyma. Besides thirteen textural features, we employed additional seven shape features; cluster shape features, and Top-hat transform features. To evaluate the contribution of shape features for differentiation of obstructive lung diseases, several experiments were conducted with two different types of classifiers and various ROI sizes. For automated classification, the Bayesian classifier and support vector machine (SVM) were implemented. To assess the performance and cross-validation of the system, 5-folding method was used. In comparison to employing only textural features, adding shape features yields significant enhancement of overall sensitivity(5.9, 5.4, 4.4% in the Bayesian and 9.0, 7.3, 5.3% in the SVM), in the order of ROI size 16x16, 32x32, 64x64 pixels, respectively (t-test, p<0.01). Moreover, this enhancement was largely due to the improvement on class-specific sensitivity of mild centrilobular emphysema and bronchiolitis obliterans which are most hard to differentiate for radiologists. According to these experimental results, adding shape features to conventional texture features is much useful to improve classification performance of obstructive lung diseases in both Bayesian and SVM classifiers.

Automated isotope identification algorithm using artificial neural networks

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

Kamuda, Mark; Stinnett, Jacob; Sullivan, Clair

There is a need to develop an algorithm that can determine the relative activities of radio-isotopes in a large dataset of low-resolution gamma-ray spectra that contains a mixture of many radio-isotopes. Low-resolution gamma-ray spectra that contain mixtures of radio-isotopes often exhibit feature over-lap, requiring algorithms that can analyze these features when overlap occurs. While machine learning and pattern recognition algorithms have shown promise for the problem of radio-isotope identification, their ability to identify and quantify mixtures of radio-isotopes has not been studied. Because machine learning algorithms use abstract features of the spectrum, such as the shape of overlapping peaks andmore » Compton continuum, they are a natural choice for analyzing radio-isotope mixtures. An artificial neural network (ANN) has be trained to calculate the relative activities of 32 radio-isotopes in a spectrum. Furthermore, the ANN is trained with simulated gamma-ray spectra, allowing easy expansion of the library of target radio-isotopes. In this paper we present our initial algorithms based on an ANN and evaluate them against a series measured and simulated spectra.« less

Automated isotope identification algorithm using artificial neural networks

DOE PAGES

Kamuda, Mark; Stinnett, Jacob; Sullivan, Clair

2017-04-12

There is a need to develop an algorithm that can determine the relative activities of radio-isotopes in a large dataset of low-resolution gamma-ray spectra that contains a mixture of many radio-isotopes. Low-resolution gamma-ray spectra that contain mixtures of radio-isotopes often exhibit feature over-lap, requiring algorithms that can analyze these features when overlap occurs. While machine learning and pattern recognition algorithms have shown promise for the problem of radio-isotope identification, their ability to identify and quantify mixtures of radio-isotopes has not been studied. Because machine learning algorithms use abstract features of the spectrum, such as the shape of overlapping peaks andmore » Compton continuum, they are a natural choice for analyzing radio-isotope mixtures. An artificial neural network (ANN) has be trained to calculate the relative activities of 32 radio-isotopes in a spectrum. Furthermore, the ANN is trained with simulated gamma-ray spectra, allowing easy expansion of the library of target radio-isotopes. In this paper we present our initial algorithms based on an ANN and evaluate them against a series measured and simulated spectra.« less

From Curves to Trees: A Tree-like Shapes Distance Using the Elastic Shape Analysis Framework.

PubMed

Mottini, A; Descombes, X; Besse, F

2015-04-01

Trees are a special type of graph that can be found in various disciplines. In the field of biomedical imaging, trees have been widely studied as they can be used to describe structures such as neurons, blood vessels and lung airways. It has been shown that the morphological characteristics of these structures can provide information on their function aiding the characterization of pathological states. Therefore, it is important to develop methods that analyze their shape and quantify differences between their structures. In this paper, we present a method for the comparison of tree-like shapes that takes into account both topological and geometrical information. This method, which is based on the Elastic Shape Analysis Framework, also computes the mean shape of a population of trees. As a first application, we have considered the comparison of axon morphology. The performance of our method has been evaluated on two sets of images. For the first set of images, we considered four different populations of neurons from different animals and brain sections from the NeuroMorpho.org open database. The second set was composed of a database of 3D confocal microscopy images of three populations of axonal trees (normal and two types of mutations) of the same type of neurons. We have calculated the inter and intra class distances between the populations and embedded the distance in a classification scheme. We have compared the performance of our method against three other state of the art algorithms, and results showed that the proposed method better distinguishes between the populations. Furthermore, we present the mean shape of each population. These shapes present a more complete picture of the morphological characteristics of each population, compared to the average value of certain predefined features.

Computer-assisted bladder cancer grading: α-shapes for color space decomposition

NASA Astrophysics Data System (ADS)

Niazi, M. K. K.; Parwani, Anil V.; Gurcan, Metin N.

2016-03-01

According to American Cancer Society, around 74,000 new cases of bladder cancer are expected during 2015 in the US. To facilitate the bladder cancer diagnosis, we present an automatic method to differentiate carcinoma in situ (CIS) from normal/reactive cases that will work on hematoxylin and eosin (H and E) stained images of bladder. The method automatically determines the color deconvolution matrix by utilizing the α-shapes of the color distribution in the RGB color space. Then, variations in the boundary of transitional epithelium are quantified, and sizes of nuclei in the transitional epithelium are measured. We also approximate the "nuclear to cytoplasmic ratio" by computing the ratio of the average shortest distance between transitional epithelium and nuclei to average nuclei size. Nuclei homogeneity is measured by computing the kurtosis of the nuclei size histogram. The results show that 30 out of 34 (88.2%) images were correctly classified by the proposed method, indicating that these novel features are viable markers to differentiate CIS from normal/reactive bladder.

Experiments in clustered neuronal networks: A paradigm for complex modular dynamics

NASA Astrophysics Data System (ADS)

Teller, Sara; Soriano, Jordi

2016-06-01

Uncovering the interplay activity-connectivity is one of the major challenges in neuroscience. To deepen in the understanding of how a neuronal circuit shapes network dynamics, neuronal cultures have emerged as remarkable systems given their accessibility and easy manipulation. An attractive configuration of these in vitro systems consists in an ensemble of interconnected clusters of neurons. Using calcium fluorescence imaging to monitor spontaneous activity in these clustered neuronal networks, we were able to draw functional maps and reveal their topological features. We also observed that these networks exhibit a hierarchical modular dynamics, in which clusters fire in small groups that shape characteristic communities in the network. The structure and stability of these communities is sensitive to chemical or physical action, and therefore their analysis may serve as a proxy for network health. Indeed, the combination of all these approaches is helping to develop models to quantify damage upon network degradation, with promising applications for the study of neurological disorders in vitro.

Bayesian predictive power: choice of prior and some recommendations for its use as probability of success in drug development.

PubMed

Rufibach, Kaspar; Burger, Hans Ulrich; Abt, Markus

2016-09-01

Bayesian predictive power, the expectation of the power function with respect to a prior distribution for the true underlying effect size, is routinely used in drug development to quantify the probability of success of a clinical trial. Choosing the prior is crucial for the properties and interpretability of Bayesian predictive power. We review recommendations on the choice of prior for Bayesian predictive power and explore its features as a function of the prior. The density of power values induced by a given prior is derived analytically and its shape characterized. We find that for a typical clinical trial scenario, this density has a u-shape very similar, but not equal, to a β-distribution. Alternative priors are discussed, and practical recommendations to assess the sensitivity of Bayesian predictive power to its input parameters are provided. Copyright © 2016 John Wiley & Sons, Ltd. Copyright © 2016 John Wiley & Sons, Ltd.

Generalized Models for Rock Joint Surface Shapes

PubMed Central

Du, Shigui; Hu, Yunjin; Hu, Xiaofei

2014-01-01

Generalized models of joint surface shapes are the foundation for mechanism studies on the mechanical effects of rock joint surface shapes. Based on extensive field investigations of rock joint surface shapes, generalized models for three level shapes named macroscopic outline, surface undulating shape, and microcosmic roughness were established through statistical analyses of 20,078 rock joint surface profiles. The relative amplitude of profile curves was used as a borderline for the division of different level shapes. The study results show that the macroscopic outline has three basic features such as planar, arc-shaped, and stepped; the surface undulating shape has three basic features such as planar, undulating, and stepped; and the microcosmic roughness has two basic features such as smooth and rough. PMID:25152901

Interplay of lancet furrows and shape change in the horseshoe bat noseleaf.

PubMed

Gupta, Anupam K; Webster, Dane; Müller, Rolf

2015-11-01

Horseshoe bats emit biosonar pulses through the nostrils and diffract the outgoing ultrasonic pulses with baffles, so-called "noseleaves," that surround the nostrils. The noseleaves have complex static geometries and can furthermore undergo dynamic shape changes during emission of the biosonar pulses. The posterior noseleaf part, the lancet, has been shown to carry out anterior-posterior flicking motions during biosonar emissions with average lancet tip displacements of about 1 mm. Here, the acoustic effects of the interplay between the lancet furrows and shape change (lancet rotation) on the emission beam were investigated using the animated digital models obtained from the noseleaves of greater horseshoe bats (Rhinolophus ferrumequinum). It was found that forward lancet rotations increase the amount of sound energy allocated to secondary amplitude maxima (sidelobes) in the beampattern, but only in the presence of the furrows. The interaction between static and dynamic features can be readily quantified by roughness (standard deviation about local mean) of the amplitude distribution of the beampatterns. This effect goes beyond the static impact of the furrows on the width of the mainlobe. It could allow the bats to send out their pulses through a sequence of qualitatively different beampatterns.

Power systems and requirements for the integration of smart structures into aircraft

NASA Astrophysics Data System (ADS)

Lockyer, Allen J.; Martin, Christopher A.; Lindner, Douglas K.; Walia, Paramjit S.

2002-07-01

Electrical power distribution for recently developed smart actuators becomes an important air-vehicle challenge if projected smart actuation benefits are to be met. Among the items under development are variable shape inlets and control surfaces that utilize shape memory alloys (SMA); full span, chord-wise and span-wise contouring trailing control surfaces that use SMA or piezoelectric materials for actuation; and other strain-based actuators for buffet load alleviation, flutter suppression and flow control. At first glance, such technologies afford overall vehicle performance improvement, however, integration system impacts have yet to be determined or quantified. Power systems to support smart structures initiatives are the focus of the current paper. The paper has been organized into five main topics for further discussion: (1) air-vehicle power system architectures - standard and advanced distribution concepts for actuators, (2) smart wing actuator power requirements and results - highlighting wind tunnel power measurements from shape memory alloy and piezoelectric ultrasonic motor actuated control surfaces and different dynamic pressure and angle of attack; (3) vehicle electromagnetic effects (EME) issues, (4) power supply design considerations for smart actuators - featuring the aircraft power and actuator interface, and (5) summary and conclusions.

Feature Masking in Computer Game Promotes Visual Imagery

ERIC Educational Resources Information Center

Smith, Glenn Gordon; Morey, Jim; Tjoe, Edwin

2007-01-01

Can learning of mental imagery skills for visualizing shapes be accelerated with feature masking? Chemistry, physics fine arts, military tactics, and laparoscopic surgery often depend on mentally visualizing shapes in their absence. Does working with "spatial feature-masks" (skeletal shapes, missing key identifying portions) encourage people to…

Heart-Shaped Feature in Arabia Terra Wide View

NASA Image and Video Library

2011-02-14

This wide-view picture of a heart-shaped feature in Arabia Terra on Mars was taken on May 23, 2010, by NASA Mars Reconnaissance Orbiter. A small impact crater near the tip of the heart is responsible for the formation of the bright, heart-shaped feature

Identification and characterization of neutrophil extracellular trap shapes in flow cytometry

NASA Astrophysics Data System (ADS)

Ginley, Brandon; Emmons, Tiffany; Sasankan, Prabhu; Urban, Constantin; Segal, Brahm H.; Sarder, Pinaki

2017-03-01

Neutrophil extracellular trap (NET) formation is an alternate immunologic weapon used mainly by neutrophils. Chromatin backbones fused with proteins derived from granules are shot like projectiles onto foreign invaders. It is thought that this mechanism is highly anti-microbial, aids in preventing bacterial dissemination, is used to break down structures several sizes larger than neutrophils themselves, and may have several more uses yet unknown. NETs have been implied to be involved in a wide array of systemic host immune defenses, including sepsis, autoimmune diseases, and cancer. Existing methods used to visually quantify NETotic versus non-NETotic shapes are extremely time-consuming and subject to user bias. These limitations are obstacles to developing NETs as prognostic biomarkers and therapeutic targets. We propose an automated pipeline for quantitatively detecting neutrophil and NET shapes captured using a flow cytometry-imaging system. Our method uses contrast limited adaptive histogram equalization to improve signal intensity in dimly illuminated NETs. From the contrast improved image, fixed value thresholding is applied to convert the image to binary. Feature extraction is performed on the resulting binary image, by calculating region properties of the resulting foreground structures. Classification of the resulting features is performed using Support Vector Machine. Our method classifies NETs from neutrophils without traps at 0.97/0.96 sensitivity/specificity on n = 387 images, and is 1500X faster than manual classification, per sample. Our method can be extended to rapidly analyze whole-slide immunofluorescence tissue images for NET classification, and has potential to streamline the quantification of NETs for patients with diseases associated with cancer and autoimmunity.

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.

Quantifying and visualizing variations in sets of images using continuous linear optimal transport

NASA Astrophysics Data System (ADS)

Kolouri, Soheil; Rohde, Gustavo K.

2014-03-01

Modern advancements in imaging devices have enabled us to explore the subcellular structure of living organisms and extract vast amounts of information. However, interpreting the biological information mined in the captured images is not a trivial task. Utilizing predetermined numerical features is usually the only hope for quantifying this information. Nonetheless, direct visual or biological interpretation of results obtained from these selected features is non-intuitive and difficult. In this paper, we describe an automatic method for modeling visual variations in a set of images, which allows for direct visual interpretation of the most significant differences, without the need for predefined features. The method is based on a linearized version of the continuous optimal transport (OT) metric, which provides a natural linear embedding for the image data set, in which linear combination of images leads to a visually meaningful image. This enables us to apply linear geometric data analysis techniques such as principal component analysis and linear discriminant analysis in the linearly embedded space and visualize the most prominent modes, as well as the most discriminant modes of variations, in the dataset. Using the continuous OT framework, we are able to analyze variations in shape and texture in a set of images utilizing each image at full resolution, that otherwise cannot be done by existing methods. The proposed method is applied to a set of nuclei images segmented from Feulgen stained liver tissues in order to investigate the major visual differences in chromatin distribution of Fetal-Type Hepatoblastoma (FHB) cells compared to the normal cells.

Contributions of individual face features to face discrimination.

PubMed

Logan, Andrew J; Gordon, Gael E; Loffler, Gunter

2017-08-01

Faces are highly complex stimuli that contain a host of information. Such complexity poses the following questions: (a) do observers exhibit preferences for specific information? (b) how does sensitivity to individual face parts compare? These questions were addressed by quantifying sensitivity to different face features. Discrimination thresholds were determined for synthetic faces under the following conditions: (i) 'full face': all face features visible; (ii) 'isolated feature': single feature presented in isolation; (iii) 'embedded feature': all features visible, but only one feature modified. Mean threshold elevations for isolated features, relative to full-faces, were 0.84x, 1.08, 2.12, 3.34, 4.07 and 4.47 for head-shape, hairline, nose, mouth, eyes and eyebrows respectively. Hence, when two full faces can be discriminated at threshold, the difference between the eyes is about four times less than what is required when discriminating between isolated eyes. In all cases, sensitivity was higher when features were presented in isolation than when they were embedded within a face context (threshold elevations of 0.94x, 1.74, 2.67, 2.90, 5.94 and 9.94). This reveals a specific pattern of sensitivity to face information. Observers are between two and four times more sensitive to external than internal features. The pattern for internal features (higher sensitivity for the nose, compared to mouth, eyes and eyebrows) is consistent with lower sensitivity for those parts affected by facial dynamics (e.g. facial expressions). That isolated features are easier to discriminate than embedded features supports a holistic face processing mechanism which impedes extraction of information about individual features from full faces. Copyright © 2017 Elsevier Ltd. All rights reserved.

Spike Train Similarity Space (SSIMS) Method Detects Effects of Obstacle Proximity and Experience on Temporal Patterning of Bat Biosonar

PubMed Central

Accomando, Alyssa W.; Vargas-Irwin, Carlos E.; Simmons, James A.

2018-01-01

Bats emit biosonar pulses in complex temporal patterns that change to accommodate dynamic surroundings. Efforts to quantify these patterns have included analyses of inter-pulse intervals, sonar sound groups, and changes in individual signal parameters such as duration or frequency. Here, the similarity in temporal structure between trains of biosonar pulses is assessed. The spike train similarity space (SSIMS) algorithm, originally designed for neural activity pattern analysis, was applied to determine which features of the environment influence temporal patterning of pulses emitted by flying big brown bats, Eptesicus fuscus. In these laboratory experiments, bats flew down a flight corridor through an obstacle array. The corridor varied in width (100, 70, or 40 cm) and shape (straight or curved). Using a relational point-process framework, SSIMS was able to discriminate between echolocation call sequences recorded from flights in each of the corridor widths. SSIMS was also able to tell the difference between pulse trains recorded during flights where corridor shape through the obstacle array matched the previous trials (fixed, or expected) as opposed to those recorded from flights with randomized corridor shape (variable, or unexpected), but only for the flight path shape in which the bats had previous training. The results show that experience influences the temporal patterns with which bats emit their echolocation calls. It is demonstrated that obstacle proximity to the bat affects call patterns more dramatically than flight path shape. PMID:29472848

Spike Train Similarity Space (SSIMS) Method Detects Effects of Obstacle Proximity and Experience on Temporal Patterning of Bat Biosonar.

PubMed

Accomando, Alyssa W; Vargas-Irwin, Carlos E; Simmons, James A

2018-01-01

Bats emit biosonar pulses in complex temporal patterns that change to accommodate dynamic surroundings. Efforts to quantify these patterns have included analyses of inter-pulse intervals, sonar sound groups, and changes in individual signal parameters such as duration or frequency. Here, the similarity in temporal structure between trains of biosonar pulses is assessed. The spike train similarity space (SSIMS) algorithm, originally designed for neural activity pattern analysis, was applied to determine which features of the environment influence temporal patterning of pulses emitted by flying big brown bats, Eptesicus fuscus . In these laboratory experiments, bats flew down a flight corridor through an obstacle array. The corridor varied in width (100, 70, or 40 cm) and shape (straight or curved). Using a relational point-process framework, SSIMS was able to discriminate between echolocation call sequences recorded from flights in each of the corridor widths. SSIMS was also able to tell the difference between pulse trains recorded during flights where corridor shape through the obstacle array matched the previous trials (fixed, or expected) as opposed to those recorded from flights with randomized corridor shape (variable, or unexpected), but only for the flight path shape in which the bats had previous training. The results show that experience influences the temporal patterns with which bats emit their echolocation calls. It is demonstrated that obstacle proximity to the bat affects call patterns more dramatically than flight path shape.

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.

Characterization of Type Ia Supernova Light Curves Using Principal Component Analysis of Sparse Functional Data

NASA Astrophysics Data System (ADS)

He, Shiyuan; Wang, Lifan; Huang, Jianhua Z.

2018-04-01

With growing data from ongoing and future supernova surveys, it is possible to empirically quantify the shapes of SNIa light curves in more detail, and to quantitatively relate the shape parameters with the intrinsic properties of SNIa. Building such relationships is critical in controlling systematic errors associated with supernova cosmology. Based on a collection of well-observed SNIa samples accumulated in the past years, we construct an empirical SNIa light curve model using a statistical method called the functional principal component analysis (FPCA) for sparse and irregularly sampled functional data. Using this method, the entire light curve of an SNIa is represented by a linear combination of principal component functions, and the SNIa is represented by a few numbers called “principal component scores.” These scores are used to establish relations between light curve shapes and physical quantities such as intrinsic color, interstellar dust reddening, spectral line strength, and spectral classes. These relations allow for descriptions of some critical physical quantities based purely on light curve shape parameters. Our study shows that some important spectral feature information is being encoded in the broad band light curves; for instance, we find that the light curve shapes are correlated with the velocity and velocity gradient of the Si II λ6355 line. This is important for supernova surveys (e.g., LSST and WFIRST). Moreover, the FPCA light curve model is used to construct the entire light curve shape, which in turn is used in a functional linear form to adjust intrinsic luminosity when fitting distance models.

The relationship study between image features and detection probability based on psychology experiments

NASA Astrophysics Data System (ADS)

Lin, Wei; Chen, Yu-hua; Wang, Ji-yuan; Gao, Hong-sheng; Wang, Ji-jun; Su, Rong-hua; Mao, Wei

2011-04-01

Detection probability is an important index to represent and estimate target viability, which provides basis for target recognition and decision-making. But it will expend a mass of time and manpower to obtain detection probability in reality. At the same time, due to the different interpretation of personnel practice knowledge and experience, a great difference will often exist in the datum obtained. By means of studying the relationship between image features and perception quantity based on psychology experiments, the probability model has been established, in which the process is as following.Firstly, four image features have been extracted and quantified, which affect directly detection. Four feature similarity degrees between target and background were defined. Secondly, the relationship between single image feature similarity degree and perception quantity was set up based on psychological principle, and psychological experiments of target interpretation were designed which includes about five hundred people for interpretation and two hundred images. In order to reduce image features correlativity, a lot of artificial synthesis images have been made which include images with single brightness feature difference, images with single chromaticity feature difference, images with single texture feature difference and images with single shape feature difference. By analyzing and fitting a mass of experiments datum, the model quantitys have been determined. Finally, by applying statistical decision theory and experimental results, the relationship between perception quantity with target detection probability has been found. With the verification of a great deal of target interpretation in practice, the target detection probability can be obtained by the model quickly and objectively.

Shape and Color Features for Object Recognition Search

NASA Technical Reports Server (NTRS)

Duong, Tuan A.; Duong, Vu A.; Stubberud, Allen R.

2012-01-01

A bio-inspired shape feature of an object of interest emulates the integration of the saccadic eye movement and horizontal layer in vertebrate retina for object recognition search where a single object can be used one at a time. The optimal computational model for shape-extraction-based principal component analysis (PCA) was also developed to reduce processing time and enable the real-time adaptive system capability. A color feature of the object is employed as color segmentation to empower the shape feature recognition to solve the object recognition in the heterogeneous environment where a single technique - shape or color - may expose its difficulties. To enable the effective system, an adaptive architecture and autonomous mechanism were developed to recognize and adapt the shape and color feature of the moving object. The bio-inspired object recognition based on bio-inspired shape and color can be effective to recognize a person of interest in the heterogeneous environment where the single technique exposed its difficulties to perform effective recognition. Moreover, this work also demonstrates the mechanism and architecture of the autonomous adaptive system to enable the realistic system for the practical use in the future.

Topographic precursors and geological structures of deep-seated catastrophic landslides caused by typhoon Talas, determined from the analysis of high-resolution DEMs

NASA Astrophysics Data System (ADS)

Chigira, Masahiro; Tsou, Ching-Ying; Matsushi, Yuki

2013-04-01

Typhoon Talas crossed the Japanese Islands between 2 and 5 September 2011, causing more than 70 deep-seated catastrophic landslides in a Jurassic to Paleogene-Early Miocene accretion complex. Detailed examination of the topographic features of 10 large landslides before the event, recorded on DEMs with a resolution of 1 m (based on airborne laser scanner surveys), showed that all of the landslides had small scarplets near their future crowns prior to the slide, and one landslide had linear depressions along its future crown as precursor topographic features. These scarplets and linear depressions were caused by gravitational slope deformation that preceded the catastrophic failure. Strains, defined by the ratio of the length of a scarplet to the length of the whole slope (as measured along the slope line), ranged from 5% to 21%, and are the first reliable numerical data relating to the topographic precursor features of large and catastrophic landslides. Careful examination of aerial photographs from another four large landslides, for which no high-resolution DEMs were available, suggested that they also developed scarplets at their heads beforehand, which are not precisely quantified. Twelve of the 14 landslides we surveyed in the field had sliding surfaces with wedge-shaped discontinuities that consisted of faults, shear surfaces that formed during accretion, and bedding, suggesting that the buildup of pore pressure occurs readily in a gravitationally deformed rock body containing wedge-shaped discontinuities. Other types of gravitational deformation were also active; e.g., flexural toppling and buckling were each observed to have preceded one landslide.

Absorption Efficiencies of Forsterite. I: DDA Explorations in Grain Shape and Size

NASA Technical Reports Server (NTRS)

Lindsay, Sean S.; Wooden, Diane; Harker, David E.; Kelley, Michael S.; Woodward, Charles E.; Murphy, Jim R.

2013-01-01

We compute the absorption efficiency (Q(sub abs)) of forsterite using the discrete dipole approximation (DDA) in order to identify and describe what characteristics of crystal grain shape and size are important to the shape, peak location, and relative strength of spectral features in the 8 - 40 micron wavelength range. Using the DDSCAT code, we compute Q(sub abs) for non-spherical polyhedral grain shapes with a(sub eff) = 0.1 micron. The shape characteristics identified are: 1) elongation/reduction along one of three crystallographic axes; 2) asymmetry, such that all three crystallographic axes are of different lengths; and 3) the presence of crystalline faces that are not parallel to a specific crystallographic axis, e.g., non-rectangular prisms and (di)pyramids. Elongation/reduction dominates the locations and shapes of spectral features near 10, 11, 16, 23.5, 27, and 33.5 micron, while asymmetry and tips are secondary shape effects. Increasing grain sizes (0.1 - 1.0 micron) shifts the 10, 11 micron features systematically towards longer wavelengths and relative to the 11 micron feature increases the strengths and slightly broadens the longer wavelength features. Seven spectral shape classes are established for crystallographic a-, b-, and c-axes and include columnar and platelet shapes plus non-elongated or equant grain shapes. The spectral shape classes and the effects of grain size have practical application in identifying or excluding columnar, platelet or equant forsterite grain shapes in astrophysical environs. Identification of the shape characteristics of forsterite from 8 - 40 micron spectra provides a potential means to probe the temperatures at which forsterite formed.

ECG Identification System Using Neural Network with Global and Local Features

ERIC Educational Resources Information Center

Tseng, Kuo-Kun; Lee, Dachao; Chen, Charles

2016-01-01

This paper proposes a human identification system via extracted electrocardiogram (ECG) signals. Two hierarchical classification structures based on global shape feature and local statistical feature is used to extract ECG signals. Global shape feature represents the outline information of ECG signals and local statistical feature extracts the…

Rapid Recovery of a Gully Thermokarst: 10 Years of Observation of the Toolik River Thermokarst, North Slope, Alaska

NASA Astrophysics Data System (ADS)

Bowden, W. B.; Gooseff, M. N.; Stuckey, J. J.; Fulweber, R. A.; Larouche, J. R.

2014-12-01

As permafrost thaws, previously frozen soils may become unstable and subside, in some cases forming thermo-erosional features such as gully thermokarst (GTKs). The formation of these features can result in sediment and nutrient inputs to local streams and lakes. The initial evolution of GTKs is rapid (months to several years) and appears to follow a progression in which the loss of ground ice in the soil creates a subsurface cavity that allows for the transport of water downslope, followed by the collapse of the overlying soil into the cavity, with a subsequent period of sediment and nutrient export. However, there is considerable uncertainty about the length of time these features remain unstable and actively transport sediments and nutrients. We followed the evolution of one moderately-sized (~5,000 m2) GTK located in the headwaters of the Toolik River (N68.692733° W149.205433°) on the North Slope of Alaska (USA). This feature formed in July 2003 and we monitored it for several years thereafter. In 2007 we began to monitor the shape and contours of this feature and quantified the level of ecologically important solutes it exports to the local stream. As expected, large quantities of sediment and nutrients were exported from this feature when it first formed. However, within a year or two the sediment export decreased to episodic events and the nutrient export, while elevated above reference levels, was not remarkably high. Between 2007 and the present (2014), the shape and topography of the feature have changed very little (Figure) except for some headwall retrogression, suggesting that long-term sediment transport has decreased dramatically. Thus, the overall sediment loading to the river was smaller and has decreased more rapidly than we expected. The rapid reduction in sediment and nutrient delivery is consistent with the more recent geomorphic evolution and stabilization of this feature. We conclude - contrary to our initial hypotheses - that these features form and stabilize rather quickly (~10 years) and that their influences on local streams and lakes might be ephemeral. Thus, the greater importance of these features may be as indicators of general permafrost degradation in the area and the attendant losses of carbon and other nutrients that this degradation implies.

Robustly Aligning a Shape Model and Its Application to Car Alignment of Unknown Pose.

PubMed

Li, Yan; Gu, Leon; Kanade, Takeo

2011-09-01

Precisely localizing in an image a set of feature points that form a shape of an object, such as car or face, is called alignment. Previous shape alignment methods attempted to fit a whole shape model to the observed data, based on the assumption of Gaussian observation noise and the associated regularization process. However, such an approach, though able to deal with Gaussian noise in feature detection, turns out not to be robust or precise because it is vulnerable to gross feature detection errors or outliers resulting from partial occlusions or spurious features from the background or neighboring objects. We address this problem by adopting a randomized hypothesis-and-test approach. First, a Bayesian inference algorithm is developed to generate a shape-and-pose hypothesis of the object from a partial shape or a subset of feature points. For alignment, a large number of hypotheses are generated by randomly sampling subsets of feature points, and then evaluated to find the one that minimizes the shape prediction error. This method of randomized subset-based matching can effectively handle outliers and recover the correct object shape. We apply this approach on a challenging data set of over 5,000 different-posed car images, spanning a wide variety of car types, lighting, background scenes, and partial occlusions. Experimental results demonstrate favorable improvements over previous methods on both accuracy and robustness.

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

Combined Feature Based and Shape Based Visual Tracker for Robot Navigation

NASA Technical Reports Server (NTRS)

Deans, J.; Kunz, C.; Sargent, R.; Park, E.; Pedersen, L.

2005-01-01

We have developed a combined feature based and shape based visual tracking system designed to enable a planetary rover to visually track and servo to specific points chosen by a user with centimeter precision. The feature based tracker uses invariant feature detection and matching across a stereo pair, as well as matching pairs before and after robot movement in order to compute an incremental 6-DOF motion at each tracker update. This tracking method is subject to drift over time, which can be compensated by the shape based method. The shape based tracking method consists of 3D model registration, which recovers 6-DOF motion given sufficient shape and proper initialization. By integrating complementary algorithms, the combined tracker leverages the efficiency and robustness of feature based methods with the precision and accuracy of model registration. In this paper, we present the algorithms and their integration into a combined visual tracking system.

Diving into the consumer nutrition environment: A Bayesian spatial factor analysis of neighborhood restaurant environment.

PubMed

Luan, Hui; Law, Jane; Lysy, Martin

2018-02-01

Neighborhood restaurant environment (NRE) plays a vital role in shaping residents' eating behaviors. While NRE 'healthfulness' is a multi-facet concept, most studies evaluate it based only on restaurant type, thus largely ignoring variations of in-restaurant features. In the few studies that do account for such features, healthfulness scores are simply averaged over accessible restaurants, thereby concealing any uncertainty that attributed to neighborhoods' size or spatial correlation. To address these limitations, this paper presents a Bayesian Spatial Factor Analysis for assessing NRE healthfulness in the city of Kitchener, Canada. Several in-restaurant characteristics are included. By treating NRE healthfulness as a spatially correlated latent variable, the adopted modeling approach can: (i) identify specific indicators most relevant to NRE healthfulness, (ii) provide healthfulness estimates for neighborhoods without accessible restaurants, and (iii) readily quantify uncertainties in the healthfulness index. Implications of the analysis for intervention program development and community food planning are discussed. Copyright © 2017 Elsevier Ltd. All rights reserved.

Comprehensive machine learning analysis of Hydra behavior reveals a stable basal behavioral repertoire.

PubMed

Han, Shuting; Taralova, Ekaterina; Dupre, Christophe; Yuste, Rafael

2018-03-28

Animal behavior has been studied for centuries, but few efficient methods are available to automatically identify and classify it. Quantitative behavioral studies have been hindered by the subjective and imprecise nature of human observation, and the slow speed of annotating behavioral data. Here, we developed an automatic behavior analysis pipeline for the cnidarian Hydra vulgaris using machine learning. We imaged freely behaving Hydra , extracted motion and shape features from the videos, and constructed a dictionary of visual features to classify pre-defined behaviors. We also identified unannotated behaviors with unsupervised methods. Using this analysis pipeline, we quantified 6 basic behaviors and found surprisingly similar behavior statistics across animals within the same species, regardless of experimental conditions. Our analysis indicates that the fundamental behavioral repertoire of Hydra is stable. This robustness could reflect a homeostatic neural control of "housekeeping" behaviors which could have been already present in the earliest nervous systems. © 2018, Han et al.

On the interaction between ocean surface waves and seamounts

NASA Astrophysics Data System (ADS)

Sosa, Jeison; Cavaleri, Luigi; Portilla-Yandún, Jesús

2017-12-01

Of the many topographic features, more specifically seamounts, that are ubiquitous in the ocean floor, we focus our attention on those with relatively shallow summits that can interact with wind-generated surface waves. Among these, especially relatively long waves crossing the oceans (swells) and stormy seas are able to affect the water column up to a considerable depth and therefore interact with these deep-sea features. We quantify this interaction through numerical experiments using a numerical wave model (SWAN), in which a simply shaped seamount is exposed to waves of different length. The results show a strong interaction that leads to significant changes in the wave field, creating wake zones and regions of large wave amplification. This is then exemplified in a practical case where we analyze the interaction of more realistic sea conditions with a very shallow rock in the Yellow Sea. Potentially important for navigation and erosion processes, mutatis mutandis, these results are also indicative of possible interactions with emerged islands and sand banks in shelf seas.

Age of heart disease presentation and dysmorphic nuclei in patients with LMNA mutations

PubMed Central

Core, Jason Q.; Mehrabi, Mehrsa; Robinson, Zachery R.; Ochs, Alexander R.; McCarthy, Linda A.; Zaragoza, Michael V.

2017-01-01

Nuclear shape defects are a distinguishing characteristic in laminopathies, cancers, and other pathologies. Correlating these defects to the symptoms, mechanisms, and progression of disease requires unbiased, quantitative, and high-throughput means of quantifying nuclear morphology. To accomplish this, we developed a method of automatically segmenting fluorescently stained nuclei in 2D microscopy images and then classifying them as normal or dysmorphic based on three geometric features of the nucleus using a package of Matlab codes. As a test case, cultured skin-fibroblast nuclei of individuals possessing LMNA splice-site mutation (c.357-2A>G), LMNA nonsense mutation (c.736 C>T, pQ246X) in exon 4, LMNA missense mutation (c.1003C>T, pR335W) in exon 6, Hutchinson-Gilford Progeria Syndrome, and no LMNA mutations were analyzed. For each cell type, the percentage of dysmorphic nuclei, and other morphological features such as average nuclear area and average eccentricity were obtained. Compared to blind observers, our procedure implemented in Matlab codes possessed similar accuracy to manual counting of dysmorphic nuclei while being significantly more consistent. The automatic quantification of nuclear defects revealed a correlation between in vitro results and age of patients for initial symptom onset. Our results demonstrate the method’s utility in experimental studies of diseases affecting nuclear shape through automated, unbiased, and accurate identification of dysmorphic nuclei. PMID:29149195

Age of heart disease presentation and dysmorphic nuclei in patients with LMNA mutations.

PubMed

Core, Jason Q; Mehrabi, Mehrsa; Robinson, Zachery R; Ochs, Alexander R; McCarthy, Linda A; Zaragoza, Michael V; Grosberg, Anna

2017-01-01

Nuclear shape defects are a distinguishing characteristic in laminopathies, cancers, and other pathologies. Correlating these defects to the symptoms, mechanisms, and progression of disease requires unbiased, quantitative, and high-throughput means of quantifying nuclear morphology. To accomplish this, we developed a method of automatically segmenting fluorescently stained nuclei in 2D microscopy images and then classifying them as normal or dysmorphic based on three geometric features of the nucleus using a package of Matlab codes. As a test case, cultured skin-fibroblast nuclei of individuals possessing LMNA splice-site mutation (c.357-2A>G), LMNA nonsense mutation (c.736 C>T, pQ246X) in exon 4, LMNA missense mutation (c.1003C>T, pR335W) in exon 6, Hutchinson-Gilford Progeria Syndrome, and no LMNA mutations were analyzed. For each cell type, the percentage of dysmorphic nuclei, and other morphological features such as average nuclear area and average eccentricity were obtained. Compared to blind observers, our procedure implemented in Matlab codes possessed similar accuracy to manual counting of dysmorphic nuclei while being significantly more consistent. The automatic quantification of nuclear defects revealed a correlation between in vitro results and age of patients for initial symptom onset. Our results demonstrate the method's utility in experimental studies of diseases affecting nuclear shape through automated, unbiased, and accurate identification of dysmorphic nuclei.

Predicting conformational ensembles and genome-wide transcription factor binding sites from DNA sequences.

PubMed

Andrabi, Munazah; Hutchins, Andrew Paul; Miranda-Saavedra, Diego; Kono, Hidetoshi; Nussinov, Ruth; Mizuguchi, Kenji; Ahmad, Shandar

2017-06-22

DNA shape is emerging as an important determinant of transcription factor binding beyond just the DNA sequence. The only tool for large scale DNA shape estimates, DNAshape was derived from Monte-Carlo simulations and predicts four broad and static DNA shape features, Propeller twist, Helical twist, Minor groove width and Roll. The contributions of other shape features e.g. Shift, Slide and Opening cannot be evaluated using DNAshape. Here, we report a novel method DynaSeq, which predicts molecular dynamics-derived ensembles of a more exhaustive set of DNA shape features. We compared the DNAshape and DynaSeq predictions for the common features and applied both to predict the genome-wide binding sites of 1312 TFs available from protein interaction quantification (PIQ) data. The results indicate a good agreement between the two methods for the common shape features and point to advantages in using DynaSeq. Predictive models employing ensembles from individual conformational parameters revealed that base-pair opening - known to be important in strand separation - was the best predictor of transcription factor-binding sites (TFBS) followed by features employed by DNAshape. Of note, TFBS could be predicted not only from the features at the target motif sites, but also from those as far as 200 nucleotides away from the motif.

Quantifying site-specific physical heterogeneity within an estuarine seascape

USGS Publications Warehouse

Kennedy, Cristina G.; Mather, Martha E.; Smith, Joseph M.

2017-01-01

Quantifying physical heterogeneity is essential for meaningful ecological research and effective resource management. Spatial patterns of multiple, co-occurring physical features are rarely quantified across a seascape because of methodological challenges. Here, we identified approaches that measured total site-specific heterogeneity, an often overlooked aspect of estuarine ecosystems. Specifically, we examined 23 metrics that quantified four types of common physical features: (1) river and creek confluences, (2) bathymetric variation including underwater drop-offs, (3) land features such as islands/sandbars, and (4) major underwater channel networks. Our research at 40 sites throughout Plum Island Estuary (PIE) provided solutions to two problems. The first problem was that individual metrics that measured heterogeneity of a single physical feature showed different regional patterns. We solved this first problem by combining multiple metrics for a single feature using a within-physical feature cluster analysis. With this approach, we identified sites with four different types of confluences and three different types of underwater drop-offs. The second problem was that when multiple physical features co-occurred, new patterns of total site-specific heterogeneity were created across the seascape. This pattern of total heterogeneity has potential ecological relevance to structure-oriented predators. To address this second problem, we identified sites with similar types of total physical heterogeneity using an across-physical feature cluster analysis. Then, we calculated an additive heterogeneity index, which integrated all physical features at a site. Finally, we tested if site-specific additive heterogeneity index values differed for across-physical feature clusters. In PIE, the sites with the highest additive heterogeneity index values were clustered together and corresponded to sites where a fish predator, adult striped bass (Morone saxatilis), aggregated in a related acoustic tracking study. In summary, we have shown general approaches to quantifying site-specific heterogeneity.

Lung nodule malignancy classification using only radiologist-quantified image features as inputs to statistical learning algorithms: probing the Lung Image Database Consortium dataset with two statistical learning methods

PubMed Central

Hancock, Matthew C.; Magnan, Jerry F.

2016-01-01

Abstract. In the assessment of nodules in CT scans of the lungs, a number of image-derived features are diagnostically relevant. Currently, many of these features are defined only qualitatively, so they are difficult to quantify from first principles. Nevertheless, these features (through their qualitative definitions and interpretations thereof) are often quantified via a variety of mathematical methods for the purpose of computer-aided diagnosis (CAD). To determine the potential usefulness of quantified diagnostic image features as inputs to a CAD system, we investigate the predictive capability of statistical learning methods for classifying nodule malignancy. We utilize the Lung Image Database Consortium dataset and only employ the radiologist-assigned diagnostic feature values for the lung nodules therein, as well as our derived estimates of the diameter and volume of the nodules from the radiologists’ annotations. We calculate theoretical upper bounds on the classification accuracy that are achievable by an ideal classifier that only uses the radiologist-assigned feature values, and we obtain an accuracy of 85.74 (±1.14)%, which is, on average, 4.43% below the theoretical maximum of 90.17%. The corresponding area-under-the-curve (AUC) score is 0.932 (±0.012), which increases to 0.949 (±0.007) when diameter and volume features are included and has an accuracy of 88.08 (±1.11)%. Our results are comparable to those in the literature that use algorithmically derived image-based features, which supports our hypothesis that lung nodules can be classified as malignant or benign using only quantified, diagnostic image features, and indicates the competitiveness of this approach. We also analyze how the classification accuracy depends on specific features and feature subsets, and we rank the features according to their predictive power, statistically demonstrating the top four to be spiculation, lobulation, subtlety, and calcification. PMID:27990453

Lung nodule malignancy classification using only radiologist-quantified image features as inputs to statistical learning algorithms: probing the Lung Image Database Consortium dataset with two statistical learning methods.

PubMed

Hancock, Matthew C; Magnan, Jerry F

2016-10-01

In the assessment of nodules in CT scans of the lungs, a number of image-derived features are diagnostically relevant. Currently, many of these features are defined only qualitatively, so they are difficult to quantify from first principles. Nevertheless, these features (through their qualitative definitions and interpretations thereof) are often quantified via a variety of mathematical methods for the purpose of computer-aided diagnosis (CAD). To determine the potential usefulness of quantified diagnostic image features as inputs to a CAD system, we investigate the predictive capability of statistical learning methods for classifying nodule malignancy. We utilize the Lung Image Database Consortium dataset and only employ the radiologist-assigned diagnostic feature values for the lung nodules therein, as well as our derived estimates of the diameter and volume of the nodules from the radiologists' annotations. We calculate theoretical upper bounds on the classification accuracy that are achievable by an ideal classifier that only uses the radiologist-assigned feature values, and we obtain an accuracy of 85.74 [Formula: see text], which is, on average, 4.43% below the theoretical maximum of 90.17%. The corresponding area-under-the-curve (AUC) score is 0.932 ([Formula: see text]), which increases to 0.949 ([Formula: see text]) when diameter and volume features are included and has an accuracy of 88.08 [Formula: see text]. Our results are comparable to those in the literature that use algorithmically derived image-based features, which supports our hypothesis that lung nodules can be classified as malignant or benign using only quantified, diagnostic image features, and indicates the competitiveness of this approach. We also analyze how the classification accuracy depends on specific features and feature subsets, and we rank the features according to their predictive power, statistically demonstrating the top four to be spiculation, lobulation, subtlety, and calcification.

Mathematical morphology-based shape feature analysis for Chinese character recognition systems

NASA Astrophysics Data System (ADS)

Pai, Tun-Wen; Shyu, Keh-Hwa; Chen, Ling-Fan; Tai, Gwo-Chin

1995-04-01

This paper proposes an efficient technique of shape feature extraction based on the application of mathematical morphology theory. A new shape complexity index for preclassification of machine printed Chinese Character Recognition (CCR) is also proposed. For characters represented in different fonts/sizes or in a low resolution environment, a more stable local feature such as shape structure is preferred for character recognition. Morphological valley extraction filters are applied to extract the protrusive strokes from four sides of an input Chinese character. The number of extracted local strokes reflects the shape complexity of each side. These shape features of characters are encoded as corresponding shape complexity indices. Based on the shape complexity index, data base is able to be classified into 16 groups prior to recognition procedures. The performance of associating with shape feature analysis reclaims several characters from misrecognized character sets and results in an average of 3.3% improvement of recognition rate from an existing recognition system. In addition to enhance the recognition performance, the extracted stroke information can be further analyzed and classified its own stroke type. Therefore, the combination of extracted strokes from each side provides a means for data base clustering based on radical or subword components. It is one of the best solutions for recognizing high complexity characters such as Chinese characters which are divided into more than 200 different categories and consist more than 13,000 characters.

The guidance of visual search by shape features and shape configurations.

PubMed

McCants, Cody W; Berggren, Nick; Eimer, Martin

2018-03-01

Representations of target features (attentional templates) guide attentional object selection during visual search. In many search tasks, targets objects are defined not by a single feature but by the spatial configuration of their component shapes. We used electrophysiological markers of attentional selection processes to determine whether the guidance of shape configuration search is entirely part-based or sensitive to the spatial relationship between shape features. Participants searched for targets defined by the spatial arrangement of two shape components (e.g., hourglass above circle). N2pc components were triggered not only by targets but also by partially matching distractors with one target shape (e.g., hourglass above hexagon) and by distractors that contained both target shapes in the reverse arrangement (e.g., circle above hourglass), in line with part-based attentional control. Target N2pc components were delayed when a reverse distractor was present on the opposite side of the same display, suggesting that early shape-specific attentional guidance processes could not distinguish between targets and reverse distractors. The control of attention then became sensitive to spatial configuration, which resulted in a stronger attentional bias for target objects relative to reverse and partially matching distractors. Results demonstrate that search for target objects defined by the spatial arrangement of their component shapes is initially controlled in a feature-based fashion but can later be guided by templates for spatial configurations. (PsycINFO Database Record (c) 2018 APA, all rights reserved).

Experience improves feature extraction in Drosophila.

PubMed

Peng, Yueqing; Xi, Wang; Zhang, Wei; Zhang, Ke; Guo, Aike

2007-05-09

Previous exposure to a pattern in the visual scene can enhance subsequent recognition of that pattern in many species from honeybees to humans. However, whether previous experience with a visual feature of an object, such as color or shape, can also facilitate later recognition of that particular feature from multiple visual features is largely unknown. Visual feature extraction is the ability to select the key component from multiple visual features. Using a visual flight simulator, we designed a novel protocol for visual feature extraction to investigate the effects of previous experience on visual reinforcement learning in Drosophila. We found that, after conditioning with a visual feature of objects among combinatorial shape-color features, wild-type flies exhibited poor ability to extract the correct visual feature. However, the ability for visual feature extraction was greatly enhanced in flies trained previously with that visual feature alone. Moreover, we demonstrated that flies might possess the ability to extract the abstract category of "shape" but not a particular shape. Finally, this experience-dependent feature extraction is absent in flies with defective MBs, one of the central brain structures in Drosophila. Our results indicate that previous experience can enhance visual feature extraction in Drosophila and that MBs are required for this experience-dependent visual cognition.

Binding of intrinsic and extrinsic features in working memory.

PubMed

Ecker, Ullrich K H; Maybery, Murray; Zimmer, Hubert D

2013-02-01

There is ongoing debate concerning the mechanisms of feature binding in working memory. In particular, there is controversy regarding the extent to which these binding processes are automatic. The present article demonstrates that binding mechanisms differ depending on whether the to-be-integrated features are perceived as forming a coherent object. We presented a series of experiments that investigated the binding of color and shape, whereby color was either an intrinsic feature of the shape or an extrinsic feature of the shape's background. Results show that intrinsic color affected shape recognition, even when it was incidentally studied and irrelevant for the recognition task. In contrast, extrinsic color did not affect shape recognition, even when the association of color and shape was encoded and retrievable on demand. This strongly suggests that binding of intrinsic intra-item information but not extrinsic contextual information is obligatory in visual working memory. We highlight links to perception as well as implicit and explicit long-term memory, which suggest that the intrinsic-extrinsic dimension is a principle relevant to multiple domains of human cognition. 2013 APA, all rights reserved

Preparation and characterization of triple shape memory composite foams.

PubMed

Nejad, Hossein Birjandi; Baker, Richard M; Mather, Patrick T

2014-10-28

Foams prepared from shape memory polymers (SMPs) offer the potential for low density materials that can be triggered to deploy with a large volume change, unlike their solid counterparts that do so at near-constant volume. While examples of shape memory foams have been reported in the past, they have been limited to dual SMPs: those polymers featuring one switching transition between an arbitrarily programmed shape and a single permanent shape established by constituent crosslinks. Meanwhile, advances by SMP researchers have led to several approaches toward triple- or multi-shape polymers that feature more than one switching phase and thus a multitude of temporary shapes allowing for a complex sequence of shape deployments. Here, we report the design, preparation, and characterization of a triple shape memory polymeric foam that is open cell in nature and features a two phase, crosslinked SMP with a glass transition temperature of one phase at a temperature lower than a melting transition of the second phase. The soft materials were observed to feature high fidelity, repeatable triple shape behavior, characterized in compression and demonstrated for complex deployment by fixing a combination of foam compression and bending. We further explored the wettability of the foams, revealing composition-dependent behavior favorable for future work in biomedical investigations.

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.

Correlative feature analysis of FFDM images

NASA Astrophysics Data System (ADS)

Yuan, Yading; Giger, Maryellen L.; Li, Hui; Sennett, Charlene

2008-03-01

Identifying the corresponding image pair of a lesion is an essential step for combining information from different views of the lesion to improve the diagnostic ability of both radiologists and CAD systems. Because of the non-rigidity of the breasts and the 2D projective property of mammograms, this task is not trivial. In this study, we present a computerized framework that differentiates the corresponding images from different views of a lesion from non-corresponding ones. A dual-stage segmentation method, which employs an initial radial gradient index(RGI) based segmentation and an active contour model, was initially applied to extract mass lesions from the surrounding tissues. Then various lesion features were automatically extracted from each of the two views of each lesion to quantify the characteristics of margin, shape, size, texture and context of the lesion, as well as its distance to nipple. We employed a two-step method to select an effective subset of features, and combined it with a BANN to obtain a discriminant score, which yielded an estimate of the probability that the two images are of the same physical lesion. ROC analysis was used to evaluate the performance of the individual features and the selected feature subset in the task of distinguishing between corresponding and non-corresponding pairs. By using a FFDM database with 124 corresponding image pairs and 35 non-corresponding pairs, the distance feature yielded an AUC (area under the ROC curve) of 0.8 with leave-one-out evaluation by lesion, and the feature subset, which includes distance feature, lesion size and lesion contrast, yielded an AUC of 0.86. The improvement by using multiple features was statistically significant as compared to single feature performance. (p<0.001)

A quantitative study of shape descriptors from glioblastoma multiforme phenotypes for predicting survival outcome

PubMed Central

Desrosiers, Christian; Hassan, Lama; Tanougast, Camel

2016-01-01

Objective: Predicting the survival outcome of patients with glioblastoma multiforme (GBM) is of key importance to clinicians for selecting the optimal course of treatment. The goal of this study was to evaluate the usefulness of geometric shape features, extracted from MR images, as a potential non-invasive way to characterize GBM tumours and predict the overall survival times of patients with GBM. Methods: The data of 40 patients with GBM were obtained from the Cancer Genome Atlas and Cancer Imaging Archive. The T1 weighted post-contrast and fluid-attenuated inversion-recovery volumes of patients were co-registered and segmented into delineate regions corresponding to three GBM phenotypes: necrosis, active tumour and oedema/invasion. A set of two-dimensional shape features were then extracted slicewise from each phenotype region and combined over slices to describe the three-dimensional shape of these phenotypes. Thereafter, a Kruskal–Wallis test was employed to identify shape features with significantly different distributions across phenotypes. Moreover, a Kaplan–Meier analysis was performed to find features strongly associated with GBM survival. Finally, a multivariate analysis based on the random forest model was used for predicting the survival group of patients with GBM. Results: Our analysis using the Kruskal–Wallis test showed that all but one shape feature had statistically significant differences across phenotypes, with p-value < 0.05, following Holm–Bonferroni correction, justifying the analysis of GBM tumour shapes on a per-phenotype basis. Furthermore, the survival analysis based on the Kaplan–Meier estimator identified three features derived from necrotic regions (i.e. Eccentricity, Extent and Solidity) that were significantly correlated with overall survival (corrected p-value < 0.05; hazard ratios between 1.68 and 1.87). In the multivariate analysis, features from necrotic regions gave the highest accuracy in predicting the survival group of patients, with a mean area under the receiver-operating characteristic curve (AUC) of 63.85%. Combining the features of all three phenotypes increased the mean AUC to 66.99%, suggesting that shape features from different phenotypes can be used in a synergic manner to predict GBM survival. Conclusion: Results show that shape features, in particular those extracted from necrotic regions, can be used effectively to characterize GBM tumours and predict the overall survival of patients with GBM. Advances in knowledge: Simple volumetric features have been largely used to characterize the different phenotypes of a GBM tumour (i.e. active tumour, oedema and necrosis). This study extends previous work by considering a wide range of shape features, extracted in different phenotypes, for the prediction of survival in patients with GBM. PMID:27781499

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

Vibration mode shape recognition using image processing

NASA Astrophysics Data System (ADS)

Wang, Weizhuo; Mottershead, John E.; Mares, Cristinel

2009-10-01

Currently the most widely used method for comparing mode shapes from finite elements and experimental measurements is the modal assurance criterion (MAC), which can be interpreted as the cosine of the angle between the numerical and measured eigenvectors. However, the eigenvectors only contain the displacement of discrete coordinates, so that the MAC index carries no explicit information on shape features. New techniques, based upon the well-developed philosophies of image processing (IP) and pattern recognition (PR) are considered in this paper. The Zernike moment descriptor (ZMD), Fourier descriptor (FD), and wavelet descriptor (WD) are the most popular shape descriptors due to their outstanding properties in IP and PR. These include (1) for the ZMD-rotational invariance, expression and computing efficiency, ease of reconstruction and robustness to noise; (2) for the FD—separation of the global shape and shape-details by low and high frequency components, respectively, invariance under geometric transformation; (3) for the WD—multi-scale representation and local feature detection. Once a shape descriptor has been adopted, the comparison of mode shapes is transformed to a comparison of multidimensional shape feature vectors. Deterministic and statistical methods are presented. The deterministic problem of measuring the degree of similarity between two mode shapes (possibly one from a vibration test and the other from a finite element model) may be carried out using Pearson's correlation. Similar shape feature vectors may be arranged in clusters separated by Euclidian distances in the feature space. In the statistical analysis we are typically concerned with the classification of a test mode shape according to clusters of shape feature vectors obtained from a randomised finite element model. The dimension of the statistical problem may often be reduced by principal component analysis. Then, in addition to the Euclidian distance, the Mahalanobis distance, defining the separation of the test point from the cluster in terms of its standard deviation, becomes an important measure. Bayesian decision theory may be applied to formally minimise the risk of misclassification of the test shape feature vector. In this paper the ZMD is applied to the problem of mode shape recognition for a circular plate. Results show that the ZMD has considerable advantages over the traditional MAC index when identifying the cyclically symmetric mode shapes that occur in axisymmetric structures at identical frequencies. Mode shape recognition of rectangular plates is carried out by the FD. Also, the WD is applied to the problem of recognising the mode shapes in the thin and thick regions of a plate with different thicknesses. It shows the benefit of using the WD to identify mode-shapes having both local and global components. The comparison and classification of mode shapes using IP and PR provides a 'toolkit' to complement the conventional MAC approach. The selection of a particular shape descriptor and classification method will depend upon the problem in hand and the experience of the analyst.

Quantifying the effect of colorization enhancement on mammogram images

NASA Astrophysics Data System (ADS)

Wojnicki, Paul J.; Uyeda, Elizabeth; Micheli-Tzanakou, Evangelia

2002-04-01

Current methods of radiological displays provide only grayscale images of mammograms. The limitation of the image space to grayscale provides only luminance differences and textures as cues for object recognition within the image. However, color can be an important and significant cue in the detection of shapes and objects. Increasing detection ability allows the radiologist to interpret the images in more detail, improving object recognition and diagnostic accuracy. Color detection experiments using our stimulus system, have demonstrated that an observer can only detect an average of 140 levels of grayscale. An optimally colorized image can allow a user to distinguish 250 - 1000 different levels, hence increasing potential image feature detection by 2-7 times. By implementing a colorization map, which follows the luminance map of the original grayscale images, the luminance profile is preserved and color is isolated as the enhancement mechanism. The effect of this enhancement mechanism on the shape, frequency composition and statistical characteristics of the Visual Evoked Potential (VEP) are analyzed and presented. Thus, the effectiveness of the image colorization is measured quantitatively using the Visual Evoked Potential (VEP).

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

Lepori, Francesca; Viel, Matteo; Baccigalupi, Carlo

We investigate the Alcock Paczy'nski (AP) test applied to the Baryon Acoustic Oscillation (BAO) feature in the galaxy correlation function. By using a general formalism that includes relativistic effects, we quantify the importance of the linear redshift space distortions and gravitational lensing corrections to the galaxy number density fluctuation. We show that redshift space distortions significantly affect the shape of the correlation function, both in radial and transverse directions, causing different values of galaxy bias to induce offsets up to 1% in the AP test. On the other hand, we find that the lensing correction around the BAO scale modifiesmore » the amplitude but not the shape of the correlation function and therefore does not introduce any systematic effect. Furthermore, we investigate in details how the AP test is sensitive to redshift binning: a window function in transverse direction suppresses correlations and shifts the peak position toward smaller angular scales. We determine the correction that should be applied in order to account for this effect, when performing the test with data from three future planned galaxy redshift surveys: Euclid, the Dark Energy Spectroscopic Instrument (DESI) and the Square Kilometer Array (SKA).« less

A Sorting Statistic with Application in Neurological Magnetic Resonance Imaging of Autism.

PubMed

Levman, Jacob; Takahashi, Emi; Forgeron, Cynthia; MacDonald, Patrick; Stewart, Natalie; Lim, Ashley; Martel, Anne

2018-01-01

Effect size refers to the assessment of the extent of differences between two groups of samples on a single measurement. Assessing effect size in medical research is typically accomplished with Cohen's d statistic. Cohen's d statistic assumes that average values are good estimators of the position of a distribution of numbers and also assumes Gaussian (or bell-shaped) underlying data distributions. In this paper, we present an alternative evaluative statistic that can quantify differences between two data distributions in a manner that is similar to traditional effect size calculations; however, the proposed approach avoids making assumptions regarding the shape of the underlying data distribution. The proposed sorting statistic is compared with Cohen's d statistic and is demonstrated to be capable of identifying feature measurements of potential interest for which Cohen's d statistic implies the measurement would be of little use. This proposed sorting statistic has been evaluated on a large clinical autism dataset from Boston Children's Hospital , Harvard Medical School , demonstrating that it can potentially play a constructive role in future healthcare technologies.

A Sorting Statistic with Application in Neurological Magnetic Resonance Imaging of Autism

PubMed Central

Takahashi, Emi; Lim, Ashley; Martel, Anne

2018-01-01

Effect size refers to the assessment of the extent of differences between two groups of samples on a single measurement. Assessing effect size in medical research is typically accomplished with Cohen's d statistic. Cohen's d statistic assumes that average values are good estimators of the position of a distribution of numbers and also assumes Gaussian (or bell-shaped) underlying data distributions. In this paper, we present an alternative evaluative statistic that can quantify differences between two data distributions in a manner that is similar to traditional effect size calculations; however, the proposed approach avoids making assumptions regarding the shape of the underlying data distribution. The proposed sorting statistic is compared with Cohen's d statistic and is demonstrated to be capable of identifying feature measurements of potential interest for which Cohen's d statistic implies the measurement would be of little use. This proposed sorting statistic has been evaluated on a large clinical autism dataset from Boston Children's Hospital, Harvard Medical School, demonstrating that it can potentially play a constructive role in future healthcare technologies. PMID:29796236

Photogrammetric Verification of Fiber Optic Shape Sensors on Flexible Aerospace Structures

NASA Technical Reports Server (NTRS)

Moore, Jason P.; Rogge, Matthew D.; Jones, Thomas W.

2012-01-01

Multi-core fiber (MCF) optic shape sensing offers the possibility of providing in-flight shape measurements of highly flexible aerospace structures and control surfaces for such purposes as gust load alleviation, flutter suppression, general flight control and structural health monitoring. Photogrammetric measurements of surface mounted MCF shape sensing cable can be used to quantify the MCF installation path and verify measurement methods.

The shape of facial features and the spacing among them generate similar inversion effects: a reply to Rossion (2008).

PubMed

Yovel, Galit

2009-11-01

It is often argued that picture-plane face inversion impairs discrimination of the spacing among face features to a greater extent than the identity of the facial features. However, several recent studies have reported similar inversion effects for both types of face manipulations. In a recent review, Rossion (2008) claimed that similar inversion effects for spacing and features are due to methodological and conceptual shortcomings and that data still support the idea that inversion impairs the discrimination of features less than that of the spacing among them. Here I will claim that when facial features differ primarily in shape, the effect of inversion on features is not smaller than the one on spacing. It is when color/contrast information is added to facial features that the inversion effect on features decreases. This obvious observation accounts for the discrepancy in the literature and suggests that the large inversion effect that was found for features that differ in shape is not a methodological artifact. These findings together with other data that are discussed are consistent with the idea that the shape of facial features and the spacing among them are integrated rather than dissociated in the holistic representation of faces.

Set Size, Individuation, and Attention to Shape

ERIC Educational Resources Information Center

Cantrell, Lisa; Smith, Linda B.

2013-01-01

Much research has demonstrated a shape bias in categorizing and naming solid objects. This research has shown that when an entity is conceptualized as an individual object, adults and children attend to the object's shape. Separate research in the domain of numerical cognition suggest that there are distinct processes for quantifying small and…

Adaptive feature selection using v-shaped binary particle swarm optimization.

PubMed

Teng, Xuyang; Dong, Hongbin; Zhou, Xiurong

2017-01-01

Feature selection is an important preprocessing method in machine learning and data mining. This process can be used not only to reduce the amount of data to be analyzed but also to build models with stronger interpretability based on fewer features. Traditional feature selection methods evaluate the dependency and redundancy of features separately, which leads to a lack of measurement of their combined effect. Moreover, a greedy search considers only the optimization of the current round and thus cannot be a global search. To evaluate the combined effect of different subsets in the entire feature space, an adaptive feature selection method based on V-shaped binary particle swarm optimization is proposed. In this method, the fitness function is constructed using the correlation information entropy. Feature subsets are regarded as individuals in a population, and the feature space is searched using V-shaped binary particle swarm optimization. The above procedure overcomes the hard constraint on the number of features, enables the combined evaluation of each subset as a whole, and improves the search ability of conventional binary particle swarm optimization. The proposed algorithm is an adaptive method with respect to the number of feature subsets. The experimental results show the advantages of optimizing the feature subsets using the V-shaped transfer function and confirm the effectiveness and efficiency of the feature subsets obtained under different classifiers.

Adaptive feature selection using v-shaped binary particle swarm optimization

PubMed Central

Dong, Hongbin; Zhou, Xiurong

2017-01-01

Feature selection is an important preprocessing method in machine learning and data mining. This process can be used not only to reduce the amount of data to be analyzed but also to build models with stronger interpretability based on fewer features. Traditional feature selection methods evaluate the dependency and redundancy of features separately, which leads to a lack of measurement of their combined effect. Moreover, a greedy search considers only the optimization of the current round and thus cannot be a global search. To evaluate the combined effect of different subsets in the entire feature space, an adaptive feature selection method based on V-shaped binary particle swarm optimization is proposed. In this method, the fitness function is constructed using the correlation information entropy. Feature subsets are regarded as individuals in a population, and the feature space is searched using V-shaped binary particle swarm optimization. The above procedure overcomes the hard constraint on the number of features, enables the combined evaluation of each subset as a whole, and improves the search ability of conventional binary particle swarm optimization. The proposed algorithm is an adaptive method with respect to the number of feature subsets. The experimental results show the advantages of optimizing the feature subsets using the V-shaped transfer function and confirm the effectiveness and efficiency of the feature subsets obtained under different classifiers. PMID:28358850

Energy Development in Colorado's Pawnee National Grasslands: Mapping and Measuring the Disturbance Footprint of Renewables and Non-Renewables.

PubMed

Baynard, Chris W; Mjachina, Ksenya; Richardson, Robert D; Schupp, Robert W; Lambert, J David; Chibilyev, Alexander A

2017-06-01

This paper examines the pattern and extent of energy development in steppe landscapes of northeast Colorado, United States. We compare the landscape disturbance created by oil and gas production to that of wind energy inside the Pawnee National Grasslands eastern side. This high-steppe landscape consists of a mosaic of federal, state, and private lands where dominant economic activities include ranching, agriculture, tourism, oil and gas extraction, and wind energy generation. Utilizing field surveys, remote sensing data and geographic information systems techniques, we quantify and map the footprint of energy development at the landscape level. Findings suggest that while oil and gas and wind energy development have resulted in a relatively small amount of habitat loss within the study area, the footprint stretches across the entire zone, fragmenting this mostly grassland habitat. Futhermore, a third feature of this landscape, the non-energy transportation network, was also found to have a significant impact. Combined, these three features fragment the entire Pawnee National Grasslands eastern side, leaving very few large intact core, or roadless areas. The primary objective of this ongoing work is to create a series of quantifiable and replicable surface disturbance indicators linked to energy production in semi-arid grassland environments. Based on these, and future results, we aim to work with industry and regulators to shape energy policy as it relates to environmental performance, with the aim of reducing the footprint and thus increasing the sustainability of these extractive activities.

Energy Development in Colorado's Pawnee National Grasslands: Mapping and Measuring the Disturbance Footprint of Renewables and Non-Renewables

NASA Astrophysics Data System (ADS)

Baynard, Chris W.; Mjachina, Ksenya; Richardson, Robert D.; Schupp, Robert W.; Lambert, J. David; Chibilyev, Alexander A.

2017-06-01

This paper examines the pattern and extent of energy development in steppe landscapes of northeast Colorado, United States. We compare the landscape disturbance created by oil and gas production to that of wind energy inside the Pawnee National Grasslands eastern side. This high-steppe landscape consists of a mosaic of federal, state, and private lands where dominant economic activities include ranching, agriculture, tourism, oil and gas extraction, and wind energy generation. Utilizing field surveys, remote sensing data and geographic information systems techniques, we quantify and map the footprint of energy development at the landscape level. Findings suggest that while oil and gas and wind energy development have resulted in a relatively small amount of habitat loss within the study area, the footprint stretches across the entire zone, fragmenting this mostly grassland habitat. Futhermore, a third feature of this landscape, the non-energy transportation network, was also found to have a significant impact. Combined, these three features fragment the entire Pawnee National Grasslands eastern side, leaving very few large intact core, or roadless areas. The primary objective of this ongoing work is to create a series of quantifiable and replicable surface disturbance indicators linked to energy production in semi-arid grassland environments. Based on these, and future results, we aim to work with industry and regulators to shape energy policy as it relates to environmental performance, with the aim of reducing the footprint and thus increasing the sustainability of these extractive activities.

Continental-scale quantification of landscape values using social media data.

PubMed

van Zanten, Boris T; Van Berkel, Derek B; Meentemeyer, Ross K; Smith, Jordan W; Tieskens, Koen F; Verburg, Peter H

2016-11-15

Individuals, communities, and societies ascribe a diverse array of values to landscapes. These values are shaped by the aesthetic, cultural, and recreational benefits and services provided by those landscapes. However, across the globe, processes such as urbanization, agricultural intensification, and abandonment are threatening landscape integrity, altering the personally meaningful connections people have toward specific places. Existing methods used to study landscape values, such as social surveys, are poorly suited to capture dynamic landscape-scale processes across large geographic extents. Social media data, by comparison, can be used to indirectly measure and identify valuable features of landscapes at a regional, continental, and perhaps even worldwide scale. We evaluate the usefulness of different social media platforms-Panoramio, Flickr, and Instagram-and quantify landscape values at a continental scale. We find Panoramio, Flickr, and Instagram data can be used to quantify landscape values, with features of Instagram being especially suitable due to its relatively large population of users and its functional ability of allowing users to attach personally meaningful comments and hashtags to their uploaded images. Although Panoramio, Flickr, and Instagram have different user profiles, our analysis revealed similar patterns of landscape values across Europe across the three platforms. We also found variables describing accessibility, population density, income, mountainous terrain, or proximity to water explained a significant portion of observed variation across data from the different platforms. Social media data can be used to extend our understanding of how and where individuals ascribe value to landscapes across diverse social, political, and ecological boundaries.

Continental-scale quantification of landscape values using social media data

PubMed Central

van Zanten, Boris T.; Van Berkel, Derek B.; Meentemeyer, Ross K.; Smith, Jordan W.; Tieskens, Koen F.

2016-01-01

Individuals, communities, and societies ascribe a diverse array of values to landscapes. These values are shaped by the aesthetic, cultural, and recreational benefits and services provided by those landscapes. However, across the globe, processes such as urbanization, agricultural intensification, and abandonment are threatening landscape integrity, altering the personally meaningful connections people have toward specific places. Existing methods used to study landscape values, such as social surveys, are poorly suited to capture dynamic landscape-scale processes across large geographic extents. Social media data, by comparison, can be used to indirectly measure and identify valuable features of landscapes at a regional, continental, and perhaps even worldwide scale. We evaluate the usefulness of different social media platforms—Panoramio, Flickr, and Instagram—and quantify landscape values at a continental scale. We find Panoramio, Flickr, and Instagram data can be used to quantify landscape values, with features of Instagram being especially suitable due to its relatively large population of users and its functional ability of allowing users to attach personally meaningful comments and hashtags to their uploaded images. Although Panoramio, Flickr, and Instagram have different user profiles, our analysis revealed similar patterns of landscape values across Europe across the three platforms. We also found variables describing accessibility, population density, income, mountainous terrain, or proximity to water explained a significant portion of observed variation across data from the different platforms. Social media data can be used to extend our understanding of how and where individuals ascribe value to landscapes across diverse social, political, and ecological boundaries. PMID:27799537

Quantifying Morphological Features of α-U3O8 with Image Analysis for Nuclear Forensics.

PubMed

Olsen, Adam M; Richards, Bryony; Schwerdt, Ian; Heffernan, Sean; Lusk, Robert; Smith, Braxton; Jurrus, Elizabeth; Ruggiero, Christy; McDonald, Luther W

2017-03-07

Morphological changes in U 3 O 8 based on calcination temperature have been quantified enabling a morphological feature to serve as a signature of processing history in nuclear forensics. Five separate calcination temperatures were used to synthesize α-U 3 O 8 , and each sample was characterized using powder X-ray diffraction (p-XRD) and scanning electron microscopy (SEM). The p-XRD spectra were used to evaluate the purity of the synthesized U-oxide; the morphological analysis for materials (MAMA) software was utilized to quantitatively characterize the particle shape and size as indicated by the SEM images. Analysis comparing the particle attributes, such as particle area at each of the temperatures, was completed using the Kolmogorov-Smirnov two sample test (K-S test). These results illustrate a distinct statistical difference between each calcination temperature. To provide a framework for forensic analysis of an unknown sample, the sample distributions at each temperature were compared to randomly selected distributions (100, 250, 500, and 750 particles) from each synthesized temperature to determine if they were statistically different. It was found that 750 particles were required to differentiate between all of the synthesized temperatures with a confidence interval of 99.0%. Results from this study provide the first quantitative morphological study of U-oxides, and reveals the potential strength of morphological particle analysis in nuclear forensics by providing a framework for a more rapid characterization of interdicted uranium oxide samples.

A new ring-shape high-temperature superconducting trapped-field magnet

NASA Astrophysics Data System (ADS)

Sheng, Jie; Zhang, Min; Wang, Yawei; Li, Xiaojian; Patel, Jay; Yuan, Weijia

2017-09-01

This paper presents a new trapped-field magnet made of second-generation high-temperature superconducting (2G HTS) rings. This so-called ring-shape 2G HTS magnet has the potential to provide much stronger magnetic fields relative to existing permanent magnets. Compared to existing 2G HTS trapped- field magnets, e.g. 2G HTS bulks and stacks, this new ring-shape 2G HTS magnet is more flexible in size and can be made into magnets with large dimensions for industrial applications. Effective magnetization is the key to being able to use trapped-field magnets. Therefore, this paper focuses on the magnetization mechanism of this new magnet using both experimental and numerical methods. Unique features have been identified and quantified for this new type of HTS magnet in the field cooling and zero field cooling process. The magnetization mechanism can be understood by the interaction between shielding currents and the penetration of external magnetic fields. An accumulation in the trapped field was observed by using multiple pulse field cooling. Three types of demagnetization were studied to measure the trapped-field decay for practical applications. Our results show that this new ring-shape HTS magnet is very promising in the trapping of a high magnetic field. As a super-permanent magnet, it will have a significant impact on large-scale industrial applications, e.g. the development of HTS machines with a very high power density and HTS magnetic resonance imaging devices.

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

Krasheninnikov, S. I.

The equations of motion of a dust grain with non-spherical shape in plasma are generalized by incorporating the effects associated with propeller-like features of the grain's shape. For the grain shape close to rotationally symmetric, the stability of “stationary” (in terms of variables used in the grain dynamic equations) solutions are considered. It is found that propeller-like features of the grain's shape can crucially alter stability of such “stationary” states.

Effect of quench on alpha/beta pulse shape discrimination of liquid scintillation cocktails.

PubMed

DeVol, Timothy A; Theisen, Christopher D; DiPrete, David P

2007-05-01

The objectives of this paper are (1) to illustrate that knowledge of the external quench parameter is insufficient to properly setup a pulse shape discriminating liquid scintillation counter (LSC) for quantitative measurement, (2) to illustrate dependence on pulse shape discrimination on the radionuclide (more than just radiation and energy), and (3) to compare the pulse shape discrimination (PSD) of two commercial instruments. The effects various quenching agents, liquid scintillation cocktails, radionuclides, and LSCs have on alpha/beta pulse shape discriminating liquid scintillation counting were quantified. Alpha emitting radionuclides (239)Pu and (241)Am and beta emitter (90)Sr/(90)Y were investigated to quantify the nuclide dependence on alpha/beta pulse shape discrimination. Also, chemical and color quenching agents, nitromethane, nitric acid, and yellow dye impact on alpha/beta pulse shape discrimination using PerkinElmer Optiphase "HiSafe" 2 and 3, and Ultima Gold AB liquid scintillation cocktails were determined. The prepared samples were counted on the PerkinElmer Wallac WinSpectral 1414 alpha/beta pulse shape discriminating LSC. It was found that for the same level of quench, as measured by the external quench parameter, different quench agents influenced the pulse shape discrimination and the pulse shape discrimination parameters differently. The radionuclide also affects alpha/beta pulse shape discrimination. By comparison with the PerkinElmer Tri-carb 3150 TR/AB, the Wallac 1414 exhibited better pulse shape discrimination capability under the same experimental conditions.

The Morphology of the Rat Vibrissal Array: A Model for Quantifying Spatiotemporal Patterns of Whisker-Object Contact

PubMed Central

Gopal, Venkatesh; Solomon, Joseph H.; Hartmann, Mitra J. Z.

2011-01-01

In all sensory modalities, the data acquired by the nervous system is shaped by the biomechanics, material properties, and the morphology of the peripheral sensory organs. The rat vibrissal (whisker) system is one of the premier models in neuroscience to study the relationship between physical embodiment of the sensor array and the neural circuits underlying perception. To date, however, the three-dimensional morphology of the vibrissal array has not been characterized. Quantifying array morphology is important because it directly constrains the mechanosensory inputs that will be generated during behavior. These inputs in turn shape all subsequent neural processing in the vibrissal-trigeminal system, from the trigeminal ganglion to primary somatosensory (“barrel”) cortex. Here we develop a set of equations for the morphology of the vibrissal array that accurately describes the location of every point on every whisker to within ±5% of the whisker length. Given only a whisker's identity (row and column location within the array), the equations establish the whisker's two-dimensional (2D) shape as well as three-dimensional (3D) position and orientation. The equations were developed via parameterization of 2D and 3D scans of six rat vibrissal arrays, and the parameters were specifically chosen to be consistent with those commonly measured in behavioral studies. The final morphological model was used to simulate the contact patterns that would be generated as a rat uses its whiskers to tactually explore objects with varying curvatures. The simulations demonstrate that altering the morphology of the array changes the relationship between the sensory signals acquired and the curvature of the object. The morphology of the vibrissal array thus directly constrains the nature of the neural computations that can be associated with extraction of a particular object feature. These results illustrate the key role that the physical embodiment of the sensor array plays in the sensing process. PMID:21490724

Terrain feature recognition for synthetic aperture radar (SAR) imagery employing spatial attributes of targets

NASA Astrophysics Data System (ADS)

Iisaka, Joji; Sakurai-Amano, Takako

1994-08-01

This paper describes an integrated approach to terrain feature detection and several methods to estimate spatial information from SAR (synthetic aperture radar) imagery. Spatial information of image features as well as spatial association are key elements in terrain feature detection. After applying a small feature preserving despeckling operation, spatial information such as edginess, texture (smoothness), region-likeliness and line-likeness of objects, target sizes, and target shapes were estimated. Then a trapezoid shape fuzzy membership function was assigned to each spatial feature attribute. Fuzzy classification logic was employed to detect terrain features. Terrain features such as urban areas, mountain ridges, lakes and other water bodies as well as vegetated areas were successfully identified from a sub-image of a JERS-1 SAR image. In the course of shape analysis, a quantitative method was developed to classify spatial patterns by expanding a spatial pattern through the use of a series of pattern primitives.

A Novel Approach for Using Dielectric Spectroscopy to Predict Viable Cell Volume (VCV) in Early Process Development

PubMed Central

Downey, Brandon J; Graham, Lisa J; Breit, Jeffrey F; Glutting, Nathaniel K

2014-01-01

Online monitoring of viable cell volume (VCV) is essential to the development, monitoring, and control of bioprocesses. The commercial availability of steam-sterilizable dielectric-spectroscopy probes has enabled successful adoption of this technology as a key noninvasive method to measure VCV for cell-culture processes. Technological challenges still exist, however. For some cell lines, the technique's accuracy in predicting the VCV from probe-permittivity measurements declines as the viability of the cell culture decreases. To investigate the cause of this decrease in accuracy, divergences in predicted vs. actual VCV measurements were directly related to the shape of dielectric frequency scans collected during a cell culture. The changes in the shape of the beta dispersion, which are associated with changes in cell state, are quantified by applying a novel “area ratio” (AR) metric to frequency-scanning data from the dielectric-spectroscopy probes. The AR metric is then used to relate the shape of the beta dispersion to single-frequency permittivity measurements to accurately predict the offline VCV throughout an entire fed-batch run, regardless of cell state. This work demonstrates the possible feasibility of quantifying the shape of the beta dispersion, determined from frequency-scanning data, for enhanced measurement of VCV in mammalian cell cultures by applying a novel shape-characterization technique. In addition, this work demonstrates the utility of using changes in the shape of the beta dispersion to quantify cell health. © 2013 American Institute of Chemical Engineers Biotechnol. Prog., 30:479–487, 2014 PMID:24851255

Ontogenetic and static allometry in the human face: contrasting Khoisan and Inuit.

PubMed

Freidline, Sarah E; Gunz, Philipp; Hublin, Jean-Jacques

2015-09-01

Regional differences in modern human facial features are present at birth, and ontogenetic allometry contributes to variation in adults. However, details regarding differential rates of growth and timing among regional groups are lacking. We explore ontogenetic and static allometry in a cross-sectional sample spanning Africa, Europe and North America, and evaluate tempo and mode in two regional groups with very different adult facial morphology, the Khoisan and Inuit. Semilandmark geometric morphometric methods, multivariate statistics and growth simulations were used to quantify and compare patterns of facial growth and development. Regional-specific facial morphology develops early in ontogeny. The Inuit has the most distinct morphology and exhibits heterochronic differences in development compared to other regional groups. Allometric patterns differ during early postnatal development, when significant increases in size are coupled with large amounts of shape changes. All regional groups share a common adult static allometric trajectory, which can be attributed to sexual dimorphism, and the corresponding allometric shape changes resemble developmental patterns during later ontogeny. The amount and pattern of growth and development may not be shared between regional groups, indicating that a certain degree of flexibility is allowed for in order to achieve adult size. In early postnatal development the face is less constrained compared to other parts of the cranium allowing for greater evolvability. The early development of region-specific facial features combined with heterochronic differences in timing or rate of growth, reflected in differences in facial size, suggest different patterns of postnatal growth. © 2015 Wiley Periodicals, Inc.

Terrain shape index: quantifying effect of minor landforms on tree height

Treesearch

W. Henry McNab

1989-01-01

In the southern Appalachians, the distribution and growth of trees are highly correlated with local topography, but the relationships have been ditficult to describe quantitatively. A quantitative expression of the geometric shape of the land surface (terrain shape index) is described and correlated with oventory tree heights and site quality. Application of the index...

A symbolic shaped-based retrieval of skull images.

PubMed

Lin, H Jill; Ruiz-Correa, Salvador; Shapiro, Linda G; Cunningham, Michael L; Sze, Raymond W

2005-01-01

In this work, we describe a novel symbolic representation of shapes for quantifying skull abnormalities in children with craniosynostosis. We show the efficacy of our work by demonstrating an application of this representation in shape-based retrieval of skull morphologies. This tool will enable correlation with potential pathogenesis and prognosis in order to enhance medical care.

Enhanced associative memory for colour (but not shape or location) in synaesthesia.

PubMed

Pritchard, Jamie; Rothen, Nicolas; Coolbear, Daniel; Ward, Jamie

2013-05-01

People with grapheme-colour synaesthesia have been shown to have enhanced memory on a range of tasks using both stimuli that induce synaesthesia (e.g. words) and, more surprisingly, stimuli that do not (e.g. certain abstract visual stimuli). This study examines the latter by using multi-featured stimuli consisting of shape, colour and location conjunctions (e.g. shape A+colour A+location A; shape B+colour B+location B) presented in a recognition memory paradigm. This enables distractor items to be created in which one of these features is 'unbound' with respect to the others (e.g. shape A+colour B+location A; shape A+colour A+location C). Synaesthetes had higher recognition rates suggesting an enhanced ability to bind certain visual features together into memory. Importantly, synaesthetes' false alarm rates were lower only when colour was the unbound feature, not shape or location. We suggest that synaesthetes are "colour experts" and that enhanced perception can lead to enhanced memory in very specific ways; but, not for instance, an enhanced ability to form associations per se. The results support contemporary models that propose a continuum between perception and memory. Copyright © 2013 Elsevier B.V. All rights reserved.

Learning Compositional Shape Models of Multiple Distance Metrics by Information Projection.

PubMed

Luo, Ping; Lin, Liang; Liu, Xiaobai

2016-07-01

This paper presents a novel compositional contour-based shape model by incorporating multiple distance metrics to account for varying shape distortions or deformations. Our approach contains two key steps: 1) contour feature generation and 2) generative model pursuit. For each category, we first densely sample an ensemble of local prototype contour segments from a few positive shape examples and describe each segment using three different types of distance metrics. These metrics are diverse and complementary with each other to capture various shape deformations. We regard the parameterized contour segment plus an additive residual ϵ as a basic subspace, namely, ϵ -ball, in the sense that it represents local shape variance under the certain distance metric. Using these ϵ -balls as features, we then propose a generative learning algorithm to pursue the compositional shape model, which greedily selects the most representative features under the information projection principle. In experiments, we evaluate our model on several public challenging data sets, and demonstrate that the integration of multiple shape distance metrics is capable of dealing various shape deformations, articulations, and background clutter, hence boosting system performance.

Discrete dipole approximation models of chrystalline forsterite: Applications to cometary crystalline silicates

NASA Astrophysics Data System (ADS)

Lindsay, Sean Stephen

The shape, size, and composition of crystalline silicates observed in comet comae and external proto-planetary disks are indicative of the formation and evolution of the dust grains during the processes of planetary formation. In this dissertation, I present the 3 -- 40 mum absorption efficiencies( Qabs) of irregularly shaped forsterite crystals computed with the discrete dipole approximation (DDA) code DDSCAT developed by Draine and Flatau and run on the NASA Advanced Supercomputing facility Pleiades. An investigation of grain shapes ranging from spheroidal to irregular indicate that the strong spectral features from forsterite are sensitive to grain shape and are potentially degenerate with the effects of crystal solid state composition (Mg-content). The 10, 11, 18, 23, and 33.5 mum features are found to be the most crystal shape sensitive and should be avoided in determining Mg-content. The distinct spectral features for the three shape classes are connected with crystal formation environment using a condensation experiment by (Kobatake et al., 2008). The condensation experiment demonstrates that condensed forsterite crystal shapes are dependent on the condensation environmental temperature. I generate DDSCAT target analog shapes to the condensed crystal shapes. These analog shapes are represented by the three shape classes: 1) equant, 2) a, c-columns, and 3) b-shortened platelets. Each of these shape classes exhibit distinct spectral features that can be used to interpret grain shape characteristics from 8 --- 40 mum spectroscopy of astronomical objects containing crystalline silicates. Synthetic spectral energy distributions (SEDs) of the coma of Hale-Bopp at rh = 2.8 AU are generated by thermally modeling the flux contributions of 5 mineral species present in comets. The synthetic SEDs are constrained using a chi2- minimization technique. The mineral species are amorphous carbon, amorphous pyroxene, amorphous olivine, crystalline enstatite, and crystalline forsterite. Using the DDSCAT computed absorption efficiencies for a large variety of forsterite crystal shapes, which are computed for 66 grain sizes between 0.1 -- 5.0 mum, the flux contribution of irregularly shaped forsterite is computed. The forsterite flux contribution is then summed with the amorphous and crystalline enstatite contributions to generate the total synthetic SED. The DDSCAT forsterite grain shape synthetic SEDs reveal that the crystalline silicates in the coma of Hale-Bopp are irregular in shape with two distinct shape characteristics related to specific formation mechanisms: 1) equant grains with sharp ( ≲ 90°) angles between the faces, edges, and vertices that formed as high temperature condensates in the inner 1 -- 3 AU radial region of the Solar System's protoplanetary disk; and 2) c-shortened platelet shapes that likely formed from collisional processing of the crystals. The 8 -- 40 mum silicate spectral features of Hale-Bopp's coma are compared to the silicate spectral features of the comae of 17P/Holmes during 2007 outburst and 9P/Tempel 1 during the Deep Impact experiment to show that the silicate features with crystalline resonances are remarkably similar. The similarity in silicate spectral features suggests that the grain populations in the comae of these comets are similar in shape, size, and compositon. However, Hale-Bopp is a nearly isotropic comet (NIC) that dynamically came from the Oort cloud, and 17P and 9P are ecliptic comets (ECs) that dynamically came from the Scattered Disk. The different dynamical source regions yet similar silicate (amorphous and crystalline) grain populations suggest that ECs and NICs innately have similar grains and that the typically weaker silicate features of ECs are an effect of the surface grains becoming compacted with numerous perihelion passages. Hence, the differences in silicate between ECs and NICs are the result of grain structure and not grain composition. (Abstract shortened by UMI.)

Feature binding in visual short-term memory is unaffected by task-irrelevant changes of location, shape, and color.

PubMed

Logie, Robert H; Brockmole, James R; Jaswal, Snehlata

2011-01-01

Three experiments used a change detection paradigm across a range of study-test intervals to address the respective contributions of location, shape, and color to the formation of bindings of features in sensory memory and visual short-term memory (VSTM). In Experiment 1, location was designated task irrelevant and was randomized between study and test displays. The task was to detect changes in the bindings between shape and color. In Experiments 2 and 3, shape and color, respectively, were task irrelevant and randomized, with bindings tested between location and color (Experiment 2) and location and shape (Experiment 3). At shorter study-test intervals, randomizing location was most disruptive, followed by shape and then color. At longer intervals, randomizing any task-irrelevant feature had no impact on change detection for bindings between features, and location had no special role. Results suggest that location is crucial for initial perceptual binding but loses that special status once representations are formed in VSTM, which operates according to different principles, than do visual attention and perception.

Constraining Cometary Crystal Shapes from IR Spectral Features

NASA Technical Reports Server (NTRS)

Wooden, Diane H.; Lindsay, Sean; Harker, David E.; Kelley, Michael S. P.; Woodward, Charles E.; Murphy, James Richard

2013-01-01

A major challenge in deriving the silicate mineralogy of comets is ascertaining how the anisotropic nature of forsterite crystals affects the spectral features' wavelength, relative intensity, and asymmetry. Forsterite features are identified in cometary comae near 10, 11.05-11.2, 16, 19, 23.5, 27.5 and 33 microns [1-10], so accurate models for forsterite's absorption efficiency (Qabs) are a primary requirement to compute IR spectral energy distributions (SEDs, lambdaF lambda vs. lambda) and constrain the silicate mineralogy of comets. Forsterite is an anisotropic crystal, with three crystallographic axes with distinct indices of refraction for the a-, b-, and c-axis. The shape of a forsterite crystal significantly affects its spectral features [13-16]. We need models that account for crystal shape. The IR absorption efficiencies of forsterite are computed using the discrete dipole approximation (DDA) code DDSCAT [11,12]. Starting from a fiducial crystal shape of a cube, we systematically elongate/reduce one of the crystallographic axes. Also, we elongate/reduce one axis while the lengths of the other two axes are slightly asymmetric (0.8:1.2). The most significant grain shape characteristic that affects the crystalline spectral features is the relative lengths of the crystallographic axes. The second significant grain shape characteristic is breaking the symmetry of all three axes [17]. Synthetic spectral energy distributions using seven crystal shape classes [17] are fit to the observed SED of comet C/1995 O1 (Hale-Bopp). The Hale-Bopp crystalline residual better matches equant, b-platelets, c-platelets, and b-columns spectral shape classes, while a-platelets, a-columns and c-columns worsen the spectral fits. Forsterite condensation and partial evaporation experiments demonstrate that environmental temperature and grain shape are connected [18-20]. Thus, grain shape is a potential probe for protoplanetary disk temperatures where the cometary crystalline forsterite formed. The forsterite crystal shapes (equant, b-platelets, c-platelets, b-columns - excluding a- and c-columns) derived from our modeling [17] of comet Hale- Bopp, compared to laboratory synthesis experiments [18], suggests that these crystals are high temperature condensates. By observing and modeling the crystalline features in comet ISON, we may constrain forsterite crystal shape(s) and link to their formation temperature(s) and environment(s).

Automatic diagnosis of lumbar disc herniation with shape and appearance features from MRI

NASA Astrophysics Data System (ADS)

Alomari, Raja'S.; Corso, Jason J.; Chaudhary, Vipin; Dhillon, Gurmeet

2010-03-01

Intervertebral disc herniation is a major reason for lower back pain (LBP), which is the second most common neurological ailment in the United States. Automation of herniated disc diagnosis reduces the large burden on radiologists who have to diagnose hundreds of cases each day using clinical MRI. We present a method for automatic diagnosis of lumbar disc herniation using appearance and shape features. We jointly use the intensity signal for modeling the appearance of herniated disc and the active shape model for modeling the shape of herniated disc. We utilize a Gibbs distribution for classification of discs using appearance and shape features. We use 33 clinical MRI cases of the lumbar area for training and testing both appearance and shape models. We achieve over 91% accuracy in detection of herniation in a cross-validation experiment with specificity of 91% and sensitivity of 94%.

EXiO-A Brain-Controlled Lower Limb Exoskeleton for Rhesus Macaques.

PubMed

Vouga, Tristan; Zhuang, Katie Z; Olivier, Jeremy; Lebedev, Mikhail A; Nicolelis, Miguel A L; Bouri, Mohamed; Bleuler, Hannes

2017-02-01

Recent advances in the field of brain-machine interfaces (BMIs) have demonstrated enormous potential to shape the future of rehabilitation and prosthetic devices. Here, a lower-limb exoskeleton controlled by the intracortical activity of an awake behaving rhesus macaque is presented as a proof-of-concept for a locomotorBMI. A detailed description of the mechanical device, including its innovative features and first experimental results, is provided. During operation, BMI-decoded position and velocity are directly mapped onto the bipedal exoskeleton's motions, which then move the monkey's legs as the monkey remains physicallypassive. To meet the unique requirements of such an application, the exoskeleton's features include: high output torque with backdrivable actuation, size adjustability, and safe user-robot interface. In addition, a novel rope transmission is introduced and implemented. To test the performance of the exoskeleton, a mechanical assessment was conducted, which yielded quantifiable results for transparency, efficiency, stiffness, and tracking performance. Usage under both brain control and automated actuation demonstrates the device's capability to fulfill the demanding needs of this application. These results lay the groundwork for further advancement in BMI-controlled devices for primates including humans.

Multiscale statistics of trajectories with applications to fluid particles in turbulence and football players

NASA Astrophysics Data System (ADS)

Schneider, Kai; Kadoch, Benjamin; Bos, Wouter

2017-11-01

The angle between two subsequent particle displacement increments is evaluated as a function of the time lag. The directional change of particles can thus be quantified at different scales and multiscale statistics can be performed. Flow dependent and geometry dependent features can be distinguished. The mean angle satisfies scaling behaviors for short time lags based on the smoothness of the trajectories. For intermediate time lags a power law behavior can be observed for some turbulent flows, which can be related to Kolmogorov scaling. The long time behavior depends on the confinement geometry of the flow. We show that the shape of the probability distribution function of the directional change can be well described by a Fischer distribution. Results for two-dimensional (direct and inverse cascade) and three-dimensional turbulence with and without confinement, illustrate the properties of the proposed multiscale statistics. The presented Monte-Carlo simulations allow disentangling geometry dependent and flow independent features. Finally, we also analyze trajectories of football players, which are, in general, not randomly spaced on a field.

Textual and shape-based feature extraction and neuro-fuzzy classifier for nuclear track recognition

NASA Astrophysics Data System (ADS)

Khayat, Omid; Afarideh, Hossein

2013-04-01

Track counting algorithms as one of the fundamental principles of nuclear science have been emphasized in the recent years. Accurate measurement of nuclear tracks on solid-state nuclear track detectors is the aim of track counting systems. Commonly track counting systems comprise a hardware system for the task of imaging and software for analysing the track images. In this paper, a track recognition algorithm based on 12 defined textual and shape-based features and a neuro-fuzzy classifier is proposed. Features are defined so as to discern the tracks from the background and small objects. Then, according to the defined features, tracks are detected using a trained neuro-fuzzy system. Features and the classifier are finally validated via 100 Alpha track images and 40 training samples. It is shown that principle textual and shape-based features concomitantly yield a high rate of track detection compared with the single-feature based methods.

Self-folding with shape memory composites at the millimeter scale

NASA Astrophysics Data System (ADS)

Felton, S. M.; Becker, K. P.; Aukes, D. M.; Wood, R. J.

2015-08-01

Self-folding is an effective method for creating 3D shapes from flat sheets. In particular, shape memory composites—laminates containing shape memory polymers—have been used to self-fold complex structures and machines. To date, however, these composites have been limited to feature sizes larger than one centimeter. We present a new shape memory composite capable of folding millimeter-scale features. This technique can be activated by a global heat source for simultaneous folding, or by resistive heaters for sequential folding. It is capable of feature sizes ranging from 0.5 to 40 mm, and is compatible with multiple laminate compositions. We demonstrate the ability to produce complex structures and mechanisms by building two self-folding pieces: a model ship and a model bumblebee.

Quantification of the spatial strain distribution of scoliosis using a thin-plate spline method.

PubMed

Kiriyama, Yoshimori; Watanabe, Kota; Matsumoto, Morio; Toyama, Yoshiaki; Nagura, Takeo

2014-01-03

The objective of this study was to quantify the three-dimensional spatial strain distribution of a scoliotic spine by nonhomogeneous transformation without using a statistically averaged reference spine. The shape of the scoliotic spine was determined from computed tomography images from a female patient with adolescent idiopathic scoliosis. The shape of the scoliotic spine was enclosed in a rectangular grid, and symmetrized using a thin-plate spline method according to the node positions of the grid. The node positions of the grid were determined by numerical optimization to satisfy symmetry. The obtained symmetric spinal shape was enclosed within a new rectangular grid and distorted back to the original scoliotic shape using a thin-plate spline method. The distorted grid was compared to the rectangular grid that surrounded the symmetrical spine. Cobb's angle was reduced from 35° in the scoliotic spine to 7° in the symmetrized spine, and the scoliotic shape was almost fully symmetrized. The scoliotic spine showed a complex Green-Lagrange strain distribution in three dimensions. The vertical and transverse compressive/tensile strains in the frontal plane were consistent with the major scoliotic deformation. The compressive, tensile and shear strains on the convex side of the apical vertebra were opposite to those on the concave side. These results indicate that the proposed method can be used to quantify the three-dimensional spatial strain distribution of a scoliotic spine, and may be useful in quantifying the deformity of scoliosis. © 2013 Elsevier Ltd. All rights reserved.

A Robust Shape Reconstruction Method for Facial Feature Point Detection.

PubMed

Tan, Shuqiu; Chen, Dongyi; Guo, Chenggang; Huang, Zhiqi

2017-01-01

Facial feature point detection has been receiving great research advances in recent years. Numerous methods have been developed and applied in practical face analysis systems. However, it is still a quite challenging task because of the large variability in expression and gestures and the existence of occlusions in real-world photo shoot. In this paper, we present a robust sparse reconstruction method for the face alignment problems. Instead of a direct regression between the feature space and the shape space, the concept of shape increment reconstruction is introduced. Moreover, a set of coupled overcomplete dictionaries termed the shape increment dictionary and the local appearance dictionary are learned in a regressive manner to select robust features and fit shape increments. Additionally, to make the learned model more generalized, we select the best matched parameter set through extensive validation tests. Experimental results on three public datasets demonstrate that the proposed method achieves a better robustness over the state-of-the-art methods.

A four-component model of the action potential in mouse detrusor smooth muscle cell

PubMed Central

Brain, Keith L.; Young, John S.; Manchanda, Rohit

2018-01-01

Background and hypothesis Detrusor smooth muscle cells (DSMCs) of the urinary bladder are electrically connected to one another via gap junctions and form a three dimensional syncytium. DSMCs exhibit spontaneous electrical activity, including passive depolarizations and action potentials. The shapes of spontaneous action potentials (sAPs) observed from a single DSM cell can vary widely. The biophysical origins of this variability, and the precise components which contribute to the complex shapes observed are not known. To address these questions, the basic components which constitute the sAPs were investigated. We hypothesized that linear combinations of scaled versions of these basic components can produce sAP shapes observed in the syncytium. Methods and results The basic components were identified as spontaneous evoked junction potentials (sEJP), native AP (nAP), slow after hyperpolarization (sAHP) and very slow after hyperpolarization (vsAHP). The experimental recordings were grouped into two sets: a training data set and a testing data set. A training set was used to estimate the components, and a test set to evaluate the efficiency of the estimated components. We found that a linear combination of the identified components when appropriately amplified and time shifted replicated various AP shapes to a high degree of similarity, as quantified by the root mean square error (RMSE) measure. Conclusions We conclude that the four basic components—sEJP, nAP, sAHP, and vsAHP—identified and isolated in this work are necessary and sufficient to replicate all varieties of the sAPs recorded experimentally in DSMCs. This model has the potential to generate testable hypotheses that can help identify the physiological processes underlying various features of the sAPs. Further, this model also provides a means to classify the sAPs into various shape classes. PMID:29351282

A four-component model of the action potential in mouse detrusor smooth muscle cell.

PubMed

Padmakumar, Mithun; Brain, Keith L; Young, John S; Manchanda, Rohit

2018-01-01

Detrusor smooth muscle cells (DSMCs) of the urinary bladder are electrically connected to one another via gap junctions and form a three dimensional syncytium. DSMCs exhibit spontaneous electrical activity, including passive depolarizations and action potentials. The shapes of spontaneous action potentials (sAPs) observed from a single DSM cell can vary widely. The biophysical origins of this variability, and the precise components which contribute to the complex shapes observed are not known. To address these questions, the basic components which constitute the sAPs were investigated. We hypothesized that linear combinations of scaled versions of these basic components can produce sAP shapes observed in the syncytium. The basic components were identified as spontaneous evoked junction potentials (sEJP), native AP (nAP), slow after hyperpolarization (sAHP) and very slow after hyperpolarization (vsAHP). The experimental recordings were grouped into two sets: a training data set and a testing data set. A training set was used to estimate the components, and a test set to evaluate the efficiency of the estimated components. We found that a linear combination of the identified components when appropriately amplified and time shifted replicated various AP shapes to a high degree of similarity, as quantified by the root mean square error (RMSE) measure. We conclude that the four basic components-sEJP, nAP, sAHP, and vsAHP-identified and isolated in this work are necessary and sufficient to replicate all varieties of the sAPs recorded experimentally in DSMCs. This model has the potential to generate testable hypotheses that can help identify the physiological processes underlying various features of the sAPs. Further, this model also provides a means to classify the sAPs into various shape classes.

Automatic feature-based grouping during multiple object tracking.

PubMed

Erlikhman, Gennady; Keane, Brian P; Mettler, Everett; Horowitz, Todd S; Kellman, Philip J

2013-12-01

Contour interpolation automatically binds targets with distractors to impair multiple object tracking (Keane, Mettler, Tsoi, & Kellman, 2011). Is interpolation special in this regard or can other features produce the same effect? To address this question, we examined the influence of eight features on tracking: color, contrast polarity, orientation, size, shape, depth, interpolation, and a combination (shape, color, size). In each case, subjects tracked 4 of 8 objects that began as undifferentiated shapes, changed features as motion began (to enable grouping), and returned to their undifferentiated states before halting. We found that intertarget grouping improved performance for all feature types except orientation and interpolation (Experiment 1 and Experiment 2). Most importantly, target-distractor grouping impaired performance for color, size, shape, combination, and interpolation. The impairments were, at times, large (>15% decrement in accuracy) and occurred relative to a homogeneous condition in which all objects had the same features at each moment of a trial (Experiment 2), and relative to a "diversity" condition in which targets and distractors had different features at each moment (Experiment 3). We conclude that feature-based grouping occurs for a variety of features besides interpolation, even when irrelevant to task instructions and contrary to the task demands, suggesting that interpolation is not unique in promoting automatic grouping in tracking tasks. Our results also imply that various kinds of features are encoded automatically and in parallel during tracking.

Gender differences in knee morphology and the prospects for implant design in total knee replacement.

PubMed

Asseln, Malte; Hänisch, Christoph; Schick, Fabian; Radermacher, Klaus

2018-05-14

Morphological differences between female and male knees have been reported in the literature, which led to the development of so-called gender-specific implants. However, detailed morphological descriptions covering the entire joint are rare and little is known regarding whether gender differences are real sexual dimorphisms or can be explained by overall differences in size. We comprehensively analysed knee morphology using 33 features of the femur and 21 features of the tibia to quantify knee shape. The landmark recognition and feature extraction based on three-dimensional surface data were fully automatically applied to 412 pathological (248 female and 164 male) knees undergoing total knee arthroplasty. Subsequently, an exploratory statistical analysis was performed and linear correlation analysis was used to investigate normalization factors and gender-specific differences. Statistically significant differences between genders were observed. These were pronounced for distance measurements and negligible for angular (relative) measurements. Female knees were significantly narrower at the same depth compared to male knees. The correlation analysis showed that linear correlations were higher for distance measurements defined in the same direction. After normalizing the distance features according to overall dimensions in the direction of their definition, gender-specific differences disappeared or were smaller than the related confidence intervals. Implants should not be linearly scaled according to one dimension. Instead, features in medial/lateral and anterior/posterior directions should be normalized separately (non-isotropic scaling). However, large inter-individual variations of the features remain after normalization, suggesting that patient-specific design solutions are required for an improved implant design, regardless of gender. Copyright © 2018 Elsevier B.V. All rights reserved.

In vivo placental MRI shape and textural features predict fetal growth restriction and postnatal outcome.

PubMed

Dahdouh, Sonia; Andescavage, Nickie; Yewale, Sayali; Yarish, Alexa; Lanham, Diane; Bulas, Dorothy; du Plessis, Adre J; Limperopoulos, Catherine

2018-02-01

To investigate the ability of three-dimensional (3D) MRI placental shape and textural features to predict fetal growth restriction (FGR) and birth weight (BW) for both healthy and FGR fetuses. We recruited two groups of pregnant volunteers between 18 and 39 weeks of gestation; 46 healthy subjects and 34 FGR. Both groups underwent fetal MR imaging on a 1.5 Tesla GE scanner using an eight-channel receiver coil. We acquired T2-weighted images on either the coronal or the axial plane to obtain MR volumes with a slice thickness of either 4 or 8 mm covering the full placenta. Placental shape features (volume, thickness, elongation) were combined with textural features; first order textural features (mean, variance, kurtosis, and skewness of placental gray levels), as well as, textural features computed on the gray level co-occurrence and run-length matrices characterizing placental homogeneity, symmetry, and coarseness. The features were used in two machine learning frameworks to predict FGR and BW. The proposed machine-learning based method using shape and textural features identified FGR pregnancies with 86% accuracy, 77% precision and 86% recall. BW estimations were 0.3 ± 13.4% (mean percentage error ± standard error) for healthy fetuses and -2.6 ± 15.9% for FGR. The proposed FGR identification and BW estimation methods using in utero placental shape and textural features computed on 3D MR images demonstrated high accuracy in our healthy and high-risk cohorts. Future studies to assess the evolution of each feature with regard to placental development are currently underway. 2 Technical Efficacy: Stage 2 J. Magn. Reson. Imaging 2018;47:449-458. © 2017 International Society for Magnetic Resonance in Medicine.

Quantifying the Shape of Aging

PubMed Central

Wrycza, Tomasz F.; Missov, Trifon I.; Baudisch, Annette

2015-01-01

In Biodemography, aging is typically measured and compared based on aging rates. We argue that this approach may be misleading, because it confounds the time aspect with the mere change aspect of aging. To disentangle these aspects, here we utilize a time-standardized framework and, instead of aging rates, suggest the shape of aging as a novel and valuable alternative concept for comparative aging research. The concept of shape captures the direction and degree of change in the force of mortality over age, which—on a demographic level—reflects aging. We 1) provide a list of shape properties that are desirable from a theoretical perspective, 2) suggest several demographically meaningful and non-parametric candidate measures to quantify shape, and 3) evaluate performance of these measures based on the list of properties as well as based on an illustrative analysis of a simple dataset. The shape measures suggested here aim to provide a general means to classify aging patterns independent of any particular mortality model and independent of any species-specific time-scale. Thereby they support systematic comparative aging research across different species or between populations of the same species under different conditions and constitute an extension of the toolbox available to comparative research in Biodemography. PMID:25803427

The Relationship between Self-Assembly and Conformal Mappings

NASA Astrophysics Data System (ADS)

Duque, Carlos; Santangelo, Christian

The isotropic growth of a thin sheet has been used as a way to generate programmed shapes through controlled buckling. We discuss how conformal mappings, which are transformations that locally preserve angles, provide a way to quantify the area growth needed to produce a particular shape. A discrete version of the conformal map can be constructed from circle packings, which are maps between packings of circles whose contact network is preserved. This provides a link to the self-assembly of particles on curved surfaces. We performed simulations of attractive particles on a curved surface using molecular dynamics. The resulting particle configurations were used to generate the corresponding discrete conformal map, allowing us to quantify the degree of area distortion required to produce a particular shape by finding particle configurations that minimize the area distortion.

How effective are geometric morphometric techniques for assessing functional shape variation? An example from the great ape temporomandibular joint.

PubMed

Terhune, Claire E

2013-08-01

Functional shape analyses have long relied on the use of shape ratios to test biomechanical hypotheses. This method is powerful because of the ease with which results are interpreted, but these techniques fall short in quantifying complex morphologies that may not have a strong biomechanical foundation but may still be functionally informative. In contrast, geometric morphometric methods are continually being adopted for quantifying complex shapes, but they tend to prove inadequate in functional analyses because they have little foundation in an explicit biomechanical framework. The goal of this study was to evaluate the intersection of these two methods using the great ape temporomandibular joint as a case study. Three-dimensional coordinates of glenoid fossa and mandibular condyle shape were collected using a Microscribe digitizer. Linear distances extracted from these landmarks were analyzed using a series of one-way ANOVAs; further, the landmark configurations were analyzed using geometric morphometric techniques. Results suggest that the two methods are broadly similar, although the geometric morphometric data allow for the identification of shape differences among taxa that were not immediately apparent in the univariate analyses. Furthermore, this study suggests several new approaches for translating these shape data into a biomechanical context by adjusting the data using a biomechanically relevant variable. Copyright © 2013 Wiley Periodicals, Inc.

Intrapartum fetal heart rate classification from trajectory in Sparse SVM feature space.

PubMed

Spilka, J; Frecon, J; Leonarduzzi, R; Pustelnik, N; Abry, P; Doret, M

2015-01-01

Intrapartum fetal heart rate (FHR) constitutes a prominent source of information for the assessment of fetal reactions to stress events during delivery. Yet, early detection of fetal acidosis remains a challenging signal processing task. The originality of the present contribution are three-fold: multiscale representations and wavelet leader based multifractal analysis are used to quantify FHR variability ; Supervised classification is achieved by means of Sparse-SVM that aim jointly to achieve optimal detection performance and to select relevant features in a multivariate setting ; Trajectories in the feature space accounting for the evolution along time of features while labor progresses are involved in the construction of indices quantifying fetal health. The classification performance permitted by this combination of tools are quantified on a intrapartum FHR large database (≃ 1250 subjects) collected at a French academic public hospital.

Parsimonious mathematical characterization of channel shape and size

USDA-ARS?s Scientific Manuscript database

This work has two purposes: 1) using a Leopold and Maddock (1953) hydraulic geometry approach, present a mathematically parsimonious, two parameter, characterization of channel shape and size; and 2) analytically quantify cross-sectional area, top width, average depth, critical energy, and bankfull ...

A morphometric analysis of vegetation patterns in dryland ecosystems

PubMed Central

Dekker, Stefan C.; Li, Mao; Mio, Washington; Punyasena, Surangi W.; Lenton, Timothy M.

2017-01-01

Vegetation in dryland ecosystems often forms remarkable spatial patterns. These range from regular bands of vegetation alternating with bare ground, to vegetated spots and labyrinths, to regular gaps of bare ground within an otherwise continuous expanse of vegetation. It has been suggested that spotted vegetation patterns could indicate that collapse into a bare ground state is imminent, and the morphology of spatial vegetation patterns, therefore, represents a potentially valuable source of information on the proximity of regime shifts in dryland ecosystems. In this paper, we have developed quantitative methods to characterize the morphology of spatial patterns in dryland vegetation. Our approach is based on algorithmic techniques that have been used to classify pollen grains on the basis of textural patterning, and involves constructing feature vectors to quantify the shapes formed by vegetation patterns. We have analysed images of patterned vegetation produced by a computational model and a small set of satellite images from South Kordofan (South Sudan), which illustrates that our methods are applicable to both simulated and real-world data. Our approach provides a means of quantifying patterns that are frequently described using qualitative terminology, and could be used to classify vegetation patterns in large-scale satellite surveys of dryland ecosystems. PMID:28386414

A morphometric analysis of vegetation patterns in dryland ecosystems.

PubMed

Mander, Luke; Dekker, Stefan C; Li, Mao; Mio, Washington; Punyasena, Surangi W; Lenton, Timothy M

2017-02-01

Vegetation in dryland ecosystems often forms remarkable spatial patterns. These range from regular bands of vegetation alternating with bare ground, to vegetated spots and labyrinths, to regular gaps of bare ground within an otherwise continuous expanse of vegetation. It has been suggested that spotted vegetation patterns could indicate that collapse into a bare ground state is imminent, and the morphology of spatial vegetation patterns, therefore, represents a potentially valuable source of information on the proximity of regime shifts in dryland ecosystems. In this paper, we have developed quantitative methods to characterize the morphology of spatial patterns in dryland vegetation. Our approach is based on algorithmic techniques that have been used to classify pollen grains on the basis of textural patterning, and involves constructing feature vectors to quantify the shapes formed by vegetation patterns. We have analysed images of patterned vegetation produced by a computational model and a small set of satellite images from South Kordofan (South Sudan), which illustrates that our methods are applicable to both simulated and real-world data. Our approach provides a means of quantifying patterns that are frequently described using qualitative terminology, and could be used to classify vegetation patterns in large-scale satellite surveys of dryland ecosystems.

A morphometric analysis of vegetation patterns in dryland ecosystems

NASA Astrophysics Data System (ADS)

Mander, Luke; Dekker, Stefan C.; Li, Mao; Mio, Washington; Punyasena, Surangi W.; Lenton, Timothy M.

2017-02-01

Vegetation in dryland ecosystems often forms remarkable spatial patterns. These range from regular bands of vegetation alternating with bare ground, to vegetated spots and labyrinths, to regular gaps of bare ground within an otherwise continuous expanse of vegetation. It has been suggested that spotted vegetation patterns could indicate that collapse into a bare ground state is imminent, and the morphology of spatial vegetation patterns, therefore, represents a potentially valuable source of information on the proximity of regime shifts in dryland ecosystems. In this paper, we have developed quantitative methods to characterize the morphology of spatial patterns in dryland vegetation. Our approach is based on algorithmic techniques that have been used to classify pollen grains on the basis of textural patterning, and involves constructing feature vectors to quantify the shapes formed by vegetation patterns. We have analysed images of patterned vegetation produced by a computational model and a small set of satellite images from South Kordofan (South Sudan), which illustrates that our methods are applicable to both simulated and real-world data. Our approach provides a means of quantifying patterns that are frequently described using qualitative terminology, and could be used to classify vegetation patterns in large-scale satellite surveys of dryland ecosystems.

Classification of microscopic images of breast tissue

NASA Astrophysics Data System (ADS)

Ballerini, Lucia; Franzen, Lennart

2004-05-01

Breast cancer is the most common form of cancer among women. The diagnosis is usually performed by the pathologist, that subjectively evaluates tissue samples. The aim of our research is to develop techniques for the automatic classification of cancerous tissue, by analyzing histological samples of intact tissue taken with a biopsy. In our study, we considered 200 images presenting four different conditions: normal tissue, fibroadenosis, ductal cancer and lobular cancer. Methods to extract features have been investigated and described. One method is based on granulometries, which are size-shape descriptors widely used in mathematical morphology. Applications of granulometries lead to distribution functions whose moments are used as features. A second method is based on fractal geometry, that seems very suitable to quantify biological structures. The fractal dimension of binary images has been computed using the euclidean distance mapping. Image classification has then been performed using the extracted features as input of a back-propagation neural network. A new method that combines genetic algorithms and morphological filters has been also investigated. In this case, the classification is based on a correlation measure. Very encouraging results have been obtained with pilot experiments using a small subset of images as training set. Experimental results indicate the effectiveness of the proposed methods. Cancerous tissue was correctly classified in 92.5% of the cases.

Hippocampus shape analysis for temporal lobe epilepsy detection in magnetic resonance imaging

NASA Astrophysics Data System (ADS)

Kohan, Zohreh; Azmi, Reza

2016-03-01

There are evidences in the literature that Temporal Lobe Epilepsy (TLE) causes some lateralized atrophy and deformation on hippocampus and other substructures of the brain. Magnetic Resonance Imaging (MRI), due to high-contrast soft tissue imaging, is one of the most popular imaging modalities being used in TLE diagnosis and treatment procedures. Using an algorithm to help clinicians for better and more effective shape deformations analysis could improve the diagnosis and treatment of the disease. In this project our purpose is to design, implement and test a classification algorithm for MRIs based on hippocampal asymmetry detection using shape and size-based features. Our method consisted of two main parts; (1) shape feature extraction, and (2) image classification. We tested 11 different shape and size features and selected four of them that detect the asymmetry in hippocampus significantly in a randomly selected subset of the dataset. Then, we employed a support vector machine (SVM) classifier to classify the remaining images of the dataset to normal and epileptic images using our selected features. The dataset contains 25 patient images in which 12 cases were used as a training set and the rest 13 cases for testing the performance of classifier. We measured accuracy, specificity and sensitivity of, respectively, 76%, 100%, and 70% for our algorithm. The preliminary results show that using shape and size features for detecting hippocampal asymmetry could be helpful in TLE diagnosis in MRI.

3D shape decomposition and comparison for gallbladder modeling

NASA Astrophysics Data System (ADS)

Huang, Weimin; Zhou, Jiayin; Liu, Jiang; Zhang, Jing; Yang, Tao; Su, Yi; Law, Gim Han; Chui, Chee Kong; Chang, Stephen

2011-03-01

This paper presents an approach to gallbladder shape comparison by using 3D shape modeling and decomposition. The gallbladder models can be used for shape anomaly analysis and model comparison and selection in image guided robotic surgical training, especially for laparoscopic cholecystectomy simulation. The 3D shape of a gallbladder is first represented as a surface model, reconstructed from the contours segmented in CT data by a scheme of propagation based voxel learning and classification. To better extract the shape feature, the surface mesh is further down-sampled by a decimation filter and smoothed by a Taubin algorithm, followed by applying an advancing front algorithm to further enhance the regularity of the mesh. Multi-scale curvatures are then computed on the regularized mesh for the robust saliency landmark localization on the surface. The shape decomposition is proposed based on the saliency landmarks and the concavity, measured by the distance from the surface point to the convex hull. With a given tolerance the 3D shape can be decomposed and represented as 3D ellipsoids, which reveal the shape topology and anomaly of a gallbladder. The features based on the decomposed shape model are proposed for gallbladder shape comparison, which can be used for new model selection. We have collected 19 sets of abdominal CT scan data with gallbladders, some shown in normal shape and some in abnormal shapes. The experiments have shown that the decomposed shapes reveal important topology features.

Method and System for Object Recognition Search

NASA Technical Reports Server (NTRS)

Duong, Tuan A. (Inventor); Duong, Vu A. (Inventor); Stubberud, Allen R. (Inventor)

2012-01-01

A method for object recognition using shape and color features of the object to be recognized. An adaptive architecture is used to recognize and adapt the shape and color features for moving objects to enable object recognition.

Mammographic mass classification based on possibility theory

NASA Astrophysics Data System (ADS)

Hmida, Marwa; Hamrouni, Kamel; Solaiman, Basel; Boussetta, Sana

2017-03-01

Shape and margin features are very important for differentiating between benign and malignant masses in mammographic images. In fact, benign masses are usually round and oval and have smooth contours. However, malignant tumors have generally irregular shape and appear lobulated or speculated in margins. This knowledge suffers from imprecision and ambiguity. Therefore, this paper deals with the problem of mass classification by using shape and margin features while taking into account the uncertainty linked to the degree of truth of the available information and the imprecision related to its content. Thus, in this work, we proposed a novel mass classification approach which provides a possibility based representation of the extracted shape features and builds a possibility knowledge basis in order to evaluate the possibility degree of malignancy and benignity for each mass. For experimentation, the MIAS database was used and the classification results show the great performance of our approach in spite of using simple features.

When Does Feature Search Fail to Protect Against Attentional Capture?

PubMed Central

Graves, Tashina; Egeth, Howard E.

2016-01-01

When participants search for a shape (e.g., a circle) among a set of homogenous shapes (e.g., triangles) they are subject to distraction by color singletons that are more salient than the target. However, when participants search for a shape among heterogeneous shapes, the presence of a non-target color singleton does not slow responses to the target. Attempts have been made to explain these results from both bottom-up and top-down perspectives. What both accounts have in common is that they do not predict the occurrence of attentional capture on typical feature search displays. Here, we present a case where manipulating selection history, rather than the displays themselves, leads to attentional capture on feature search trials. The ability to map specific colors to the target and distractor appears to be what enables resistance to capture during feature search. PMID:27504073

Landform and terrain shape indices are related to oak site index in the Missouri Ozarks

Treesearch

Jason L. Villwock; John M. Kabrick; W. Henry McNab; Daniel C. Dey

2011-01-01

In the Southern Appalachians, metrics for quantifying the geometric shape of the land surface (terrain shape index or "tsi") and of the landform (land form index or "lfi") were developed and found to be correlated to yellow-poplar site index. However, the utility of these metrics for predicting site index for oaks in the Ozark Highlands has not been...

Late electrophysiological modulations of feature-based attention to object shapes.

PubMed

Stojanoski, Bobby Boge; Niemeier, Matthias

2014-03-01

Feature-based attention has been shown to aid object perception. Our previous ERP effects revealed temporally late feature-based modulation in response to objects relative to motion. The aim of the current study was to confirm the timing of feature-based influences on object perception while cueing within the feature dimension of shape. Participants were told to expect either "pillow" or "flower" objects embedded among random white and black lines. Participants more accurately reported the object's main color for valid compared to invalid shapes. ERPs revealed modulation from 252-502 ms, from occipital to frontal electrodes. Our results are consistent with previous findings examining the time course for processing similar stimuli (illusory contours). Our results provide novel insights into how attending to features of higher complexity aids object perception presumably via feed-forward and feedback mechanisms along the visual hierarchy. Copyright © 2014 Society for Psychophysiological Research.

Hard substrate in the deep ocean: How sediment features influence epibenthic megafauna on the eastern Canadian margin

NASA Astrophysics Data System (ADS)

Lacharité, Myriam; Metaxas, Anna

2017-08-01

Benthic habitats on deep continental margins (> 1000 m) are now considered heterogeneous - in particular because of the occasional presence of hard substrate in a matrix of sand and mud - influencing the distribution of megafauna which can thrive on both sedimented and rocky substrates. At these depths, optical imagery captured with high-definition cameras to describe megafauna can also describe effectively the fine-scale sediment properties in the immediate vicinity of the fauna. In this study, we determined the relationship between local heterogeneity (10-100 sm) in fine-scale sediment properties and the abundance, composition, and diversity of megafauna along a large depth gradient (1000-3000 m) in a previously-unexplored habitat: the Northeast Fan, which lies downslope of submarine canyons off the Gulf of Maine (northwest Atlantic). Substrate heterogeneity was quantified using a novel approach based on principles of computer vision. This approach proved powerful in detecting gradients in sediment, and sporadic complex features (i.e. large boulders) in an otherwise homogeneous environment because it characterizes sediment properties on a continuous scale. Sediment heterogeneity influenced megafaunal diversity (morphospecies richness and Shannon-Wiener Index) and community composition, with areas of higher substrate complexity generally supported higher diversity. However, patterns in abundance were not influenced by sediment properties, and may be best explained by gradients in food supply. Our study provides a new approach to quantify fine-scale sediment properties and assess their role in shaping megafaunal communities in the deep sea, which should be included into habitat studies given their potential ecological importance.

The point-spread function measure of resolution for the 3-D electrical resistivity experiment

NASA Astrophysics Data System (ADS)

Oldenborger, Greg A.; Routh, Partha S.

2009-02-01

The solution appraisal component of the inverse problem involves investigation of the relationship between our estimated model and the actual model. However, full appraisal is difficult for large 3-D problems such as electrical resistivity tomography (ERT). We tackle the appraisal problem for 3-D ERT via the point-spread functions (PSFs) of the linearized resolution matrix. The PSFs represent the impulse response of the inverse solution and quantify our parameter-specific resolving capability. We implement an iterative least-squares solution of the PSF for the ERT experiment, using on-the-fly calculation of the sensitivity via an adjoint integral equation with stored Green's functions and subgrid reduction. For a synthetic example, analysis of individual PSFs demonstrates the truly 3-D character of the resolution. The PSFs for the ERT experiment are Gaussian-like in shape, with directional asymmetry and significant off-diagonal features. Computation of attributes representative of the blurring and localization of the PSF reveal significant spatial dependence of the resolution with some correlation to the electrode infrastructure. Application to a time-lapse ground-water monitoring experiment demonstrates the utility of the PSF for assessing feature discrimination, predicting artefacts and identifying model dependence of resolution. For a judicious selection of model parameters, we analyse the PSFs and their attributes to quantify the case-specific localized resolving capability and its variability over regions of interest. We observe approximate interborehole resolving capability of less than 1-1.5m in the vertical direction and less than 1-2.5m in the horizontal direction. Resolving capability deteriorates significantly outside the electrode infrastructure.

Robust nonparametric quantification of clustering density of molecules in single-molecule localization microscopy

PubMed Central

Jiang, Shenghang; Park, Seongjin; Challapalli, Sai Divya; Fei, Jingyi; Wang, Yong

2017-01-01

We report a robust nonparametric descriptor, J′(r), for quantifying the density of clustering molecules in single-molecule localization microscopy. J′(r), based on nearest neighbor distribution functions, does not require any parameter as an input for analyzing point patterns. We show that J′(r) displays a valley shape in the presence of clusters of molecules, and the characteristics of the valley reliably report the clustering features in the data. Most importantly, the position of the J′(r) valley (rJm′) depends exclusively on the density of clustering molecules (ρc). Therefore, it is ideal for direct estimation of the clustering density of molecules in single-molecule localization microscopy. As an example, this descriptor was applied to estimate the clustering density of ptsG mRNA in E. coli bacteria. PMID:28636661

Multiscale characterization and analysis of shapes

DOEpatents

Prasad, Lakshman; Rao, Ramana

2002-01-01

An adaptive multiscale method approximates shapes with continuous or uniformly and densely sampled contours, with the purpose of sparsely and nonuniformly discretizing the boundaries of shapes at any prescribed resolution, while at the same time retaining the salient shape features at that resolution. In another aspect, a fundamental geometric filtering scheme using the Constrained Delaunay Triangulation (CDT) of polygonized shapes creates an efficient parsing of shapes into components that have semantic significance dependent only on the shapes' structure and not on their representations per se. A shape skeletonization process generalizes to sparsely discretized shapes, with the additional benefit of prunability to filter out irrelevant and morphologically insignificant features. The skeletal representation of characters of varying thickness and the elimination of insignificant and noisy spurs and branches from the skeleton greatly increases the robustness, reliability and recognition rates of character recognition algorithms.

Image segmentation using joint spatial-intensity-shape features: application to CT lung nodule segmentation

NASA Astrophysics Data System (ADS)

Ye, Xujiong; Siddique, Musib; Douiri, Abdel; Beddoe, Gareth; Slabaugh, Greg

2009-02-01

Automatic segmentation of medical images is a challenging problem due to the complexity and variability of human anatomy, poor contrast of the object being segmented, and noise resulting from the image acquisition process. This paper presents a novel feature-guided method for the segmentation of 3D medical lesions. The proposed algorithm combines 1) a volumetric shape feature (shape index) based on high-order partial derivatives; 2) mean shift clustering in a joint spatial-intensity-shape (JSIS) feature space; and 3) a modified expectation-maximization (MEM) algorithm on the mean shift mode map to merge the neighboring regions (modes). In such a scenario, the volumetric shape feature is integrated into the process of the segmentation algorithm. The joint spatial-intensity-shape features provide rich information for the segmentation of the anatomic structures or lesions (tumors). The proposed method has been evaluated on a clinical dataset of thoracic CT scans that contains 68 nodules. A volume overlap ratio between each segmented nodule and the ground truth annotation is calculated. Using the proposed method, the mean overlap ratio over all the nodules is 0.80. On visual inspection and using a quantitative evaluation, the experimental results demonstrate the potential of the proposed method. It can properly segment a variety of nodules including juxta-vascular and juxta-pleural nodules, which are challenging for conventional methods due to the high similarity of intensities between the nodules and their adjacent tissues. This approach could also be applied to lesion segmentation in other anatomies, such as polyps in the colon.

Fire reinforces structure of pondcypress (Taxodium distichum var. imbricarium) domes in a wetland landscape

USGS Publications Warehouse

Watts, Adam C.; Kobziar, Leda N.; Snyder, James R.

2012-01-01

Fire periodically affects wetland forests, particularly in landscapes with extensive fire-prone uplands. Rare occurrence and difficulty of access have limited efforts to understand impacts of wildfires fires in wetlands. Following a 2009 wildfire, we measured tree mortality and structural changes in wetland forest patches. Centers of these circular landscape features experienced lower fire severity, although no continuous patch-size or edge effect was evident. Initial survival of the dominant tree, pondcypress (Taxodium distichum var. imbricarium), was high (>99%), but within one year of the fire approximately 23% of trees died. Delayed mortality was correlated with fire severity, but unrelated to other hypothesized factors such as patch size or edge distance. Tree diameter and soil elevation were important predictors of mortality, with smaller trees and those in areas with lower elevation more likely to die following severe fire. Depressional cypress forests typically exhibit increasing tree size towards their interiors, and differential mortality patterns were related to edge distance. These patterns result in the exaggeration of a dome-shaped profile. Our observations quantify roles of fire and hydrology in determining cypress mortality in these swamps, and imply the existence of feedbacks that maintain the characteristic shape of cypress domes.

In Situ Observation of Rock Spalling in the Deep Tunnels of the China Jinping Underground Laboratory (2400 m Depth)

NASA Astrophysics Data System (ADS)

Feng, Xia-Ting; Xu, Hong; Qiu, Shi-Li; Li, Shao-Jun; Yang, Cheng-Xiang; Guo, Hao-Sen; Cheng, Yuan; Gao, Yao-Hui

2018-04-01

To study rock spalling in deep tunnels at China Jinping Underground Laboratory Phase II (CJPL-II), photogrammetry method and digital borehole camera were used to quantify key features of rock spalling including orientation, thickness of slabs and the depth of spalling. The failure mechanism was analysed through scanning electron microscope and numerical simulation based on FLAC3D. Observation results clearly showed the process of rock spalling failure: a typical spalling pattern around D-shaped tunnels after top-heading and bottom bench were discovered. The orientation and thickness of the slabs were obtained. The slabs were parallel to the excavated surfaces of the tunnel and were related to the shape of the tunnel surface and orientation of the principal stress. The slabs were alternately thick and thin, and they gradually increased in thickness from the sidewall inwards. The form and mechanism of spalling at different locations in the tunnels, as influenced by stress state and excavation, were analysed. The result of this study was helpful to those rethinking the engineering design, including the excavation and support of tunnels, or caverns, at high risk of spalling.

Pleated and Creased Structures

NASA Astrophysics Data System (ADS)

Dudte, Levi; Wei, Zhiyan; Mahadevan, L.

2012-02-01

The strategic placement of curved folds on a paper annulus produces saddle-shaped origami. These exotic geometries resulting from simple design processes motivate our development of a computational tool to simulate the stretching, bending and folding of thin sheets of material. We seek to understand the shape of the curved origami figure by applying the computational tool to simulate a thin annulus with single or multiple folds. We aim to quantify the static geometry of this simplified model in order to delineate methods for actuation and control of similar developable structures with curved folds. Miura-ori pattern is a periodic pleated structure defined in terms of 2 angles and 2 lengths. The unit cell embodies the basic element in all non-trivial pleated structures - the mountain or valley folds, wherein four folds come together at a single vertex. The ability of this structure to pack and unpack with a few degrees of freedom leads to their use in deployable structures such as solar sails and maps, just as this feature is useful in insect wings, plant leaves and flowers. We probe the qualitative and quantitative aspects of the mechanical behavior of these structures with a view to optimizing material performance.

Ice phase in altocumulus clouds over Leipzig: remote sensing observations and detailed modeling

NASA Astrophysics Data System (ADS)

Simmel, M.; Bühl, J.; Ansmann, A.; Tegen, I.

2015-09-01

The present work combines remote sensing observations and detailed cloud modeling to investigate two altocumulus cloud cases observed over Leipzig, Germany. A suite of remote sensing instruments was able to detect primary ice at rather high temperatures of -6 °C. For comparison, a second mixed phase case at about -25 °C is introduced. To further look into the details of cloud microphysical processes, a simple dynamics model of the Asai-Kasahara (AK) type is combined with detailed spectral microphysics (SPECS) forming the model system AK-SPECS. Vertical velocities are prescribed to force the dynamics, as well as main cloud features, to be close to the observations. Subsequently, sensitivity studies with respect to ice microphysical parameters are carried out with the aim to quantify the most important sensitivities for the cases investigated. For the cases selected, the liquid phase is mainly determined by the model dynamics (location and strength of vertical velocity), whereas the ice phase is much more sensitive to the microphysical parameters (ice nucleating particle (INP) number, ice particle shape). The choice of ice particle shape may induce large uncertainties that are on the same order as those for the temperature-dependent INP number distribution.

Ice phase in altocumulus clouds over Leipzig: remote sensing observations and detailed modelling

NASA Astrophysics Data System (ADS)

Simmel, M.; Bühl, J.; Ansmann, A.; Tegen, I.

2015-01-01

The present work combines remote sensing observations and detailed cloud modeling to investigate two altocumulus cloud cases observed over Leipzig, Germany. A suite of remote sensing instruments was able to detect primary ice at rather warm temperatures of -6 °C. For comparison, a second mixed phase case at about -25 °C is introduced. To further look into the details of cloud microphysical processes a simple dynamics model of the Asai-Kasahara type is combined with detailed spectral microphysics forming the model system AK-SPECS. Vertical velocities are prescribed to force the dynamics as well as main cloud features to be close to the observations. Subsequently, sensitivity studies with respect to ice microphysical parameters are carried out with the aim to quantify the most important sensitivities for the cases investigated. For the cases selected, the liquid phase is mainly determined by the model dynamics (location and strength of vertical velocity) whereas the ice phase is much more sensitive to the microphysical parameters (ice nuclei (IN) number, ice particle shape). The choice of ice particle shape may induce large uncertainties which are in the same order as those for the temperature-dependent IN number distribution.

Shape-from-shading using Landsat 8 and airborne laser altimetry over ice sheets: toward new regional DEMs of Greenland and Antarctica

NASA Astrophysics Data System (ADS)

Moussavi, M. S.; Scambos, T.; Haran, T. M.; Klinger, M. J.; Abdalati, W.

2015-12-01

We investigate the capability of Landsat 8's Operational Land Imager (OLI) instrument to quantify subtle ice sheet topography of Greenland and Antarctica. We use photoclinometry, or 'shape-from-shading', a method of deriving surface topography from local variations in image brightness due to varying surface slope. Photoclinomeetry is applicable over ice sheet areas with highly uniform albedo such as regions covered by recent snowfall. OLI imagery is available from both ascending and descending passes near the summer solstice period for both ice sheets. This provides two views of the surface features from two distinct solar azimuth illumination directions. Airborne laser altimetry data from the Airborne Topographic Mapper (ATM) instrument (flying on the Operation Ice Bridge program) are used to quantitatively convert the image brightness variations of surface undulations to surface slope. To validate the new DEM products, we use additional laser altimetry profiles collected over independent sites from Ice Bridge and ICESat, and high-resolution WorldView-2 DEMs. The photoclinometry-derived DEM products will be useful for studying surface elevation changes, enhancing bedrock elevation maps through inversion of surface topography, and inferring local variations in snow accumulation rates.

Simplified model of pinhole imaging for quantifying systematic errors in image shape

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

Benedetti, Laura Robin; Izumi, N.; Khan, S. F.

In this paper, we examine systematic errors in x-ray imaging by pinhole optics for quantifying uncertainties in the measurement of convergence and asymmetry in inertial confinement fusion implosions. We present a quantitative model for the total resolution of a pinhole optic with an imaging detector that more effectively describes the effect of diffraction than models that treat geometry and diffraction as independent. This model can be used to predict loss of shape detail due to imaging across the transition from geometric to diffractive optics. We find that fractional error in observable shapes is proportional to the total resolution element wemore » present and inversely proportional to the length scale of the asymmetry being observed. Finally, we have experimentally validated our results by imaging a single object with differently sized pinholes and with different magnifications.« less

Human eyeball model reconstruction and quantitative analysis.

PubMed

Xing, Qi; Wei, Qi

2014-01-01

Determining shape of the eyeball is important to diagnose eyeball disease like myopia. In this paper, we present an automatic approach to precisely reconstruct three dimensional geometric shape of eyeball from MR Images. The model development pipeline involved image segmentation, registration, B-Spline surface fitting and subdivision surface fitting, neither of which required manual interaction. From the high resolution resultant models, geometric characteristics of the eyeball can be accurately quantified and analyzed. In addition to the eight metrics commonly used by existing studies, we proposed two novel metrics, Gaussian Curvature Analysis and Sphere Distance Deviation, to quantify the cornea shape and the whole eyeball surface respectively. The experiment results showed that the reconstructed eyeball models accurately represent the complex morphology of the eye. The ten metrics parameterize the eyeball among different subjects, which can potentially be used for eye disease diagnosis.

Simplified model of pinhole imaging for quantifying systematic errors in image shape

DOE PAGES

Benedetti, Laura Robin; Izumi, N.; Khan, S. F.; ...

2017-10-30

In this paper, we examine systematic errors in x-ray imaging by pinhole optics for quantifying uncertainties in the measurement of convergence and asymmetry in inertial confinement fusion implosions. We present a quantitative model for the total resolution of a pinhole optic with an imaging detector that more effectively describes the effect of diffraction than models that treat geometry and diffraction as independent. This model can be used to predict loss of shape detail due to imaging across the transition from geometric to diffractive optics. We find that fractional error in observable shapes is proportional to the total resolution element wemore » present and inversely proportional to the length scale of the asymmetry being observed. Finally, we have experimentally validated our results by imaging a single object with differently sized pinholes and with different magnifications.« less

Crystallographically Anisotropic Shape of Forsterite: New Probe for Evaluating Dust Formation History from Infrared Spectroscopy

NASA Astrophysics Data System (ADS)

Takigawa, Aki; Tachibana, Shogo

2012-05-01

Crystalline dust has been observed by infrared spectroscopy around dust-enshrouded asymptotic giant branch stars, in protoplanetary disks, and from some comets. Crystalline materials often have a specific shape related to a specific crystallographic orientation (crystallographically anisotropic shape), which reflects the anisotropic nature of crystals, and their infrared spectral features depend on crystallographically anisotropic shapes. The crystallographically anisotropic shape is thus a potentially powerful probe to evaluate circumstellar dust-forming conditions quantitatively. In order to assess the possibility to determine the crystallographically anisotropic shape from infrared spectra, we calculated mass absorption coefficients for ellipsoidal forsterite particles, the most abundant circumstellar crystalline silicate, elongated and flattened along the crystallographic a-, b-, and c-axes with various aspect ratios in the wavelength range of 9-70 μm. It was found that differences in infrared features caused by various crystallographicaly anisotropic shapes are distinguishable from each other irrespective of the effects of temperature, size, chemical composition, and grain edges of forsterite in the range of 9-12 μm and 15-20 μm. We thus concluded that the crystallographically anisotropic shape of forsterite can be deduced from peak features in infrared spectra. We also showed that the crystallographically anisotropic shapes formed by evaporation and condensation of forsterite can be distinguished from each other and the temperature condition for evaporation can be evaluated from the peak features. We applied the present results to the infrared spectrum of a protoplanetary disk HD100546 and found that a certain fraction (~25%) of forsterite dust may have experienced high-temperature evaporation (>1600 K).

Contributions of feature shapes and surface cues to the recognition of facial expressions.

PubMed

Sormaz, Mladen; Young, Andrew W; Andrews, Timothy J

2016-10-01

Theoretical accounts of face processing often emphasise feature shapes as the primary visual cue to the recognition of facial expressions. However, changes in facial expression also affect the surface properties of the face. In this study, we investigated whether this surface information can also be used in the recognition of facial expression. First, participants identified facial expressions (fear, anger, disgust, sadness, happiness) from images that were manipulated such that they varied mainly in shape or mainly in surface properties. We found that the categorization of facial expression is possible in either type of image, but that different expressions are relatively dependent on surface or shape properties. Next, we investigated the relative contributions of shape and surface information to the categorization of facial expressions. This employed a complementary method that involved combining the surface properties of one expression with the shape properties from a different expression. Our results showed that the categorization of facial expressions in these hybrid images was equally dependent on the surface and shape properties of the image. Together, these findings provide a direct demonstration that both feature shape and surface information make significant contributions to the recognition of facial expressions. Copyright © 2016 Elsevier Ltd. All rights reserved.

Working Memory Units are All in Your Head: Factors that Influence Whether Features or Objects Are the Favored Units

PubMed Central

Vergauwe, Evie; Cowan, Nelson

2015-01-01

We compared two contrasting hypotheses of how multi-featured objects are stored in visual working memory (vWM): as integrated objects or as independent features. A new procedure was devised to examine vWM representations of several concurrently-held objects and their features and our main measure was reaction time (RT), allowing an examination of the real-time search through features and/or objects in an array in vWM. Response speeds to probes with color, shape or both were studied as a function of the number of memorized colored shapes. Four testing groups were created by varying the instructions and the way in which probes with both color and shape were presented. The instructions explicitly either encouraged or discouraged the use of binding information and the task-relevance of binding information was further suggested by presenting probes with both color and shapes as either integrated objects or independent features. Our results show that the unit used for retrieval from vWM depends on the testing situation. Search was fully object-based only when all factors support that basis of search, in which case retrieving two features took no longer than retrieving a single feature. Otherwise, retrieving two features took longer than retrieving a single feature. Additional analyses of change detection latency suggested that, even though different testing situations can result in a stronger emphasis on either the feature dimension or the object dimension, neither one disappears from the representation and both concurrently affect change detection performance. PMID:25705873

Automated noninvasive classification of renal cancer on multiphase CT

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

Linguraru, Marius George; Wang, Shijun; Shah, Furhawn

2011-10-15

Purpose: To explore the added value of the shape of renal lesions for classifying renal neoplasms. To investigate the potential of computer-aided analysis of contrast-enhanced computed-tomography (CT) to quantify and classify renal lesions. Methods: A computer-aided clinical tool based on adaptive level sets was employed to analyze 125 renal lesions from contrast-enhanced abdominal CT studies of 43 patients. There were 47 cysts and 78 neoplasms: 22 Von Hippel-Lindau (VHL), 16 Birt-Hogg-Dube (BHD), 19 hereditary papillary renal carcinomas (HPRC), and 21 hereditary leiomyomatosis and renal cell cancers (HLRCC). The technique quantified the three-dimensional size and enhancement of lesions. Intrapatient and interphasemore » registration facilitated the study of lesion serial enhancement. The histograms of curvature-related features were used to classify the lesion types. The areas under the curve (AUC) were calculated for receiver operating characteristic curves. Results: Tumors were robustly segmented with 0.80 overlap (0.98 correlation) between manual and semi-automated quantifications. The method further identified morphological discrepancies between the types of lesions. The classification based on lesion appearance, enhancement and morphology between cysts and cancers showed AUC = 0.98; for BHD + VHL (solid cancers) vs. HPRC + HLRCC AUC = 0.99; for VHL vs. BHD AUC = 0.82; and for HPRC vs. HLRCC AUC = 0.84. All semi-automated classifications were statistically significant (p < 0.05) and superior to the analyses based solely on serial enhancement. Conclusions: The computer-aided clinical tool allowed the accurate quantification of cystic, solid, and mixed renal tumors. Cancer types were classified into four categories using their shape and enhancement. Comprehensive imaging biomarkers of renal neoplasms on abdominal CT may facilitate their noninvasive classification, guide clinical management, and monitor responses to drugs or interventions.« less

3D model retrieval method based on mesh segmentation

NASA Astrophysics Data System (ADS)

Gan, Yuanchao; Tang, Yan; Zhang, Qingchen

2012-04-01

In the process of feature description and extraction, current 3D model retrieval algorithms focus on the global features of 3D models but ignore the combination of global and local features of the model. For this reason, they show less effective performance to the models with similar global shape and different local shape. This paper proposes a novel algorithm for 3D model retrieval based on mesh segmentation. The key idea is to exact the structure feature and the local shape feature of 3D models, and then to compares the similarities of the two characteristics and the total similarity between the models. A system that realizes this approach was built and tested on a database of 200 objects and achieves expected results. The results show that the proposed algorithm improves the precision and the recall rate effectively.

THE ROLE OF THE HIPPOCAMPUS IN OBJECT DISCRIMINATION BASED ON VISUAL FEATURES.

PubMed

Levcik, David; Nekovarova, Tereza; Antosova, Eliska; Stuchlik, Ales; Klement, Daniel

2018-06-07

The role of rodent hippocampus has been intensively studied in different cognitive tasks. However, its role in discrimination of objects remains controversial due to conflicting findings. We tested whether the number and type of features available for the identification of objects might affect the strategy (hippocampal-independent vs. hippocampal-dependent) that rats adopt to solve object discrimination tasks. We trained rats to discriminate 2D visual objects presented on a computer screen. The objects were defined either by their shape only or by multiple-features (a combination of filling pattern and brightness in addition to the shape). Our data showed that objects displayed as simple geometric shapes are not discriminated by trained rats after their hippocampi had been bilaterally inactivated by the GABA A -agonist muscimol. On the other hand, objects containing a specific combination of non-geometric features in addition to the shape are discriminated even without the hippocampus. Our results suggest that the involvement of the hippocampus in visual object discrimination depends on the abundance of object's features. Copyright © 2018. Published by Elsevier Inc.

Location-Unbound Color-Shape Binding Representations in Visual Working Memory.

PubMed

Saiki, Jun

2016-02-01

The mechanism by which nonspatial features, such as color and shape, are bound in visual working memory, and the role of those features' location in their binding, remains unknown. In the current study, I modified a redundancy-gain paradigm to investigate these issues. A set of features was presented in a two-object memory display, followed by a single object probe. Participants judged whether the probe contained any features of the memory display, regardless of its location. Response time distributions revealed feature coactivation only when both features of a single object in the memory display appeared together in the probe, regardless of the response time benefit from the probe and memory objects sharing the same location. This finding suggests that a shared location is necessary in the formation of bound representations but unnecessary in their maintenance. Electroencephalography data showed that amplitude modulations reflecting location-unbound feature coactivation were different from those reflecting the location-sharing benefit, consistent with the behavioral finding that feature-location binding is unnecessary in the maintenance of color-shape binding. © The Author(s) 2015.

[Landscape pattern gradient dynamics and desakota features in rapid urbanization area: a case study in Panyu of Guangzhou].

PubMed

Yu, Long-Sheng; Fu, Yi-Fu; Yu, Huai-Yi; Li, Zhi-Qin

2011-01-01

In order to understand the landscape pattern gradient dynamics and desakota features in rapid urbanization area, this paper took the rapidly urbanizing Panyu District of Guangzhou City as a case, and analyzed its land use and land cover data, based on four Landsat TM images from 1990 to 2008. With the combination of gradient analysis and landscape pattern analysis, and by using the landscape indices in both class and landscape scales, the spatial dynamics and desakota feature of this rapidly urbanizing district were quantified. In the study district, there was a significant change in the landscape pattern, and a typical desakota feature presented along buffer gradient zones. Urban landscape increased and expanded annually, accompanied with serious fragmentation of agricultural landscape. The indices patch density, contagion, and landscape diversity, etc., changed regularly in the urbanization gradient, and the peak of landscape indices appeared in the gradient zone of 4-6 km away from the urban center. The landscape patterns at time series also reflected the differences among the dynamics in different gradient zones. The landscape pattern in desakota region was characterized by complex patch shape, high landscape diversity and fragmentation, and remarkable landscape dynamics. The peaks of landscape indices spread from the urban center to border areas, and desakota region was expanding gradually. The general trend of spatiotemporal dynamics in desakota region and its driving forces were discussed, which could be benefit to the regional land use policy-making and sustainable development planning.

Changes in quantitative 3D shape features of the optic nerve head associated with age

NASA Astrophysics Data System (ADS)

Christopher, Mark; Tang, Li; Fingert, John H.; Scheetz, Todd E.; Abramoff, Michael D.

2013-02-01

Optic nerve head (ONH) structure is an important biological feature of the eye used by clinicians to diagnose and monitor progression of diseases such as glaucoma. ONH structure is commonly examined using stereo fundus imaging or optical coherence tomography. Stereo fundus imaging provides stereo views of the ONH that retain 3D information useful for characterizing structure. In order to quantify 3D ONH structure, we applied a stereo correspondence algorithm to a set of stereo fundus images. Using these quantitative 3D ONH structure measurements, eigen structures were derived using principal component analysis from stereo images of 565 subjects from the Ocular Hypertension Treatment Study (OHTS). To evaluate the usefulness of the eigen structures, we explored associations with the demographic variables age, gender, and race. Using regression analysis, the eigen structures were found to have significant (p < 0.05) associations with both age and race after Bonferroni correction. In addition, classifiers were constructed to predict the demographic variables based solely on the eigen structures. These classifiers achieved an area under receiver operating characteristic curve of 0.62 in predicting a binary age variable, 0.52 in predicting gender, and 0.67 in predicting race. The use of objective, quantitative features or eigen structures can reveal hidden relationships between ONH structure and demographics. The use of these features could similarly allow specific aspects of ONH structure to be isolated and associated with the diagnosis of glaucoma, disease progression and outcomes, and genetic factors.

Working memory units are all in your head: Factors that influence whether features or objects are the favored units.

PubMed

Vergauwe, Evie; Cowan, Nelson

2015-09-01

We compared two contrasting hypotheses of how multifeatured objects are stored in visual working memory (vWM); as integrated objects or as independent features. A new procedure was devised to examine vWM representations of several concurrently held objects and their features and our main measure was reaction time (RT), allowing an examination of the real-time search through features and/or objects in an array in vWM. Response speeds to probes with color, shape, or both were studied as a function of the number of memorized colored shapes. Four testing groups were created by varying the instructions and the way in which probes with both color and shape were presented. The instructions explicitly either encouraged or discouraged the use of binding information and the task-relevance of binding information was further suggested by presenting probes with both color and shapes as either integrated objects or independent features. Our results show that the unit used for retrieval from vWM depends on the testing situation. Search was fully object-based only when all factors support that basis of search, in which case retrieving 2 features took no longer than retrieving a single feature. Otherwise, retrieving 2 features took longer than retrieving a single feature. Additional analyses of change detection latency suggested that, even though different testing situations can result in a stronger emphasis on either the feature dimension or the object dimension, neither one disappears from the representation and both concurrently affect change detection performance. (c) 2015 APA, all rights reserved).

Can BI-RADS features on mammography be used as a surrogate for expensive genomic testing in breast cancer patients?

NASA Astrophysics Data System (ADS)

Harowicz, Michael R.; Marks, Jeffrey R.; Marcom, P. Kelly; Mazurowski, Maciej A.

2017-03-01

Medical oncologists increasingly rely on expensive genomic analysis to stratify patients for different treatment. The genomic markers are able to divide patients into groups that behave differently in terms of tumor presentation, likelihood of metastatic spread, and response to chemotherapy and radiation therapy. In recent years there has been a rapid increase in the number of genomic tests available, like the Oncotype DX test, which provides the risk of cancer recurrence for a subset of patients. Radiogenomics, a new field that investigates the relationship between imaging phenotypes and genomic characteristics, may offer a less expensive and less invasive imaging surrogate for molecular subtype and Oncotype DX recurrence score (ODRS). This retrospective study analyzes the relationship between Breast Imaging-Reporting and Data System (BI-RADS) features as assessed by radiologists on mammograms with molecular subtype and ODRS. We used data from patients with BI-RADS features (shape or margin) and a genomic feature (subtype or ODRS) for the following cohort: shape vs. subtype (n=69), margin vs. subtype (n=78), shape vs. ODRS (n=20), and margin vs. ODRS (n=18). The association between features was assessed using a Fisher's exact test. Our results show that shape assessed by radiologists according to the BI-RADS lexicon is associated with molecular subtype (p=0.0171), while BI-RADS features of shape and margin were not significantly associated with ODRS (p=0.7839, p=0.6047 respectively).

Understanding Galaxy Shapes Across Cosmic Time Using The IllustrisTNG Simulation

NASA Astrophysics Data System (ADS)

Genel, Shy

2017-08-01

Legacy HST observations have enabled groundbreaking measurements of galaxy structure over cosmic time, measurements that still require theoretical interpretation in the context of a comprehensive galaxy evolution model. This proposed research aims at significantly promoting our understanding of the shapes of galaxies as quantified by their principal axes ratios. The main tool we propose to use is IllustrisTNG, a suite consisting of two of the largest cosmological hydrodynamical simulations run to date, which contain resolved galaxy populations (thousands of L* galaxies) that represent a state-of-the-art match to observed galaxies. In Part I of the program, we will use the simulations to create mock images and study the dependence of projected shape measurements on various factors: shape estimator, observed band, the presence of dust, radial and surface brightness cuts, and noise. We will then perform apples-to-apples comparison with observations (including HST), and provide predictions for archival as well as future observations. Further, we will quantify the intrinsic, three-dimensional, shape distribution of galaxies as a function of various galaxy parameters: redshift, mass, color, and size. In Part II of the program, we will develop theoretical insights into the physical mechanisms driving these results. We will study how galaxy shapes relate to angular momentum and merger history, and will follow the shape evolution of individual galaxies over time, looking for correlations to the evolution of other galaxy properties, e.g. size and SFR. We will also study galaxy shape relations to dark matter halo shape, thereby providing input for high-precision cosmic shear models.

Whisking mechanics and active sensing

PubMed Central

Bush, Nicholas E; Solla, Sara A

2017-01-01

We describe recent advances in quantifying the three-dimensional (3D) geometry and mechanics of whisking. Careful delineation of relevant 3D reference frames reveals important geometric and mechanical distinctions between the localization problem (‘where’ is an object) and the feature extraction problem (‘what’ is an object). Head-centered and resting-whisker reference frames lend themselves to quantifying temporal and kinematic cues used for object localization. The whisking-centered reference frame lends itself to quantifying the contact mechanics likely associated with feature extraction. We offer the ‘windowed sampling’ hypothesis for active sensing: that rats can estimate an object’s spatial features by integrating mechanical information across whiskers during brief (25–60 ms) windows of ‘haptic enclosure’ with the whiskers, a motion that resembles a hand grasp. PMID:27632212

Whisking mechanics and active sensing.

PubMed

Bush, Nicholas E; Solla, Sara A; Hartmann, Mitra Jz

2016-10-01

We describe recent advances in quantifying the three-dimensional (3D) geometry and mechanics of whisking. Careful delineation of relevant 3D reference frames reveals important geometric and mechanical distinctions between the localization problem ('where' is an object) and the feature extraction problem ('what' is an object). Head-centered and resting-whisker reference frames lend themselves to quantifying temporal and kinematic cues used for object localization. The whisking-centered reference frame lends itself to quantifying the contact mechanics likely associated with feature extraction. We offer the 'windowed sampling' hypothesis for active sensing: that rats can estimate an object's spatial features by integrating mechanical information across whiskers during brief (25-60ms) windows of 'haptic enclosure' with the whiskers, a motion that resembles a hand grasp. Copyright © 2016. Published by Elsevier Ltd.

Use of sonic tomography to detect and quantify wood decay in living trees1

PubMed Central

Gilbert, Gregory S.; Ballesteros, Javier O.; Barrios-Rodriguez, Cesar A.; Bonadies, Ernesto F.; Cedeño-Sánchez, Marjorie L.; Fossatti-Caballero, Nohely J.; Trejos-Rodríguez, Mariam M.; Pérez-Suñiga, José Moises; Holub-Young, Katharine S.; Henn, Laura A. W.; Thompson, Jennifer B.; García-López, Cesar G.; Romo, Amanda C.; Johnston, Daniel C.; Barrick, Pablo P.; Jordan, Fulvia A.; Hershcovich, Shiran; Russo, Natalie; Sánchez, Juan David; Fábrega, Juan Pablo; Lumpkin, Raleigh; McWilliams, Hunter A.; Chester, Kathleen N.; Burgos, Alana C.; Wong, E. Beatriz; Diab, Jonathan H.; Renteria, Sonia A.; Harrower, Jennifer T.; Hooton, Douglas A.; Glenn, Travis C.; Faircloth, Brant C.; Hubbell, Stephen P.

2016-01-01

Premise of the study: Field methodology and image analysis protocols using acoustic tomography were developed and evaluated as a tool to estimate the amount of internal decay and damage of living trees, with special attention to tropical rainforest trees with irregular trunk shapes. Methods and Results: Living trunks of a diversity of tree species in tropical rainforests in the Republic of Panama were scanned using an Argus Electronic PiCUS 3 Sonic Tomograph and evaluated for the amount and patterns of internal decay. A protocol using ImageJ analysis software was used to quantify the proportions of intact and compromised wood. The protocols provide replicable estimates of internal decay and cavities for trees of varying shapes, wood density, and bark thickness. Conclusions: Sonic tomography, coupled with image analysis, provides an efficient, noninvasive approach to evaluate decay patterns and structural integrity of even irregularly shaped living trees. PMID:28101433

Shapes and features of the primordial bispectrum

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

Gong, Jinn-Ouk; Palma, Gonzalo A.; Sypsas, Spyros, E-mail: jinn-ouk.gong@apctp.org, E-mail: gpalmaquilod@ing.uchile.cl, E-mail: s.sypsas@gmail.com

If time-dependent disruptions from slow-roll occur during inflation, the correlation functions of the primordial curvature perturbation should have scale-dependent features, a case which is marginally supported from the cosmic microwave background (CMB) data. We offer a new approach to analyze the appearance of such features in the primordial bispectrum that yields new consistency relations and justifies the search of oscillating patterns modulated by orthogonal and local templates. Under the assumption of sharp features, we find that the cubic couplings of the curvature perturbation can be expressed in terms of the bispectrum in two specific momentum configurations, for example local andmore » equilateral. This allows us to derive consistency relations among different bispectrum shapes, which in principle could be tested in future CMB surveys. Furthermore, based on the form of the consistency relations, we construct new two-parameter templates for features that include all the known shapes.« less

Evaluation of Shape and Textural Features from CT as Prognostic Biomarkers in Non-small Cell Lung Cancer.

PubMed

Bianconi, Francesco; Fravolini, Mario Luca; Bello-Cerezo, Raquel; Minestrini, Matteo; Scialpi, Michele; Palumbo, Barbara

2018-04-01

We retrospectively investigated the prognostic potential (correlation with overall survival) of 9 shape and 21 textural features from non-contrast-enhanced computed tomography (CT) in patients with non-small-cell lung cancer. We considered a public dataset of 203 individuals with inoperable, histologically- or cytologically-confirmed NSCLC. Three-dimensional shape and textural features from CT were computed using proprietary code and their prognostic potential evaluated through four different statistical protocols. Volume and grey-level run length matrix (GLRLM) run length non-uniformity were the only two features to pass all four protocols. Both features correlated negatively with overall survival. The results also showed a strong dependence on the evaluation protocol used. Tumour volume and GLRLM run-length non-uniformity from CT were the best predictor of survival in patients with non-small-cell lung cancer. We did not find enough evidence to claim a relationship with survival for the other features. Copyright© 2018, International Institute of Anticancer Research (Dr. George J. Delinasios), All rights reserved.

Automated egg grading system using computer vision: Investigation on weight measure versus shape parameters

NASA Astrophysics Data System (ADS)

Nasir, Ahmad Fakhri Ab; Suhaila Sabarudin, Siti; Majeed, Anwar P. P. Abdul; Ghani, Ahmad Shahrizan Abdul

2018-04-01

Chicken egg is a source of food of high demand by humans. Human operators cannot work perfectly and continuously when conducting egg grading. Instead of an egg grading system using weight measure, an automatic system for egg grading using computer vision (using egg shape parameter) can be used to improve the productivity of egg grading. However, early hypothesis has indicated that more number of egg classes will change when using egg shape parameter compared with using weight measure. This paper presents the comparison of egg classification by the two above-mentioned methods. Firstly, 120 images of chicken eggs of various grades (A–D) produced in Malaysia are captured. Then, the egg images are processed using image pre-processing techniques, such as image cropping, smoothing and segmentation. Thereafter, eight egg shape features, including area, major axis length, minor axis length, volume, diameter and perimeter, are extracted. Lastly, feature selection (information gain ratio) and feature extraction (principal component analysis) are performed using k-nearest neighbour classifier in the classification process. Two methods, namely, supervised learning (using weight measure as graded by egg supplier) and unsupervised learning (using egg shape parameters as graded by ourselves), are conducted to execute the experiment. Clustering results reveal many changes in egg classes after performing shape-based grading. On average, the best recognition results using shape-based grading label is 94.16% while using weight-based label is 44.17%. As conclusion, automated egg grading system using computer vision is better by implementing shape-based features since it uses image meanwhile the weight parameter is more suitable by using weight grading system.

Scaling the Morphology of Sapping and Pressurized Groundwater Experiments to Martian Valleys

NASA Astrophysics Data System (ADS)

Marra, W. A.; Kleinhans, M. G.

2013-12-01

Various valleys exist on Mars, which shows the former existence of fluvial activity and thus liquid water at the surface. Although these valleys show similarities with some valleys on Earth, many morphological features are unique for Mars or are very rare on Earth. Therefore, we lack knowledge about the formative processes of these enigmatic valleys. In this study, we explored possible groundwater scenarios for the formation of these valleys using flume experiments, as there are no pure Earth analogues for these systems. We aim to infer their formative processes from morphological properties. A series of flume experiments were carried out in a 4x6x1 m experimental setup, where we observed the valley formation as result from seeping groundwater by both local and distal groundwater sources and by pressurized groundwater release. Time-lapse imagery and DEMs of the experiments show the morphological development, associated processes, and landscape evolution. Indicators of the processes where we particularly looked at were changes in valley slope, cross-sectional shape, the relations between valley dimensions, and regional landscape properties as drainage density and valley size distributions. Hydrological modelling assists in scaling the observed experimental features to real-world systems. Additionally, we looked at valleys on Earth in the Atacama Desert, at Box canyon in Idaho, valleys around Kohala on Hawaii and Apalachicola bluffs in Florida to test the applicability of our methods to real-world systems. In the seeping groundwater valleys, valleys develop due to a combination of mass-wasting failures, mudflows and fluvial flow. The latter two processes are expressed in the final morphology by a break in slope. The mass wasting processes result in U-shaped valleys, which are more pronounced in distal groundwater cases. However, in real-world cases of similar shaped valleys, the cross-sectional shape seems strongly influenced by the strength of the material as well. Groundwater flow piracy of multiple valleys within one system are characterized by equal ratios of width and length development, a property that is absent in case of a local groundwater source which does not induce flow piracy. In case of pressurized groundwater release, the sediment surface in the source area fractured and pits developed due to high groundwater pressure. The resulting valley head consisted of feather-shaped converging flow features. Scaling of the non-fluvial features that relate to groundwater pressure is possible by using hydrological modelling of groundwater pressure and geophysical modelling of the behaviour of the material under such pressures. Our results on sapping valley formation, combined with insights from multiple terrestrial sites of similar valleys contribute to the discussion of some enigmatic valleys on Mars. We provide several quantitative morphological measures, which directly relate to the formative process, which is valuable in linking morphology to the formative process. Our results on pressurized groundwater release prove a long-standing hypothesis on the formation on some of the largest valleys observed in our solar system. In both cases, the insights in the formative processes enable us to quantify the amount of water required for the formation of groundwater-induced Martian valleys.

Dimensional control of die castings

NASA Astrophysics Data System (ADS)

Karve, Aniruddha Ajit

The demand for net shape die castings, which require little or no machining, is steadily increasing. Stringent customer requirements are forcing die casters to deliver high quality castings in increasingly short lead times. Dimensional conformance to customer specifications is an inherent part of die casting quality. The dimensional attributes of a die casting are essentially dependent upon many factors--the quality of the die and the degree of control over the process variables being the two major sources of dimensional error in die castings. This study focused on investigating the nature and the causes of dimensional error in die castings. The two major components of dimensional error i.e., dimensional variability and die allowance were studied. The major effort of this study was to qualitatively and quantitatively study the effects of casting geometry and process variables on die casting dimensional variability and die allowance. This was accomplished by detailed dimensional data collection at production die casting sites. Robust feature characterization schemes were developed to describe complex casting geometry in quantitative terms. Empirical modeling was utilized to quantify the effects of the casting variables on dimensional variability and die allowance for die casting features. A number of casting geometry and process variables were found to affect dimensional variability in die castings. The dimensional variability was evaluated by comparisons with current published dimensional tolerance standards. The casting geometry was found to play a significant role in influencing the die allowance of the features measured. The predictive models developed for dimensional variability and die allowance were evaluated to test their effectiveness. Finally, the relative impact of all the components of dimensional error in die castings was put into perspective, and general guidelines for effective dimensional control in the die casting plant were laid out. The results of this study will contribute to enhancement of dimensional quality and lead time compression in the die casting industry, thus making it competitive with other net shape manufacturing processes.

Development for 2D pattern quantification method on mask and wafer

NASA Astrophysics Data System (ADS)

Matsuoka, Ryoichi; Mito, Hiroaki; Toyoda, Yasutaka; Wang, Zhigang

2010-03-01

We have developed the effective method of mask and silicon 2-dimensional metrology. The aim of this method is evaluating the performance of the silicon corresponding to Hotspot on a mask. The method adopts a metrology management system based on DBM (Design Based Metrology). This is the high accurate contouring created by an edge detection algorithm used in mask CD-SEM and silicon CD-SEM. Currently, as semiconductor manufacture moves towards even smaller feature size, this necessitates more aggressive optical proximity correction (OPC) to drive the super-resolution technology (RET). In other words, there is a trade-off between highly precise RET and mask manufacture, and this has a big impact on the semiconductor market that centers on the mask business. 2-dimensional Shape quantification is important as optimal solution over these problems. Although 1-dimensional shape measurement has been performed by the conventional technique, 2-dimensional shape management is needed in the mass production line under the influence of RET. We developed the technique of analyzing distribution of shape edge performance as the shape management technique. On the other hand, there is roughness in the silicon shape made from a mass-production line. Moreover, there is variation in the silicon shape. For this reason, quantification of silicon shape is important, in order to estimate the performance of a pattern. In order to quantify, the same shape is equalized in two dimensions. And the method of evaluating based on the shape is popular. In this study, we conducted experiments for averaging method of the pattern (Measurement Based Contouring) as two-dimensional mask and silicon evaluation technique. That is, observation of the identical position of a mask and a silicon was considered. It is possible to analyze variability of the edge of the same position with high precision. The result proved its detection accuracy and reliability of variability on two-dimensional pattern (mask and silicon) and is adaptable to following fields of mask quality management. - Estimate of the correlativity of shape variability and a process margin. - Determination of two-dimensional variability of pattern. - Verification of the performance of the pattern of various kinds of Hotspots. In this report, we introduce the experimental results and the application. We expect that the mask measurement and the shape control on mask production will make a huge contribution to mask yield-enhancement and that the DFM solution for mask quality control process will become much more important technology than ever. It is very important to observe the shape of the same location of Design, Mask, and Silicon in such a viewpoint.

Laplace-Beltrami Eigenvalues and Topological Features of Eigenfunctions for Statistical Shape Analysis

PubMed Central

Reuter, Martin; Wolter, Franz-Erich; Shenton, Martha; Niethammer, Marc

2009-01-01

This paper proposes the use of the surface based Laplace-Beltrami and the volumetric Laplace eigenvalues and -functions as shape descriptors for the comparison and analysis of shapes. These spectral measures are isometry invariant and therefore allow for shape comparisons with minimal shape pre-processing. In particular, no registration, mapping, or remeshing is necessary. The discriminatory power of the 2D surface and 3D solid methods is demonstrated on a population of female caudate nuclei (a subcortical gray matter structure of the brain, involved in memory function, emotion processing, and learning) of normal control subjects and of subjects with schizotypal personality disorder. The behavior and properties of the Laplace-Beltrami eigenvalues and -functions are discussed extensively for both the Dirichlet and Neumann boundary condition showing advantages of the Neumann vs. the Dirichlet spectra in 3D. Furthermore, topological analyses employing the Morse-Smale complex (on the surfaces) and the Reeb graph (in the solids) are performed on selected eigenfunctions, yielding shape descriptors, that are capable of localizing geometric properties and detecting shape differences by indirectly registering topological features such as critical points, level sets and integral lines of the gradient field across subjects. The use of these topological features of the Laplace-Beltrami eigenfunctions in 2D and 3D for statistical shape analysis is novel. PMID:20161035

Shape Adaptive, Robust Iris Feature Extraction from Noisy Iris Images

PubMed Central

Ghodrati, Hamed; Dehghani, Mohammad Javad; Danyali, Habibolah

2013-01-01

In the current iris recognition systems, noise removing step is only used to detect noisy parts of the iris region and features extracted from there will be excluded in matching step. Whereas depending on the filter structure used in feature extraction, the noisy parts may influence relevant features. To the best of our knowledge, the effect of noise factors on feature extraction has not been considered in the previous works. This paper investigates the effect of shape adaptive wavelet transform and shape adaptive Gabor-wavelet for feature extraction on the iris recognition performance. In addition, an effective noise-removing approach is proposed in this paper. The contribution is to detect eyelashes and reflections by calculating appropriate thresholds by a procedure called statistical decision making. The eyelids are segmented by parabolic Hough transform in normalized iris image to decrease computational burden through omitting rotation term. The iris is localized by an accurate and fast algorithm based on coarse-to-fine strategy. The principle of mask code generation is to assign the noisy bits in an iris code in order to exclude them in matching step is presented in details. An experimental result shows that by using the shape adaptive Gabor-wavelet technique there is an improvement on the accuracy of recognition rate. PMID:24696801

Shape adaptive, robust iris feature extraction from noisy iris images.

PubMed

Ghodrati, Hamed; Dehghani, Mohammad Javad; Danyali, Habibolah

2013-10-01

In the current iris recognition systems, noise removing step is only used to detect noisy parts of the iris region and features extracted from there will be excluded in matching step. Whereas depending on the filter structure used in feature extraction, the noisy parts may influence relevant features. To the best of our knowledge, the effect of noise factors on feature extraction has not been considered in the previous works. This paper investigates the effect of shape adaptive wavelet transform and shape adaptive Gabor-wavelet for feature extraction on the iris recognition performance. In addition, an effective noise-removing approach is proposed in this paper. The contribution is to detect eyelashes and reflections by calculating appropriate thresholds by a procedure called statistical decision making. The eyelids are segmented by parabolic Hough transform in normalized iris image to decrease computational burden through omitting rotation term. The iris is localized by an accurate and fast algorithm based on coarse-to-fine strategy. The principle of mask code generation is to assign the noisy bits in an iris code in order to exclude them in matching step is presented in details. An experimental result shows that by using the shape adaptive Gabor-wavelet technique there is an improvement on the accuracy of recognition rate.

Morphological evolution through integration: a quantitative study of cranial integration in Homo, Pan, Gorilla and Pongo.

PubMed

Singh, Nandini; Harvati, Katerina; Hublin, Jean-Jacques; Klingenberg, Christian P

2012-01-01

Morphological integration refers to coordinated variation among traits that are closely related in development and/or function. Patterns of integration can offer important insight into the structural relationship between phenotypic units, providing a framework to address questions about phenotypic evolvability and constraints. Integrative features of the primate cranium have recently become a popular subject of study. However, an important question that still remains under-investigated is: what is the pattern of cranial shape integration among closely related hominoids? To address this question, we conducted a Procrustes-based geometric morphometrics study to quantify and analyze shape covariation patterns between different cranial regions in Homo, Pan, Gorilla and Pongo. A total of fifty-six 3D landmarks were collected on 407 adult individuals. We then sub-divided the landmarks corresponding to cranial units as outlined in the 'functional matrix hypothesis.' Sub-dividing the cranium in this manner allowed us to explore patterns of covariation between the face, basicranium and cranial vault, using the two-block partial least squares approach. Our results suggest that integrated shape changes in the hominoid cranium are complex, but that the overall pattern of integration is similar among human and non-human apes. Thus, despite having very distinct morphologies the way in which the face, basicranium and cranial vault covary is shared among these taxa. These results imply that the pattern of cranial integration among hominoids is conserved. Copyright © 2011 Elsevier Ltd. All rights reserved.

A Formant Range Profile for Singers.

PubMed

Titze, Ingo R; Maxfield, Lynn M; Walker, Megan C

2017-05-01

Vowel selection is important in differentiating between singing styles. The timbre of the vocal instrument, which is related to its frequency spectrum, is governed by both the glottal sound source and the vowel choices made by singers. Consequently, the ability to modify the vowel space is a measure of how successfully a singer can maintain a desired timbre across a range of pitches. Formant range profiles were produced as a means of quantifying this ability. Seventy-seven subjects (including trained and untrained vocalists) participated, producing vowels with three intended mouth shapes: (1) neutral or speech-like, (2) megaphone-shaped (wide open mouth), and (3) inverted-megaphone-shaped (widened oropharynx with moderate mouth opening). The first and second formant frequencies (F 1 and F 2 ) were estimated with fry phonation for each shape and values were plotted in F1-F2 space. By taking four vowels of a quadrangle /i, æ, a, u/, the resulting area was quantified in kHz 2 (kHz squared) as a measure of the subject's ability to modify their vocal tract for spectral differences. Copyright © 2017 The Voice Foundation. Published by Elsevier Inc. All rights reserved.

A FORMANT RANGE PROFILE FOR SINGERS

PubMed Central

Titze, Ingo R.; Maxfield, Lynn; Walker, Megan

2016-01-01

Vowel selection is important in differentiating between singing styles. The timbre of the vocal instrument, which is related to its frequency spectrum, is governed by both the glottal sound source and the vowel choices made by singers. Consequently, the ability to modify the vowel space is a measure of how successfully a singer can maintain a desired timbre across a range of pitches. Formant range profiles (FRPs) were produced as a means of quantifying this ability. 77 subjects (including trained and untrained vocalists) participated, producing vowels with three intended mouth shapes, (1) neutral or speech-like, (2) megaphone-shaped (wide open mouth), and (3) inverted-megaphone-shaped (widened oropharynx with moderate mouth opening). The first and second formant frequencies (F1 and F2) were estimated with fry phonation for each shape and values were plotted in F1–F2 space. By taking four vowels of a quadrangle /i, æ, a, u/, the resulting area was quantified in kHz2 (kHz squared) as a measure of the subject’s ability to modify their vocal tract for spectral differences. PMID:28029556

Selective processing of multiple features in the human brain: effects of feature type and salience.

PubMed

McGinnis, E Menton; Keil, Andreas

2011-02-09

Identifying targets in a stream of items at a given constant spatial location relies on selection of aspects such as color, shape, or texture. Such attended (target) features of a stimulus elicit a negative-going event-related brain potential (ERP), termed Selection Negativity (SN), which has been used as an index of selective feature processing. In two experiments, participants viewed a series of Gabor patches in which targets were defined as a specific combination of color, orientation, and shape. Distracters were composed of different combinations of color, orientation, and shape of the target stimulus. This design allows comparisons of items with and without specific target features. Consistent with previous ERP research, SN deflections extended between 160-300 ms. Data from the subsequent P3 component (300-450 ms post-stimulus) were also examined, and were regarded as an index of target processing. In Experiment A, predominant effects of target color on SN and P3 amplitudes were found, along with smaller ERP differences in response to variations of orientation and shape. Manipulating color to be less salient while enhancing the saliency of the orientation of the Gabor patch (Experiment B) led to delayed color selection and enhanced orientation selection. Topographical analyses suggested that the location of SN on the scalp reliably varies with the nature of the to-be-attended feature. No interference of non-target features on the SN was observed. These results suggest that target feature selection operates by means of electrocortical facilitation of feature-specific sensory processes, and that selective electrocortical facilitation is more effective when stimulus saliency is heightened.

Programming 2D/3D shape-shifting with hobbyist 3D printers† †Electronic supplementary information (ESI) available. See DOI: 10.1039/c7mh00269f

PubMed Central

van Manen, Teunis; Janbaz, Shahram

2017-01-01

Materials and devices with advanced functionalities often need to combine complex 3D shapes with functionality-inducing surface features. Precisely controlled bio-nanopatterns, printed electronic components, and sensors/actuators are all examples of such surface features. However, the vast majority of the refined technologies that are currently available for creating functional surface features work only on flat surfaces. Here we present initially flat constructs that upon triggering by high temperatures change their shape to a pre-programmed 3D shape, thereby enabling the combination of surface-related functionalities with complex 3D shapes. A number of shape-shifting materials have been proposed during the last few years based on various types of advanced technologies. The proposed techniques often require multiple fabrication steps and special materials, while being limited in terms of the 3D shapes they could achieve. The approach presented here is a single-step printing process that requires only a hobbyist 3D printer and inexpensive off-the-shelf materials. It also lends itself to a host of design strategies based on self-folding origami, instability-driven pop-up, and ‘sequential’ shape-shifting to unprecedentedly expand the space of achievable 3D shapes. This combination of simplicity and versatility is a key to widespread applications. PMID:29308207

TU-CD-BRB-04: Automated Radiomic Features Complement the Prognostic Value of VASARI in the TCGA-GBM Dataset

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

Velazquez, E Rios; Narayan, V; Grossmann, P

2015-06-15

Purpose: To compare the complementary prognostic value of automated Radiomic features to that of radiologist-annotated VASARI features in TCGA-GBM MRI dataset. Methods: For 96 GBM patients, pre-operative MRI images were obtained from The Cancer Imaging Archive. The abnormal tumor bulks were manually defined on post-contrast T1w images. The contrast-enhancing and necrotic regions were segmented using FAST. From these sub-volumes and the total abnormal tumor bulk, a set of Radiomic features quantifying phenotypic differences based on the tumor intensity, shape and texture, were extracted from the post-contrast T1w images. Minimum-redundancy-maximum-relevance (MRMR) was used to identify the most informative Radiomic, VASARI andmore » combined Radiomic-VASARI features in 70% of the dataset (training-set). Multivariate Cox-proportional hazards models were evaluated in 30% of the dataset (validation-set) using the C-index for OS. A bootstrap procedure was used to assess significance while comparing the C-Indices of the different models. Results: Overall, the Radiomic features showed a moderate correlation with the radiologist-annotated VASARI features (r = −0.37 – 0.49); however that correlation was stronger for the Tumor Diameter and Proportion of Necrosis VASARI features (r = −0.71 – 0.69). After MRMR feature selection, the best-performing Radiomic, VASARI, and Radiomic-VASARI Cox-PH models showed a validation C-index of 0.56 (p = NS), 0.58 (p = NS) and 0.65 (p = 0.01), respectively. The combined Radiomic-VASARI model C-index was significantly higher than that obtained from either the Radiomic or VASARI model alone (p = <0.001). Conclusion: Quantitative volumetric and textural Radiomic features complement the qualitative and semi-quantitative annotated VASARI feature set. The prognostic value of informative qualitative VASARI features such as Eloquent Brain and Multifocality is increased with the addition of quantitative volumetric and textural features from the contrast-enhancing and necrotic tumor regions. These results should be further evaluated in larger validation cohorts.« less

A Preliminary Shape Model of 27 Euterpe

NASA Astrophysics Data System (ADS)

Stephens, R.; Warner, B. D.; Megna, R.; Coley, D.

2011-10-01

We obtained dense rotational lightcurves for the Main-Belt asteroid (27) Euterpe during three apparitions in 2000, 2009 and 2010 with planned observations in the summer of 2011. These were combined with sparse lightcurve data from the USNO to determine a preliminary spin vector and model shape (see Durech et al. [2] for a discussion regarding the differences between dense and sparse data sets). The analysis suggests that Euterpe has albedo features making the determination of an unambiguous spin vector and model shape difficult. So far, Euterpe's near spherical shape, low inclination, pole within 30 degrees of the plane of the solar system, and possible albedo features cause multiple pole and shape solutions to be present.

The Colorado Ultraviolet Transit Experiment (CUTE): Observing Mass Loss on Short-Period Exoplanets

NASA Astrophysics Data System (ADS)

Egan, Arika; Fleming, Brian; France, Kevin

2018-06-01

The Colorado Ultraviolet Transit Experiment (CUTE) is an NUV spectrograph packaged into a 6U CubeSat, designed to characterize the interaction between exoplanetary atmospheres and their host stars. CUTE will conduct a transit spectroscopy survey, gathering data over multiple transits on more than 12 short-period exoplanets with a range of masses and radii. The instrument will characterize the spectral properties of the transit light curves to < 1% depth sensitivity. The NUV is host to several high oscillator strength atomic and molecular absorption features predicted to exist in the upper atmospheres of these planets, including Mg I, Mg II, Fe II, and OH. The shape and evolution of these spectral light curves will be used to quantify mass loss rates, the stellar drives of that mass loss, and the possible existence of exoplanetary magnetic fiends. This poster presents the science motivation for CUTE, planned observation and data analysis methods, and expected results.

Measurement of subcellular texture by optical Gabor-like filtering with a digital micromirror device

PubMed Central

Pasternack, Robert M.; Qian, Zhen; Zheng, Jing-Yi; Metaxas, Dimitris N.; White, Eileen; Boustany, Nada N.

2010-01-01

We demonstrate an optical Fourier processing method to quantify object texture arising from subcellular feature orientation within unstained living cells. Using a digital micromirror device as a Fourier spatial filter, we measured cellular responses to two-dimensional optical Gabor-like filters optimized to sense orientation of nonspherical particles, such as mitochondria, with a width around 0.45 μm. Our method showed significantly rounder structures within apoptosis-defective cells lacking the proapoptotic mitochondrial effectors Bax and Bak, when compared with Bax/Bak expressing cells functional for apoptosis, consistent with reported differences in mitochondrial shape in these cells. By decoupling spatial frequency resolution from image resolution, this method enables rapid analysis of nonspherical submicrometer scatterers in an under-sampled large field of view and yields spatially localized morphometric parameters that improve the quantitative assessment of biological function. PMID:18830354

Contingent attentional capture across multiple feature dimensions in a temporal search task.

PubMed

Ito, Motohiro; Kawahara, Jun I

2016-01-01

The present study examined whether attention can be flexibly controlled to monitor two different feature dimensions (shape and color) in a temporal search task. Specifically, we investigated the occurrence of contingent attentional capture (i.e., interference from task-relevant distractors) and resulting set reconfiguration (i.e., enhancement of single task-relevant set). If observers can restrict searches to a specific value for each relevant feature dimension independently, the capture and reconfiguration effect should only occur when the single relevant distractor in each dimension appears. Participants identified a target letter surrounded by a non-green square or a non-square green frame. The results revealed contingent attentional capture, as target identification accuracy was lower when the distractor contained a target-defining feature than when it contained a nontarget feature. Resulting set reconfiguration was also obtained in that accuracy was superior when the current target's feature (e.g., shape) corresponded to the defining feature of the present distractor (shape) than when the current target's feature did not match the distractor's feature (color). This enhancement was not due to perceptual priming. The present study demonstrated that the principles of contingent attentional capture and resulting set reconfiguration held even when multiple target feature dimensions were monitored. Copyright © 2015 Elsevier B.V. All rights reserved.

Objective research on tongue manifestation of patients with eczema.

PubMed

Yu, Zhifeng; Zhang, Haifang; Fu, Linjie; Lu, Xiaozuo

2017-07-20

Tongue observation often depends on subjective judgment, it is necessary to establish an objective and quantifiable standard for tongue observation. To discuss the features of tongue manifestation of patients who suffered from eczema with different types and to reveal the clinical significance of the tongue images. Two hundred patients with eczema were recruited and divided into three groups according to the diagnostic criteria. Acute group had 47 patients, subacute group had 82 patients, and chronic group had 71 patients. The computerized tongue image digital analysis device was used to detect tongue parameters. The L*a*b* color model was applied to classify tongue parameters quantitatively. For parameters such as tongue color, tongue shape, color of tongue coating, and thickness or thinness of tongue coating, there was a significant difference among acute group, subacute group and chronic group (P< 0.05). For Lab values of both tongue and tongue coating, there was statistical significance among the above types of eczema (P< 0.05). Tongue images can reflect some features of eczema, and different types of eczema may be related to the changes of tongue images. The computerized tongue image digital analysis device can reflect the tongue characteristics of patients with eczema objectively.

Algorithm for Automatic Behavior Quantification of Laboratory Mice Using High-Frame-Rate Videos

NASA Astrophysics Data System (ADS)

Nie, Yuman; Takaki, Takeshi; Ishii, Idaku; Matsuda, Hiroshi

In this paper, we propose an algorithm for automatic behavior quantification in laboratory mice to quantify several model behaviors. The algorithm can detect repetitive motions of the fore- or hind-limbs at several or dozens of hertz, which are too rapid for the naked eye, from high-frame-rate video images. Multiple repetitive motions can always be identified from periodic frame-differential image features in four segmented regions — the head, left side, right side, and tail. Even when a mouse changes its posture and orientation relative to the camera, these features can still be extracted from the shift- and orientation-invariant shape of the mouse silhouette by using the polar coordinate system and adjusting the angle coordinate according to the head and tail positions. The effectiveness of the algorithm is evaluated by analyzing long-term 240-fps videos of four laboratory mice for six typical model behaviors: moving, rearing, immobility, head grooming, left-side scratching, and right-side scratching. The time durations for the model behaviors determined by the algorithm have detection/correction ratios greater than 80% for all the model behaviors. This shows good quantification results for actual animal testing.

A protocol for the creation of useful geometric shape metrics illustrated with a newly derived geometric measure of leaf circularity.

PubMed

Krieger, Jonathan D

2014-08-01

I present a protocol for creating geometric leaf shape metrics to facilitate widespread application of geometric morphometric methods to leaf shape measurement. • To quantify circularity, I created a novel shape metric in the form of the vector between a circle and a line, termed geometric circularity. Using leaves from 17 fern taxa, I performed a coordinate-point eigenshape analysis to empirically identify patterns of shape covariation. I then compared the geometric circularity metric to the empirically derived shape space and the standard metric, circularity shape factor. • The geometric circularity metric was consistent with empirical patterns of shape covariation and appeared more biologically meaningful than the standard approach, the circularity shape factor. The protocol described here has the potential to make geometric morphometrics more accessible to plant biologists by generalizing the approach to developing synthetic shape metrics based on classic, qualitative shape descriptors.

Solute transport by flow yields geometric shocks in shape evolution

NASA Astrophysics Data System (ADS)

Huang, Jinzi (Mac); Davies Wykes, Megan; Hajjar, George; Ristroph, Leif; Shelley, Michael

2017-11-01

Geological processes such as erosion and dissolution of surfaces often lead to striking shapes with strikingly sharp features. We present observations of such features forming in dissolution under gravity. In our experiment, a dissolving body with initially smooth surface evolves into an increasingly sharp needle shape. A mathematical model of its shape dynamics, derived from a boundary layer theory, predicts that a geometric shock forms at the tip of dissolved body, with the tip curvature becoming infinite in finite time. We further discuss the model's application to similar processes, such as flow driven erosion which can yield corners.

Experience with Malleable Objects Influences Shape-based Object Individuation by Infants

PubMed Central

Woods, Rebecca J.; Schuler, Jena

2014-01-01

Infants’ ability to accurately represent and later recognize previously viewed objects, and conversely, to discriminate novel objects from those previously seen improves remarkably over the first two years of life. During this time, infants acquire extensive experience viewing and manipulating objects and these experiences influence their physical reasoning. Here we posited that infants’ observations of object feature stability (rigid versus malleable) can influence use of those features to individuate two successively viewed objects. We showed 8.5-month-olds a series of objects that could or could not change shape then assessed their use of shape as a basis for object individuation. Infants who explored rigid objects later used shape differences to individuate objects; however, infants who explored malleable objects did not. This outcome suggests that the latter infants did not take into account shape differences during the physical reasoning task and provides further evidence that infants’ attention to object features can be readily modified based on recent experiences. PMID:24561541

A benchmark study for the crown-type splashing dynamics of one- and two-component droplet wall-film interactions

NASA Astrophysics Data System (ADS)

Geppert, A.; Terzis, A.; Lamanna, G.; Marengo, M.; Weigand, B.

2017-12-01

The present paper investigates experimentally the impact dynamics of crown-type splashing for miscible two- and one-component droplet wall-film interactions over a range of Weber numbers and dimensionless film thicknesses. The splashing outcome is parametrised in terms of a set of quantifiable parameters, such as crown height, top and base diameter, wall inclination, number of fingers, and secondary droplet properties. The results show that the outcome of a splashing event is not affected by the choice of similar or dissimilar fluids, provided the dimensionless film thickness is larger than 0.1. Below this threshold, distinctive features of two-component interactions appear, such as hole formation and crown bottom breakdown. The observation of different crown shapes (e.g. V-shaped, cylindrical, and truncated-cone) confirms that vorticity production induces changes in the crown wall inclination, thus affecting the evolution of the crown height and top diameter. The evolution of the crown base diameter, instead, is mainly dependent on the relative importance of liquid inertia and viscous losses in the wall-film. The maximum number of liquid fingers decreases with increasing wall, film thickness, due to the enhanced attenuation of the effect of surface properties on the fingering process. The formation of secondary droplets is also affected by changes in the crown wall inclination. In particular, for truncated-cone shapes the occurrence of crown rim contraction induces a large scatter in the secondary droplet properties. Consequently, empirical models for the maximum number and mean diameter of the secondary droplets are derived for V-shaped crowns, as observed for the hexadecane-Hyspin interactions.

Modeling the risk: innovative approaches to understand and quantify the risk of severe FB injury.

PubMed

Berchialla, Paola; Bellussi, Luisa; Castella, Annalisa; Snidero, Silvia; Passali, Desiderio; Gregori, Dario

2012-05-14

The entry of a small item into the respiratory or digestive tract is still one of the leading causes of injuries in children up to 14 years old. The aim of the paper is to provide a quantitative risk assessment analysis for identifying consumer product features which contribute to increase the risk of sustaining a severe injury. Data on foreign body injuries were collected in 28 European countries and one Pakistani hospital. A total of 7296 cases were classified according to ICD-9CM 931-935. Information about injuries included age and gender of the injured child, circumstances of the accident and foreign body features. A classification tree was set up in order to analyze the impact of the item features like volume shape and rigidity on the severity of the injury. Males are involved in severe injuries more often than females. Most severe injuries when the foreign body is localized in the ears were due to objects with volume lesser than 49 mm(3). Volume cut-off is slightly higher for foreign bodies that have been found in the nose (55 mm(3)). Objects with conforming rigidity pose children to higher risk of severe injury. The presence and supervision of an adult is crucial in reducing the risk for severe injuries both in pharynx and laryhnx and in mouth. Copyright © 2012 Elsevier Ireland Ltd. All rights reserved.

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

About the composition of self-relevance: Conjunctions not features are bound to the self.

PubMed

Schäfer, Sarah; Frings, Christian; Wentura, Dirk

2016-06-01

Sui and colleagues (Journal of Experimental Psychology: Human Perception and Performance, 38, 1105-1117, 2012) introduced a matching paradigm to investigate prioritized processing of instructed self-relevance. They arbitrarily assigned simple geometric shapes to the participant and two other persons. Subsequently, the task was to judge whether label-shape pairings matched or not. The authors found a remarkable self-prioritization effect, that is, for matching self-related trials verification was very fast and accurate in comparison to the non-matching conditions. We analyzed whether single features or feature conjunctions are tagged to the self. In particular, we assigned colored shapes to the labels and included partial-matching trials (i.e., trials in which only one feature matched the label, whereas the other feature did not match the label). If single features are tagged to the self, partial matches would result in interference, whereas they should elicit the same data pattern as non-matching trials if only feature conjunctions are tagged to the self. Our data suggest the latter; only feature conjunctions are tagged to the self and are processed in a prioritized manner. This result emphasizes the functionality of self-relevance as a selection mechanism.

Segmentation of human face using gradient-based approach

NASA Astrophysics Data System (ADS)

Baskan, Selin; Bulut, M. Mete; Atalay, Volkan

2001-04-01

This paper describes a method for automatic segmentation of facial features such as eyebrows, eyes, nose, mouth and ears in color images. This work is an initial step for wide range of applications based on feature-based approaches, such as face recognition, lip-reading, gender estimation, facial expression analysis, etc. Human face can be characterized by its skin color and nearly elliptical shape. For this purpose, face detection is performed using color and shape information. Uniform illumination is assumed. No restrictions on glasses, make-up, beard, etc. are imposed. Facial features are extracted using the vertically and horizontally oriented gradient projections. The gradient of a minimum with respect to its neighbor maxima gives the boundaries of a facial feature. Each facial feature has a different horizontal characteristic. These characteristics are derived by extensive experimentation with many face images. Using fuzzy set theory, the similarity between the candidate and the feature characteristic under consideration is calculated. Gradient-based method is accompanied by the anthropometrical information, for robustness. Ear detection is performed using contour-based shape descriptors. This method detects the facial features and circumscribes each facial feature with the smallest rectangle possible. AR database is used for testing. The developed method is also suitable for real-time systems.

StreetScenes: Towards Scene Understanding in Still Images

DTIC Science & Technology

2006-05-01

Riesenhuber and Poggio’s C1 features from their Standard Model [91], Berg and Malik’s geometric blur [7], Belongie et al.’s shape context [5], and Dalal and...images was performed by payed employees of the Center for Biological and Computational Learning (CBCL) during the period between January 2003 and July...single example by feature replacement. In CVPR, 2005. [5] S. Belongie , J. Malik, and J. Puzicha. Shape matching and object recognition using shape

Visual attention to features by associative learning.

PubMed

Gozli, Davood G; Moskowitz, Joshua B; Pratt, Jay

2014-11-01

Expecting a particular stimulus can facilitate processing of that stimulus over others, but what is the fate of other stimuli that are known to co-occur with the expected stimulus? This study examined the impact of learned association on feature-based attention. The findings show that the effectiveness of an uninformative color transient in orienting attention can change by learned associations between colors and the expected target shape. In an initial acquisition phase, participants learned two distinct sequences of stimulus-response-outcome, where stimuli were defined by shape ('S' vs. 'H'), responses were localized key-presses (left vs. right), and outcomes were colors (red vs. green). Next, in a test phase, while expecting a target shape (80% probable), participants showed reliable attentional orienting to the color transient associated with the target shape, and showed no attentional orienting with the color associated with the alternative target shape. This bias seemed to be driven by learned association between shapes and colors, and not modulated by the response. In addition, the bias seemed to depend on observing target-color conjunctions, since encountering the two features disjunctively (without spatiotemporal overlap) did not replicate the findings. We conclude that associative learning - likely mediated by mechanisms underlying visual object representation - can extend the impact of goal-driven attention to features associated with a target stimulus. Copyright © 2014 Elsevier B.V. All rights reserved.

Strengthening Precipitate Morphologies Fully Quantified in Advanced Disk Superalloys

NASA Technical Reports Server (NTRS)

Gabb, Timothy P.

1998-01-01

Advanced aviation gas turbine engines will require disk superalloys that can operate at higher temperatures and stresses than current conditions. Such applications will be limited by the tensile, creep, and fatigue mechanical properties of these alloys. These mechanical properties vary with the size, shape, and quantity of the gamma precipitates that strengthen disk superalloys. It is therefore important to quantify these precipitate parameters and relate them to mechanical properties to improve disk superalloys. Favorable precipitate morphologies and practical processing approaches to achieve them can then be determined. A methodology has been developed at the NASA Lewis Research Center to allow the comprehensive quantification of the size, shape, and quantity of all types of gamma precipitates.

How we categorize objects is related to how we remember them: The shape bias as a memory bias

PubMed Central

Vlach, Haley A.

2016-01-01

The “shape bias” describes the phenomenon that, after a certain point in development, children and adults generalize object categories based upon shape to a greater degree than other perceptual features. The focus of research on the shape bias has been to examine the types of information that learners attend to in one moment in time. The current work takes a different approach by examining whether learners' categorical biases are related to their retention of information across time. In three experiments, children's (N = 72) and adults' (N = 240) memory performance for features of objects was examined in relation to their categorical biases. The results of these experiments demonstrated that the number of shape matches chosen during the shape bias task significantly predicted shape memory. Moreover, children and adults with a shape bias were more likely to remember the shape of objects than they were the color and size of objects. Taken together, this work suggests the development of a shape bias may engender better memory for shape information. PMID:27454236

How we categorize objects is related to how we remember them: The shape bias as a memory bias.

PubMed

Vlach, Haley A

2016-12-01

The "shape bias" describes the phenomenon that, after a certain point in development, children and adults generalize object categories based on shape to a greater degree than other perceptual features. The focus of research on the shape bias has been to examine the types of information that learners attend to in one moment in time. The current work takes a different approach by examining whether learners' categorical biases are related to their retention of information across time. In three experiments, children's (N=72) and adults' (N=240) memory performance for features of objects was examined in relation to their categorical biases. The results of these experiments demonstrated that the number of shape matches chosen during the shape bias task significantly predicted shape memory. Moreover, children and adults with a shape bias were more likely to remember the shape of objects than the color and size of objects. Taken together, this work suggests that the development of a shape bias may engender better memory for shape information. Copyright © 2016 Elsevier Inc. All rights reserved.

New Severity Indices for Quantifying Single-suture Metopic Craniosynostosis

PubMed Central

Ruiz-Correa, Salvador; Starr, Jacqueline R.; Lin, H. Jill; Kapp-Simon, Kathleen A.; Sze, Raymond W.; Ellenbogen, Richard G.; Speltz, Matthew L.; Cunningham, Michael L.

2012-01-01

OBJECTIVE To describe novel severity indices with which to quantify severity of trigonocephaly malformation in children diagnosed with isolated metopic synostosis. METHODS Computed tomographic scans of the cranium were obtained from 38 infants diagnosed with isolated metopic synostosis and 53 age-matched control patients. Volumetric reformations of the cranium were used to trace two-dimensional planes defined by the cranium-base plane and well-defined brain landmarks. For each patient, novel trigonocephaly severity indices (TSI) were computed from outline cranium shapes on each of these planes. The metopic severity index based on measurements of interlandmark distances was also computed and a receiver operating characteristic analysis used to compare the accuracy of classification based on TSIs versus that based on the metopic severity index. RESULTS The proposed TSIs are a sensitive measure of trigonocephaly malformation that can provide a classification accuracy of 96% with a specificity of 95%, in contrast with 82% of the metopic severity index at the same specificity level. CONCLUSIONS We completed exploratory analysis of outline-based severity measurements computed from computed tomographic image planes of the cranium. These TSIs enable quantitative analysis of cranium features in isolated metopic synostosis that may not be accurately detected by analytic tools derived from a sparse set of traditional interlandmark and semilandmark distances. PMID:18797362

Quantifying the Extremity of Windstorms for Regions Featuring Infrequent Events

NASA Astrophysics Data System (ADS)

Walz, M. A.; Leckebusch, G. C.; Kruschke, T.; Rust, H.; Ulbrich, U.

2017-12-01

This paper introduces the Distribution-Independent Storm Severity Index (DI-SSI). The DI-SSI represents an approach to quantify the severity of exceptional surface wind speeds of large scale windstorms that is complementary to the Storm Severity Index (SSI) introduced by Leckebusch et al. (2008). While the SSI approaches the extremeness of a storm from a meteorological and potential loss (impact) perspective, the DI-SSI defines the severity in a more climatological perspective. The idea is to assign equal index values to wind speeds of the same singularity (e.g. the 99th percentile) under consideration of the shape of the tail of the local wind speed climatology. Especially in regions at the edge of the classical storm track the DI-SSI shows more equitable severity estimates, e.g. for the extra-tropical cyclone Klaus. Here were compare the integral severity indices for several prominent windstorm in the European domain and discuss the advantages and disadvantages of the respective index. In order to compare the indices, their relation with the North Atlantic Oscillation (NAO) is studied, which is one of the main large scale drivers for the intensity of European windstorms. Additionally we can identify a significant relationship between the frequency and intensity of windstorms for large parts of the European domain.

Modeling the shape and composition of the human body using dual energy X-ray absorptiometry images

PubMed Central

Shepherd, John A.; Fan, Bo; Schwartz, Ann V.; Cawthon, Peggy; Cummings, Steven R.; Kritchevsky, Stephen; Nevitt, Michael; Santanasto, Adam; Cootes, Timothy F.

2017-01-01

There is growing evidence that body shape and regional body composition are strong indicators of metabolic health. The purpose of this study was to develop statistical models that accurately describe holistic body shape, thickness, and leanness. We hypothesized that there are unique body shape features that are predictive of mortality beyond standard clinical measures. We developed algorithms to process whole-body dual-energy X-ray absorptiometry (DXA) scans into body thickness and leanness images. We performed statistical appearance modeling (SAM) and principal component analysis (PCA) to efficiently encode the variance of body shape, leanness, and thickness across sample of 400 older Americans from the Health ABC study. The sample included 200 cases and 200 controls based on 6-year mortality status, matched on sex, race and BMI. The final model contained 52 points outlining the torso, upper arms, thighs, and bony landmarks. Correlation analyses were performed on the PCA parameters to identify body shape features that vary across groups and with metabolic risk. Stepwise logistic regression was performed to identify sex and race, and predict mortality risk as a function of body shape parameters. These parameters are novel body composition features that uniquely identify body phenotypes of different groups and predict mortality risk. Three parameters from a SAM of body leanness and thickness accurately identified sex (training AUC = 0.99) and six accurately identified race (training AUC = 0.91) in the sample dataset. Three parameters from a SAM of only body thickness predicted mortality (training AUC = 0.66, validation AUC = 0.62). Further study is warranted to identify specific shape/composition features that predict other health outcomes. PMID:28423041

Efficacy of texture, shape, and intensity feature fusion for posterior-fossa tumor segmentation in MRI.

PubMed

Ahmed, Shaheen; Iftekharuddin, Khan M; Vossough, Arastoo

2011-03-01

Our previous works suggest that fractal texture feature is useful to detect pediatric brain tumor in multimodal MRI. In this study, we systematically investigate efficacy of using several different image features such as intensity, fractal texture, and level-set shape in segmentation of posterior-fossa (PF) tumor for pediatric patients. We explore effectiveness of using four different feature selection and three different segmentation techniques, respectively, to discriminate tumor regions from normal tissue in multimodal brain MRI. We further study the selective fusion of these features for improved PF tumor segmentation. Our result suggests that Kullback-Leibler divergence measure for feature ranking and selection and the expectation maximization algorithm for feature fusion and tumor segmentation offer the best results for the patient data in this study. We show that for T1 and fluid attenuation inversion recovery (FLAIR) MRI modalities, the best PF tumor segmentation is obtained using the texture feature such as multifractional Brownian motion (mBm) while that for T2 MRI is obtained by fusing level-set shape with intensity features. In multimodality fused MRI (T1, T2, and FLAIR), mBm feature offers the best PF tumor segmentation performance. We use different similarity metrics to evaluate quality and robustness of these selected features for PF tumor segmentation in MRI for ten pediatric patients.

If it's not there, where is it? Locating illusory conjunctions.

PubMed

Hazeltine, R E; Prinzmetal, W; Elliott, W

1997-02-01

There is evidence that complex objects are decomposed by the visual system into features, such as shape and color. Consistent with this theory is the phenomenon of illusory conjunctions, which occur when features are incorrectly combined to form an illusory object. We analyzed the perceived location of illusory conjunctions to study the roles of color and shape in the location of visual objects. In Experiments 1 and 2, participants located illusory conjunctions about halfway between the veridical locations of the component features. Experiment 3 showed that the distribution of perceived locations was not the mixture of two distributions centered at the 2 feature locations. Experiment 4 replicated these results with an identification task rather than a detection task. We concluded that the locations of illusory conjunctions were not arbitrary but were determined by both constituent shape and color.

Recognition of Similar Shaped Handwritten Marathi Characters Using Artificial Neural Network

NASA Astrophysics Data System (ADS)

Jane, Archana P.; Pund, Mukesh A.

2012-03-01

The growing need have handwritten Marathi character recognition in Indian offices such as passport, railways etc has made it vital area of a research. Similar shape characters are more prone to misclassification. In this paper a novel method is provided to recognize handwritten Marathi characters based on their features extraction and adaptive smoothing technique. Feature selections methods avoid unnecessary patterns in an image whereas adaptive smoothing technique form smooth shape of charecters.Combination of both these approaches leads to the better results. Previous study shows that, no one technique achieves 100% accuracy in handwritten character recognition area. This approach of combining both adaptive smoothing & feature extraction gives better results (approximately 75-100) and expected outcomes.

Assessing invasive plant infestation in freshwater wetlands

NASA Astrophysics Data System (ADS)

Torbick, Nathan M.

Recent shifts in wetland ecosystem management goals have directed efforts toward measuring ecological integrity, rather than only using physical and chemical measures of ecosystems as health indicators. Invasive species pose one of the largest threats to wetlands integrity. Resource managers can benefit from improved methods for identifying invasive plant species, assessing infestation, and monitoring control measures. The utilization of advanced remote sensing tools for species-level mapping has been increasing and techniques need to be explored for identifying species of interest and characterizing infestation. The overarching goal of this research was to develop monitoring technologies to map invasive plants and quantify wetland infestation. The first field-level objective was to characterize absorption and reflectance features and assess processing techniques for separating wetland species. The second field-level objective was to evaluate the abilities of a shape filter to identify wetland invasive plant species. The first landscape-level objective was to classify hyperspectral imagery in order to identify invasives of interest. The second landscape-level objective was to quantify infestation within the study area. Field-level hyperspectral data (350-2500nm) were collected for twenty-two wetland plant species in a wetland located in the lower Muskegon River watershed in Michigan, USA. The Jeffries-Matusita distance measure, continuum removal, and a shape-filter were applied to hyperspectral species reflectance data to characterize spectral features. Generally, continuum removal decreased separation distance for the invasive species of interest. Using the shape-filter, Lythrum salicaria, Phragmites australis, and Typha latifolia possessed maximum separation (distinguished from other species) at the near-infrared edge (700nm) and water absorption region (1350nm), the near-infrared down slope (1000 and 1100nm), and the visible/chlorophyll absorption region (500nm) and near-infrared edge (650nm), respectively. Airborne hyperspectral imagery was classified using a two-step approach in order to obtain an optimal map (overall accuracy ˜ 70%). Information in the near-infrared enabled relatively accurate classification for Phragmites australis using the Spectral Angle Mapper algorithm and image-derived training, while Typha latifolia signatures possessed high spectral overlap and required ISODATA clustering techniques. Landscape pattern metrics relate infestation to disturbances and hydrological controls. The highest levels of infestation and infestation patterns coincide with the most substantial levels of hydrological modifications indicating human disturbances are correlated with Typha and Phragmites percentages in the landscape. Overall the approach was successful and increased the level of information ultimately desired by decision makers. The rapidly advancing field of wetland remote sensing science can obtain more meaningful information from hyperspectral imagery; however, the data are challenging to work with and only the most precisely calibrated datasets will provide utility. Combining these data with traditional wetland assessment techniques can substantially advanced goals of preserving and restoring wetland ecosystem integrity.

Geometric morphometrics reveals shifts in flower shape symmetry and size following gene knockdown of CYCLOIDEA and ANTHOCYANIDIN SYNTHASE.

PubMed

Berger, Brent A; Ricigliano, Vincent A; Savriama, Yoland; Lim, Aedric; Thompson, Veronica; Howarth, Dianella G

2017-11-17

While floral symmetry has traditionally been assessed qualitatively, recent advances in geometric morphometrics have opened up new avenues to specifically quantify flower shape and size using robust multivariate statistical methods. In this study, we examine, for the first time, the ability of geometric morphometrics to detect morphological differences in floral dorsoventral asymmetry following virus-induced gene silencing (VIGS). Using Fedia graciliflora Fisch. & Meyer (Valerianaceae) as a model, corolla shape of untreated flowers was compared using canonical variate analysis to knockdown phenotypes of CYCLOIDEA2A (FgCYC2A), ANTHOCYANIDIN SYNTHASE (FgANS), and empty vector controls. Untreated flowers and all VIGS treatments were morphologically distinct from each other, suggesting that VIGS may cause subtle shifts in floral shape. Knockdowns of FgCYC2A were the most dramatic, affecting the position of dorsal petals in relation to lateral petals, thereby resulting in more actinomorphic-like flowers. Additionally, FgANS knockdowns developed larger flowers with wider corolla tube openings. These results provide a method to quantify the role that specific genes play in the developmental pathway affecting the dorsoventral axis of symmetry in zygomorphic flowers. Additionally, they suggest that ANS may have an unintended effect on floral size and shape.

LobeFinder: A Convex Hull-Based Method for Quantitative Boundary Analyses of Lobed Plant Cells1[OPEN

PubMed Central

Wu, Tzu-Ching; Belteton, Samuel A.; Szymanski, Daniel B.; Umulis, David M.

2016-01-01

Dicot leaves are composed of a heterogeneous mosaic of jigsaw puzzle piece-shaped pavement cells that vary greatly in size and the complexity of their shape. Given the importance of the epidermis and this particular cell type for leaf expansion, there is a strong need to understand how pavement cells morph from a simple polyhedral shape into highly lobed and interdigitated cells. At present, it is still unclear how and when the patterns of lobing are initiated in pavement cells, and one major technological bottleneck to addressing the problem is the lack of a robust and objective methodology to identify and track lobing events during the transition from simple cell geometry to lobed cells. We developed a convex hull-based algorithm termed LobeFinder to identify lobes, quantify geometric properties, and create a useful graphical output of cell coordinates for further analysis. The algorithm was validated against manually curated images of pavement cells of widely varying sizes and shapes. The ability to objectively count and detect new lobe initiation events provides an improved quantitative framework to analyze mutant phenotypes, detect symmetry-breaking events in time-lapse image data, and quantify the time-dependent correlation between cell shape change and intracellular factors that may play a role in the morphogenesis process. PMID:27288363

Retrieval from long-term memory reduces working memory representations for visual features and their bindings.

PubMed

van Lamsweerde, Amanda E; Beck, Melissa R; Elliott, Emily M

2015-02-01

The ability to remember feature bindings is an important measure of the ability to maintain objects in working memory (WM). In this study, we investigated whether both object- and feature-based representations are maintained in WM. Specifically, we tested the hypotheses that retaining a greater number of feature representations (i.e., both as individual features and bound representations) results in a more robust representation of individual features than of feature bindings, and that retrieving information from long-term memory (LTM) into WM would cause a greater disruption to feature bindings. In four experiments, we examined the effects of retrieving a word from LTM on shape and color-shape binding change detection performance. We found that binding changes were more difficult to detect than individual-feature changes overall, but that the cost of retrieving a word from LTM was the same for both individual-feature and binding changes.

Medical X-ray Image Hierarchical Classification Using a Merging and Splitting Scheme in Feature Space.

PubMed

Fesharaki, Nooshin Jafari; Pourghassem, Hossein

2013-07-01

Due to the daily mass production and the widespread variation of medical X-ray images, it is necessary to classify these for searching and retrieving proposes, especially for content-based medical image retrieval systems. In this paper, a medical X-ray image hierarchical classification structure based on a novel merging and splitting scheme and using shape and texture features is proposed. In the first level of the proposed structure, to improve the classification performance, similar classes with regard to shape contents are grouped based on merging measures and shape features into the general overlapped classes. In the next levels of this structure, the overlapped classes split in smaller classes based on the classification performance of combination of shape and texture features or texture features only. Ultimately, in the last levels, this procedure is also continued forming all the classes, separately. Moreover, to optimize the feature vector in the proposed structure, we use orthogonal forward selection algorithm according to Mahalanobis class separability measure as a feature selection and reduction algorithm. In other words, according to the complexity and inter-class distance of each class, a sub-space of the feature space is selected in each level and then a supervised merging and splitting scheme is applied to form the hierarchical classification. The proposed structure is evaluated on a database consisting of 2158 medical X-ray images of 18 classes (IMAGECLEF 2005 database) and accuracy rate of 93.6% in the last level of the hierarchical structure for an 18-class classification problem is obtained.

Distinct cognitive mechanisms involved in the processing of single objects and object ensembles

PubMed Central

Cant, Jonathan S.; Sun, Sol Z.; Xu, Yaoda

2015-01-01

Behavioral research has demonstrated that the shape and texture of single objects can be processed independently. Similarly, neuroimaging results have shown that an object's shape and texture are processed in distinct brain regions with shape in the lateral occipital area and texture in parahippocampal cortex. Meanwhile, objects are not always seen in isolation and are often grouped together as an ensemble. We recently showed that the processing of ensembles also involves parahippocampal cortex and that the shape and texture of ensemble elements are processed together within this region. These neural data suggest that the independence seen between shape and texture in single-object perception would not be observed in object-ensemble perception. Here we tested this prediction by examining whether observers could attend to the shape of ensemble elements while ignoring changes in an unattended texture feature and vice versa. Across six behavioral experiments, we replicated previous findings of independence between shape and texture in single-object perception. In contrast, we observed that changes in an unattended ensemble feature negatively impacted the processing of an attended ensemble feature only when ensemble features were attended globally. When they were attended locally, thereby making ensemble processing similar to single-object processing, interference was abolished. Overall, these findings confirm previous neuroimaging results and suggest that distinct cognitive mechanisms may be involved in single-object and object-ensemble perception. Additionally, they show that the scope of visual attention plays a critical role in determining which type of object processing (ensemble or single object) is engaged by the visual system. PMID:26360156

Segmenting lung fields in serial chest radiographs using both population-based and patient-specific shape statistics.

PubMed

Shi, Y; Qi, F; Xue, Z; Chen, L; Ito, K; Matsuo, H; Shen, D

2008-04-01

This paper presents a new deformable model using both population-based and patient-specific shape statistics to segment lung fields from serial chest radiographs. There are two novelties in the proposed deformable model. First, a modified scale invariant feature transform (SIFT) local descriptor, which is more distinctive than the general intensity and gradient features, is used to characterize the image features in the vicinity of each pixel. Second, the deformable contour is constrained by both population-based and patient-specific shape statistics, and it yields more robust and accurate segmentation of lung fields for serial chest radiographs. In particular, for segmenting the initial time-point images, the population-based shape statistics is used to constrain the deformable contour; as more subsequent images of the same patient are acquired, the patient-specific shape statistics online collected from the previous segmentation results gradually takes more roles. Thus, this patient-specific shape statistics is updated each time when a new segmentation result is obtained, and it is further used to refine the segmentation results of all the available time-point images. Experimental results show that the proposed method is more robust and accurate than other active shape models in segmenting the lung fields from serial chest radiographs.

Red Lesion Detection Using Dynamic Shape Features for Diabetic Retinopathy Screening.

PubMed

Seoud, Lama; Hurtut, Thomas; Chelbi, Jihed; Cheriet, Farida; Langlois, J M Pierre

2016-04-01

The development of an automatic telemedicine system for computer-aided screening and grading of diabetic retinopathy depends on reliable detection of retinal lesions in fundus images. In this paper, a novel method for automatic detection of both microaneurysms and hemorrhages in color fundus images is described and validated. The main contribution is a new set of shape features, called Dynamic Shape Features, that do not require precise segmentation of the regions to be classified. These features represent the evolution of the shape during image flooding and allow to discriminate between lesions and vessel segments. The method is validated per-lesion and per-image using six databases, four of which are publicly available. It proves to be robust with respect to variability in image resolution, quality and acquisition system. On the Retinopathy Online Challenge's database, the method achieves a FROC score of 0.420 which ranks it fourth. On the Messidor database, when detecting images with diabetic retinopathy, the proposed method achieves an area under the ROC curve of 0.899, comparable to the score of human experts, and it outperforms state-of-the-art approaches.

Phenotypic characterization of glioblastoma identified through shape descriptors

NASA Astrophysics Data System (ADS)

Chaddad, Ahmad; Desrosiers, Christian; Toews, Matthew

2016-03-01

This paper proposes quantitatively describing the shape of glioblastoma (GBM) tissue phenotypes as a set of shape features derived from segmentations, for the purposes of discriminating between GBM phenotypes and monitoring tumor progression. GBM patients were identified from the Cancer Genome Atlas, and quantitative MR imaging data were obtained from the Cancer Imaging Archive. Three GBM tissue phenotypes are considered including necrosis, active tumor and edema/invasion. Volumetric tissue segmentations are obtained from registered T1˗weighted (T1˗WI) postcontrast and fluid-attenuated inversion recovery (FLAIR) MRI modalities. Shape features are computed from respective tissue phenotype segmentations, and a Kruskal-Wallis test was employed to select features capable of classification with a significance level of p < 0.05. Several classifier models are employed to distinguish phenotypes, where a leave-one-out cross-validation was performed. Eight features were found statistically significant for classifying GBM phenotypes with p <0.05, orientation is uninformative. Quantitative evaluations show the SVM results in the highest classification accuracy of 87.50%, sensitivity of 94.59% and specificity of 92.77%. In summary, the shape descriptors proposed in this work show high performance in predicting GBM tissue phenotypes. They are thus closely linked to morphological characteristics of GBM phenotypes and could potentially be used in a computer assisted labeling system.

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

A flower image retrieval method based on ROI feature.

PubMed

Hong, An-Xiang; Chen, Gang; Li, Jun-Li; Chi, Zhe-Ru; Zhang, Dan

2004-07-01

Flower image retrieval is a very important step for computer-aided plant species recognition. In this paper, we propose an efficient segmentation method based on color clustering and domain knowledge to extract flower regions from flower images. For flower retrieval, we use the color histogram of a flower region to characterize the color features of flower and two shape-based features sets, Centroid-Contour Distance (CCD) and Angle Code Histogram (ACH), to characterize the shape features of a flower contour. Experimental results showed that our flower region extraction method based on color clustering and domain knowledge can produce accurate flower regions. Flower retrieval results on a database of 885 flower images collected from 14 plant species showed that our Region-of-Interest (ROI) based retrieval approach using both color and shape features can perform better than a method based on the global color histogram proposed by Swain and Ballard (1991) and a method based on domain knowledge-driven segmentation and color names proposed by Das et al.(1999).

Quantifying resilience

USGS Publications Warehouse

Allen, Craig R.; Angeler, David G.

2016-01-01

Several frameworks to operationalize resilience have been proposed. A decade ago, a special feature focused on quantifying resilience was published in the journal Ecosystems (Carpenter, Westley & Turner 2005). The approach there was towards identifying surrogates of resilience, but few of the papers proposed quantifiable metrics. Consequently, many ecological resilience frameworks remain vague and difficult to quantify, a problem that this special feature aims to address. However, considerable progress has been made during the last decade (e.g. Pope, Allen & Angeler 2014). Although some argue that resilience is best kept as an unquantifiable, vague concept (Quinlan et al. 2016), to be useful for managers, there must be concrete guidance regarding how and what to manage and how to measure success (Garmestani, Allen & Benson 2013; Spears et al. 2015). Ideas such as ‘resilience thinking’ have utility in helping stakeholders conceptualize their systems, but provide little guidance on how to make resilience useful for ecosystem management, other than suggesting an ambiguous, Goldilocks approach of being just right (e.g. diverse, but not too diverse; connected, but not too connected). Here, we clarify some prominent resilience terms and concepts, introduce and synthesize the papers in this special feature on quantifying resilience and identify core unanswered questions related to resilience.

A contour-based shape descriptor for biomedical image classification and retrieval

NASA Astrophysics Data System (ADS)

You, Daekeun; Antani, Sameer; Demner-Fushman, Dina; Thoma, George R.

2013-12-01

Contours, object blobs, and specific feature points are utilized to represent object shapes and extract shape descriptors that can then be used for object detection or image classification. In this research we develop a shape descriptor for biomedical image type (or, modality) classification. We adapt a feature extraction method used in optical character recognition (OCR) for character shape representation, and apply various image preprocessing methods to successfully adapt the method to our application. The proposed shape descriptor is applied to radiology images (e.g., MRI, CT, ultrasound, X-ray, etc.) to assess its usefulness for modality classification. In our experiment we compare our method with other visual descriptors such as CEDD, CLD, Tamura, and PHOG that extract color, texture, or shape information from images. The proposed method achieved the highest classification accuracy of 74.1% among all other individual descriptors in the test, and when combined with CSD (color structure descriptor) showed better performance (78.9%) than using the shape descriptor alone.

Regional shape-based feature space for segmenting biomedical images using neural networks

NASA Astrophysics Data System (ADS)

Sundaramoorthy, Gopal; Hoford, John D.; Hoffman, Eric A.

1993-07-01

In biomedical images, structure of interest, particularly the soft tissue structures, such as the heart, airways, bronchial and arterial trees often have grey-scale and textural characteristics similar to other structures in the image, making it difficult to segment them using only gray- scale and texture information. However, these objects can be visually recognized by their unique shapes and sizes. In this paper we discuss, what we believe to be, a novel, simple scheme for extracting features based on regional shapes. To test the effectiveness of these features for image segmentation (classification), we use an artificial neural network and a statistical cluster analysis technique. The proposed shape-based feature extraction algorithm computes regional shape vectors (RSVs) for all pixels that meet a certain threshold criteria. The distance from each such pixel to a boundary is computed in 8 directions (or in 26 directions for a 3-D image). Together, these 8 (or 26) values represent the pixel's (or voxel's) RSV. All RSVs from an image are used to train a multi-layered perceptron neural network which uses these features to 'learn' a suitable classification strategy. To clearly distinguish the desired object from other objects within an image, several examples from inside and outside the desired object are used for training. Several examples are presented to illustrate the strengths and weaknesses of our algorithm. Both synthetic and actual biomedical images are considered. Future extensions to this algorithm are also discussed.

Plant species classification using flower images—A comparative study of local feature representations

PubMed Central

Seeland, Marco; Rzanny, Michael; Alaqraa, Nedal; Wäldchen, Jana; Mäder, Patrick

2017-01-01

Steady improvements of image description methods induced a growing interest in image-based plant species classification, a task vital to the study of biodiversity and ecological sensitivity. Various techniques have been proposed for general object classification over the past years and several of them have already been studied for plant species classification. However, results of these studies are selective in the evaluated steps of a classification pipeline, in the utilized datasets for evaluation, and in the compared baseline methods. No study is available that evaluates the main competing methods for building an image representation on the same datasets allowing for generalized findings regarding flower-based plant species classification. The aim of this paper is to comparatively evaluate methods, method combinations, and their parameters towards classification accuracy. The investigated methods span from detection, extraction, fusion, pooling, to encoding of local features for quantifying shape and color information of flower images. We selected the flower image datasets Oxford Flower 17 and Oxford Flower 102 as well as our own Jena Flower 30 dataset for our experiments. Findings show large differences among the various studied techniques and that their wisely chosen orchestration allows for high accuracies in species classification. We further found that true local feature detectors in combination with advanced encoding methods yield higher classification results at lower computational costs compared to commonly used dense sampling and spatial pooling methods. Color was found to be an indispensable feature for high classification results, especially while preserving spatial correspondence to gray-level features. In result, our study provides a comprehensive overview of competing techniques and the implications of their main parameters for flower-based plant species classification. PMID:28234999

Fabrication of ordered arrays of micro- and nanoscale features with control over their shape and size via templated solid-state dewetting.

PubMed

Ye, Jongpil

2015-05-08

Templated solid-state dewetting of single-crystal films has been shown to be used to produce regular patterns of various shapes. However, the materials for which this patterning method is applicable, and the size range of the patterns produced are still limited. Here, it is shown that ordered arrays of micro- and nanoscale features can be produced with control over their shape and size via solid-state dewetting of patches patterned from single-crystal palladium and nickel films of different thicknesses and orientations. The shape and size characteristics of the patterns are found to be widely controllable with varying the shape, width, thickness, and orientation of the initial patches. The morphological evolution of the patches is also dependent on the film material, with different dewetting behaviors observed in palladium and nickel films. The mechanisms underlying the pattern formation are explained in terms of the influence on Rayleigh-like instability of the patch geometry and the surface energy anisotropy of the film material. This mechanistic understanding of pattern formation can be used to design patches for the precise fabrication of micro- and nanoscale structures with the desired shapes and feature sizes.

Fabrication of ordered arrays of micro- and nanoscale features with control over their shape and size via templated solid-state dewetting

PubMed Central

Ye, Jongpil

2015-01-01

Templated solid-state dewetting of single-crystal films has been shown to be used to produce regular patterns of various shapes. However, the materials for which this patterning method is applicable, and the size range of the patterns produced are still limited. Here, it is shown that ordered arrays of micro- and nanoscale features can be produced with control over their shape and size via solid-state dewetting of patches patterned from single-crystal palladium and nickel films of different thicknesses and orientations. The shape and size characteristics of the patterns are found to be widely controllable with varying the shape, width, thickness, and orientation of the initial patches. The morphological evolution of the patches is also dependent on the film material, with different dewetting behaviors observed in palladium and nickel films. The mechanisms underlying the pattern formation are explained in terms of the influence on Rayleigh-like instability of the patch geometry and the surface energy anisotropy of the film material. This mechanistic understanding of pattern formation can be used to design patches for the precise fabrication of micro- and nanoscale structures with the desired shapes and feature sizes. PMID:25951816

GBshape: a genome browser database for DNA shape annotations

PubMed Central

Chiu, Tsu-Pei; Yang, Lin; Zhou, Tianyin; Main, Bradley J.; Parker, Stephen C.J.; Nuzhdin, Sergey V.; Tullius, Thomas D.; Rohs, Remo

2015-01-01

Many regulatory mechanisms require a high degree of specificity in protein-DNA binding. Nucleotide sequence does not provide an answer to the question of why a protein binds only to a small subset of the many putative binding sites in the genome that share the same core motif. Whereas higher-order effects, such as chromatin accessibility, cooperativity and cofactors, have been described, DNA shape recently gained attention as another feature that fine-tunes the DNA binding specificities of some transcription factor families. Our Genome Browser for DNA shape annotations (GBshape; freely available at http://rohslab.cmb.usc.edu/GBshape/) provides minor groove width, propeller twist, roll, helix twist and hydroxyl radical cleavage predictions for the entire genomes of 94 organisms. Additional genomes can easily be added using the GBshape framework. GBshape can be used to visualize DNA shape annotations qualitatively in a genome browser track format, and to download quantitative values of DNA shape features as a function of genomic position at nucleotide resolution. As biological applications, we illustrate the periodicity of DNA shape features that are present in nucleosome-occupied sequences from human, fly and worm, and we demonstrate structural similarities between transcription start sites in the genomes of four Drosophila species. PMID:25326329

Accuracy and variability of texture-based radiomics features of lung lesions across CT imaging conditions

NASA Astrophysics Data System (ADS)

Zheng, Yuese; Solomon, Justin; Choudhury, Kingshuk; Marin, Daniele; Samei, Ehsan

2017-03-01

Texture analysis for lung lesions is sensitive to changing imaging conditions but these effects are not well understood, in part, due to a lack of ground-truth phantoms with realistic textures. The purpose of this study was to explore the accuracy and variability of texture features across imaging conditions by comparing imaged texture features to voxel-based 3D printed textured lesions for which the true values are known. The seven features of interest were based on the Grey Level Co-Occurrence Matrix (GLCM). The lesion phantoms were designed with three shapes (spherical, lobulated, and spiculated), two textures (homogenous and heterogeneous), and two sizes (diameter < 1.5 cm and 1.5 cm < diameter < 3 cm), resulting in 24 lesions (with a second replica of each). The lesions were inserted into an anthropomorphic thorax phantom (Multipurpose Chest Phantom N1, Kyoto Kagaku) and imaged using a commercial CT system (GE Revolution) at three CTDI levels (0.67, 1.42, and 5.80 mGy), three reconstruction algorithms (FBP, IR-2, IR-4), four reconstruction kernel types (standard, soft, edge), and two slice thicknesses (0.6 mm and 5 mm). Another repeat scan was performed. Texture features from these images were extracted and compared to the ground truth feature values by percent relative error. The variability across imaging conditions was calculated by standard deviation across a certain imaging condition for all heterogeneous lesions. The results indicated that the acquisition method has a significant influence on the accuracy and variability of extracted features and as such, feature quantities are highly susceptible to imaging parameter choices. The most influential parameters were slice thickness and reconstruction kernels. Thin slice thickness and edge reconstruction kernel overall produced more accurate and more repeatable results. Some features (e.g., Contrast) were more accurately quantified under conditions that render higher spatial frequencies (e.g., thinner slice thickness and sharp kernels), while others (e.g., Homogeneity) showed more accurate quantification under conditions that render smoother images (e.g., higher dose and smoother kernels). Care should be exercised is relating texture features between cases of varied acquisition protocols, with need to cross calibration dependent on the feature of interest.

Mixed-phase altocumulus clouds over Leipzig: Remote sensing measurements and spectral cloud microphysics simulations

NASA Astrophysics Data System (ADS)

Simmel, Martin; Bühl, Johannes; Ansmann, Albert; Tegen, Ina

2015-04-01

The present work combines remote sensing observations and detailed microphysics cloud modeling to investigate two altocumulus cloud cases observed over Leipzig, Germany. A suite of remote sensing instruments was able to detect primary ice at rather warm temperatures of -6°C. For comparison, a second mixed phase case at about -25°C is introduced. To further look into the details of cloud microphysical processes a simple dynamics model of the Asai-Kasahara type is combined with detailed spectral microphysics forming the model system AK-SPECS. Temperature and humidity profiles are taken either from observation (radiosonde) or GDAS reanalysis. Vertical velocities are prescribed to force the dynamics as well as main cloud features to be close to the observations. Subsequently, sensitivity studies with respect to dynamical as well as ice microphysical parameters are carried out with the aim to quantify the most important sensitivities for the cases investigated. For the cases selected, the liquid phase is mainly determined by the model dynamics (location and strength of vertical velocity) whereas the ice phase is much more sensitive to the microphysical parameters (ice nuclei (IN) number, ice particle shape). The choice of ice particle shape may induce large uncertainties which are in the same order as those for the temperature-dependent IN number distribution.

Adsorption energy as a metric for wettability at the nanoscale

PubMed Central

Giro, Ronaldo; Bryant, Peter W.; Engel, Michael; Neumann, Rodrigo F.; Steiner, Mathias B.

2017-01-01

Wettability is the affinity of a liquid for a solid surface. For energetic reasons, macroscopic drops of liquid form nearly spherical caps. The degree of wettability is then captured by the contact angle where the liquid-vapor interface meets the solid-liquid interface. As droplet volumes shrink to the scale of attoliters, however, surface interactions become significant, and droplets assume distorted shapes. In this regime, the contact angle becomes ambiguous, and a scalable metric for quantifying wettability is needed, especially given the emergence of technologies exploiting liquid-solid interactions at the nanoscale. Here we combine nanoscale experiments with molecular-level simulation to study the breakdown of spherical droplet shapes at small length scales. We demonstrate how measured droplet topographies increasingly reveal non-spherical features as volumes shrink. Ultimately, the nanoscale droplets flatten out to form layer-like molecular assemblies at the solid surface. For the lack of an identifiable contact angle at small scales, we introduce a droplet’s adsorption energy density as a new metric for a liquid’s affinity for a surface. We discover that extrapolating the macroscopic idealization of a drop to the nanoscale, though it does not geometrically resemble a realistic droplet, can nonetheless recover its adsorption energy if line tension is included. PMID:28397869

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.

A design for a dynamic biomimetic sonarhead inspired by horseshoe bats.

PubMed

Caspers, Philip; Mueller, Rolf

2018-05-24

The noseleaf and pinnae of horseshoe bats (Rhinolophus ferrumequinum) have both been shown to actively deform during biosonar operation. Since these baffle structures directly affect the properties of the animal's biosonar system, this work mimics horseshoe bat sonar system with the goal of developing a platform to study the dynamic sensing principles horseshoe bats employ. Consequently, two robotic devices were developed to mimic the dynamic emission and reception characteristics of horseshoe bats. The noseleaf and pinnae shapes were modeled as smooth blanks matched to digital representations of a horseshoe bat specimen's noseleaf and pinnae. Local shape features mimicking structures on the pinnae and noseleaf were added digitally. Flexible baffles with local shape feature combinations were manufactured and paired with actuation mechanisms to mimic pinnae and noseleaf deformations in-vivo. Two noseleaves with and without local shape features were considered. Each noseleaf baffle was mounted to a platform called the dynamic emission head to actuate three surface elements of the baffle. Similarly, 12 pinna realizations composed of combinations of three local shape features were mounted to a platform called the dynamic reception head to deform the left and right pinnae independently. Motion of the noseleaf and pinnae were synchronized to the incoming and outgoing sonar waveform, and the joint time-frequency properties of the noseleaf and pinnae local feature combinations and combinations of the pinnae and noseleaf thereof were characterized across spatial direction. Amplitude modulations to the outgoing and incoming sonar pulse information across spatial direction were observed for all pinnae and noseleaf local shape feature combinations. Peak modulation variance generated by motion of the pinnae and combinations of the noseleaf and pinnae approached a white Gaussian noise variance bound. However, it was found the dynamic emitter generated less modulation than either the combined or reception scenarios. © 2018 IOP Publishing Ltd.

Features in visual search combine linearly

PubMed Central

Pramod, R. T.; Arun, S. P.

2014-01-01

Single features such as line orientation and length are known to guide visual search, but relatively little is known about how multiple features combine in search. To address this question, we investigated how search for targets differing in multiple features (intensity, length, orientation) from the distracters is related to searches for targets differing in each of the individual features. We tested race models (based on reaction times) and co-activation models (based on reciprocal of reaction times) for their ability to predict multiple feature searches. Multiple feature searches were best accounted for by a co-activation model in which feature information combined linearly (r = 0.95). This result agrees with the classic finding that these features are separable i.e., subjective dissimilarity ratings sum linearly. We then replicated the classical finding that the length and width of a rectangle are integral features—in other words, they combine nonlinearly in visual search. However, to our surprise, upon including aspect ratio as an additional feature, length and width combined linearly and this model outperformed all other models. Thus, length and width of a rectangle became separable when considered together with aspect ratio. This finding predicts that searches involving shapes with identical aspect ratio should be more difficult than searches where shapes differ in aspect ratio. We confirmed this prediction on a variety of shapes. We conclude that features in visual search co-activate linearly and demonstrate for the first time that aspect ratio is a novel feature that guides visual search. PMID:24715328

Quantitative Understanding of SHAPE Mechanism from RNA Structure and Dynamics Analysis.

PubMed

Hurst, Travis; Xu, Xiaojun; Zhao, Peinan; Chen, Shi-Jie

2018-05-10

The selective 2'-hydroxyl acylation analyzed by primer extension (SHAPE) method probes RNA local structural and dynamic information at single nucleotide resolution. To gain quantitative insights into the relationship between nucleotide flexibility, RNA 3D structure, and SHAPE reactivity, we develop a 3D Structure-SHAPE Relationship model (3DSSR) to rebuild SHAPE profiles from 3D structures. The model starts from RNA structures and combines nucleotide interaction strength and conformational propensity, ligand (SHAPE reagent) accessibility, and base-pairing pattern through a composite function to quantify the correlation between SHAPE reactivity and nucleotide conformational stability. The 3DSSR model shows the relationship between SHAPE reactivity and RNA structure and energetics. Comparisons between the 3DSSR-predicted SHAPE profile and the experimental SHAPE data show correlation, suggesting that the extracted analytical function may have captured the key factors that determine the SHAPE reactivity profile. Furthermore, the theory offers an effective method to sieve RNA 3D models and exclude models that are incompatible with experimental SHAPE data.

Finger-Vein Verification Based on Multi-Features Fusion

PubMed Central

Qin, Huafeng; Qin, Lan; Xue, Lian; He, Xiping; Yu, Chengbo; Liang, Xinyuan

2013-01-01

This paper presents a new scheme to improve the performance of finger-vein identification systems. Firstly, a vein pattern extraction method to extract the finger-vein shape and orientation features is proposed. Secondly, to accommodate the potential local and global variations at the same time, a region-based matching scheme is investigated by employing the Scale Invariant Feature Transform (SIFT) matching method. Finally, the finger-vein shape, orientation and SIFT features are combined to further enhance the performance. The experimental results on databases of 426 and 170 fingers demonstrate the consistent superiority of the proposed approach. PMID:24196433

Formation of the Martian Polar Layered Terrains: Quantifying Polar Water Ice and Dust Surface Deposition during Current and Past Orbital Epochs with the NASA Ames GCM

NASA Astrophysics Data System (ADS)

Emmett, Jeremy; Murphy, Jim

2016-10-01

Structural and compositional variability in the layering sequences comprising Mars' polar layered terrains (PLT's) is likely explained by orbital-forced climatic variations in the sedimentary cycles of water ice and dust from which they formed [1]. The PLT's therefore contain a direct, extensive record of the recent climate history of Mars encoded in their structure and stratigraphy, but deciphering this record requires understanding the depositional history of their dust and water ice constituents. 3D Mars atmosphere modeling enables direct simulation of atmospheric dynamics, aerosol transport and quantification of surface accumulation for a range of past and present orbital configurations. By quantifying the net yearly polar deposition rates of water ice and dust under Mars' current and past orbital configurations characteristic of the last several millions of years, and integrating these into the present with a time-stepping model, the formation history of the north and south PLT's will be investigated, further constraining their age and composition, and, if reproducible, revealing the processes responsible for prominent features and stratigraphy observed within the deposits. Simulating the formation of the deposits by quantifying net deposition rates during past orbital epochs and integrating these into the present, effectively 'rebuilding' the terrains, could aid in understanding deeper stratigraphic trends, correlating between geographically-separated deposits, explaining the presence and shapes of large-scale polar features, and correlating stratigraphy with geological time. Quantification of the magnitude and geographical distribution of surface aerosol accumulation will build on the work of previous GCM-based investigations [3]. Construction and analysis of hypothetical stratigraphic sequences in the PLT's will draw from previous climate-controlled stratigraphy methodologies [2,4], but will utilize GCM-derived net deposition rates to model orbital influences on sedimentation and erosion.[1] Milkovich S.M. and Head J. W. (2005) JGR, 110. [2] Laskar J.B. and Mustard J.F. (2002) Nature, 419, 375-377 [3] Newman C.E. et al. (2005) Icarus, 174, 135-160. [4] Hvidberg C.S. et al. (2012) Icarus, 221, 405-419.

Task probability and report of feature information: what you know about what you 'see' depends on what you expect to need.

PubMed

Pilling, Michael; Gellatly, Angus

2013-07-01

We investigated the influence of dimensional set on report of object feature information using an immediate memory probe task. Participants viewed displays containing up to 36 coloured geometric shapes which were presented for several hundred milliseconds before one item was abruptly occluded by a probe. A cue presented simultaneously with the probe instructed participants to report either about the colour or shape of the probe item. A dimensional set towards the colour or shape of the presented items was induced by manipulating task probability - the relative probability with which the two feature dimensions required report. This was done across two participant groups: One group was given trials where there was a higher report probability of colour, the other a higher report probability of shape. Two experiments showed that features were reported most accurately when they were of high task probability, though in both cases the effect was largely driven by the colour dimension. Importantly the task probability effect did not interact with display set size. This is interpreted as tentative evidence that this manipulation influences feature processing in a global manner and at a stage prior to visual short term memory. Copyright © 2013 Elsevier B.V. All rights reserved.

Feature-based attention to unconscious shapes and colors.

PubMed

Schmidt, Filipp; Schmidt, Thomas

2010-08-01

Two experiments employed feature-based attention to modulate the impact of completely masked primes on subsequent pointing responses. Participants processed a color cue to select a pair of possible pointing targets out of multiple targets on the basis of their color, and then pointed to the one of those two targets with a prespecified shape. All target pairs were preceded by prime pairs triggering either the correct or the opposite response. The time interval between cue and primes was varied to modulate the time course of feature-based attentional selection. In a second experiment, the roles of color and shape were switched. Pointing trajectories showed large priming effects that were amplified by feature-based attention, indicating that attention modulated the earliest phases of motor output. Priming effects as well as their attentional modulation occurred even though participants remained unable to identify the primes, indicating distinct processes underlying visual awareness, attention, and response control.

Frozen Plains in the Heart of Pluto Heart

NASA Image and Video Library

2015-07-17

At center left of Pluto vast heart-shaped feature "Tombaugh Regio" -- lies a vast, craterless plain that appears to be no more than 100 million years old, and is possibly still being shaped by geologic processes as seen by NASA New Horizons spacecraft. This frozen region is north of Pluto's icy mountains and has been informally named Sputnik Planum (Sputnik Plain), after Earth's first artificial satellite. The surface appears to be divided into irregularly-shaped segments that are ringed by narrow troughs. Features that appear to be groups of mounds and fields of small pits are also visible. This image was acquired by the Long Range Reconnaissance Imager (LORRI) on July 14 from a distance of 48,000 miles (77,000 kilometers). Features as small as one-half mile (1 kilometer) across are visible. The blocky appearance of some features is due to compression of the image. http://photojournal.jpl.nasa.gov/catalog/PIA19841

Real-Time Detection and Measurement of Eye Features from Color Images

PubMed Central

Borza, Diana; Darabant, Adrian Sergiu; Danescu, Radu

2016-01-01

The accurate extraction and measurement of eye features is crucial to a variety of domains, including human-computer interaction, biometry, and medical research. This paper presents a fast and accurate method for extracting multiple features around the eyes: the center of the pupil, the iris radius, and the external shape of the eye. These features are extracted using a multistage algorithm. On the first stage the pupil center is localized using a fast circular symmetry detector and the iris radius is computed using radial gradient projections, and on the second stage the external shape of the eye (of the eyelids) is determined through a Monte Carlo sampling framework based on both color and shape information. Extensive experiments performed on a different dataset demonstrate the effectiveness of our approach. In addition, this work provides eye annotation data for a publicly-available database. PMID:27438838

Classification of malignant and benign liver tumors using a radiomics approach

NASA Astrophysics Data System (ADS)

Starmans, Martijn P. A.; Miclea, Razvan L.; van der Voort, Sebastian R.; Niessen, Wiro J.; Thomeer, Maarten G.; Klein, Stefan

2018-03-01

Correct diagnosis of the liver tumor phenotype is crucial for treatment planning, especially the distinction between malignant and benign lesions. Clinical practice includes manual scoring of the tumors on Magnetic Resonance (MR) images by a radiologist. As this is challenging and subjective, it is often followed by a biopsy. In this study, we propose a radiomics approach as an objective and non-invasive alternative for distinguishing between malignant and benign phenotypes. T2-weighted (T2w) MR sequences of 119 patients from multiple centers were collected. We developed an efficient semi-automatic segmentation method, which was used by a radiologist to delineate the tumors. Within these regions, features quantifying tumor shape, intensity, texture, heterogeneity and orientation were extracted. Patient characteristics and semantic features were added for a total of 424 features. Classification was performed using Support Vector Machines (SVMs). The performance was evaluated using internal random-split cross-validation. On the training set within each iteration, feature selection and hyperparameter optimization were performed. To this end, another cross validation was performed by splitting the training sets in training and validation parts. The optimal settings were evaluated on the independent test sets. Manual scoring by a radiologist was also performed. The radiomics approach resulted in 95% confidence intervals of the AUC of [0.75, 0.92], specificity [0.76, 0.96] and sensitivity [0.52, 0.82]. These approach the performance of the radiologist, which were an AUC of 0.93, specificity 0.70 and sensitivity 0.93. Hence, radiomics has the potential to predict the liver tumor benignity in an objective and non-invasive manner.

Image correlation microscopy for uniform illumination.

PubMed

Gaborski, T R; Sealander, M N; Ehrenberg, M; Waugh, R E; McGrath, J L

2010-01-01

Image cross-correlation microscopy is a technique that quantifies the motion of fluorescent features in an image by measuring the temporal autocorrelation function decay in a time-lapse image sequence. Image cross-correlation microscopy has traditionally employed laser-scanning microscopes because the technique emerged as an extension of laser-based fluorescence correlation spectroscopy. In this work, we show that image correlation can also be used to measure fluorescence dynamics in uniform illumination or wide-field imaging systems and we call our new approach uniform illumination image correlation microscopy. Wide-field microscopy is not only a simpler, less expensive imaging modality, but it offers the capability of greater temporal resolution over laser-scanning systems. In traditional laser-scanning image cross-correlation microscopy, lateral mobility is calculated from the temporal de-correlation of an image, where the characteristic length is the illuminating laser beam width. In wide-field microscopy, the diffusion length is defined by the feature size using the spatial autocorrelation function. Correlation function decay in time occurs as an object diffuses from its original position. We show that theoretical and simulated comparisons between Gaussian and uniform features indicate the temporal autocorrelation function depends strongly on particle size and not particle shape. In this report, we establish the relationships between the spatial autocorrelation function feature size, temporal autocorrelation function characteristic time and the diffusion coefficient for uniform illumination image correlation microscopy using analytical, Monte Carlo and experimental validation with particle tracking algorithms. Additionally, we demonstrate uniform illumination image correlation microscopy analysis of adhesion molecule domain aggregation and diffusion on the surface of human neutrophils.

Turning maneuvers in sharks: Predicting body curvature from axial morphology.

PubMed

Porter, Marianne E; Roque, Cassandra M; Long, John H

2009-08-01

Given the diversity of vertebral morphologies among fishes, it is tempting to propose causal links between axial morphology and body curvature. We propose that shape and size of the vertebrae, intervertebral joints, and the body will more accurately predict differences in body curvature during swimming rather than a single meristic such as total vertebral number alone. We examined the correlation between morphological features and maximum body curvature seen during routine turns in five species of shark: Triakis semifasciata, Heterodontus francisci, Chiloscyllium plagiosum, Chiloscyllium punctatum, and Hemiscyllium ocellatum. We quantified overall body curvature using three different metrics. From a separate group of size-matched individuals, we measured 16 morphological features from precaudal vertebrae and the body. As predicted, a larger pool of morphological features yielded a more robust prediction of maximal body curvature than vertebral number alone. Stepwise linear regression showed that up to 11 features were significant predictors of the three measures of body curvature, yielding highly significant multiple regressions with r(2) values of 0.523, 0.537, and 0.584. The second moment of area of the centrum was always the best predictor, followed by either centrum length or transverse height. Ranking as the fifth most important variable in three different models, the body's total length, fineness ratio, and width were the most important non-vertebral morphologies. Without considering the effects of muscle activity, these correlations suggest a dominant role for the vertebral column in providing the passive mechanical properties of the body that control, in part, body curvature during swimming. (c) 2009 Wiley-Liss, Inc.

Modeling and Bayesian parameter estimation for shape memory alloy bending actuators

NASA Astrophysics Data System (ADS)

Crews, John H.; Smith, Ralph C.

2012-04-01

In this paper, we employ a homogenized energy model (HEM) for shape memory alloy (SMA) bending actuators. Additionally, we utilize a Bayesian method for quantifying parameter uncertainty. The system consists of a SMA wire attached to a flexible beam. As the actuator is heated, the beam bends, providing endoscopic motion. The model parameters are fit to experimental data using an ordinary least-squares approach. The uncertainty in the fit model parameters is then quantified using Markov Chain Monte Carlo (MCMC) methods. The MCMC algorithm provides bounds on the parameters, which will ultimately be used in robust control algorithms. One purpose of the paper is to test the feasibility of the Random Walk Metropolis algorithm, the MCMC method used here.

The Role of Inhibition in Moving beyond Perceptually Focused Noun Extensions

ERIC Educational Resources Information Center

Snape, Simon; Krott, Andrea

2018-01-01

When young children interpret novel nouns, they tend to be very much affected by the perceptual features of the referent objects, especially shape. This article investigates whether children might inhibit a prepotent tendency to base novel nouns on the shape of referent objects in order to base them on conceptual features (i.e. taxonomic object…

Histological Image Feature Mining Reveals Emergent Diagnostic Properties for Renal Cancer

PubMed Central

Kothari, Sonal; Phan, John H.; Young, Andrew N.; Wang, May D.

2016-01-01

Computer-aided histological image classification systems are important for making objective and timely cancer diagnostic decisions. These systems use combinations of image features that quantify a variety of image properties. Because researchers tend to validate their diagnostic systems on specific cancer endpoints, it is difficult to predict which image features will perform well given a new cancer endpoint. In this paper, we define a comprehensive set of common image features (consisting of 12 distinct feature subsets) that quantify a variety of image properties. We use a data-mining approach to determine which feature subsets and image properties emerge as part of an “optimal” diagnostic model when applied to specific cancer endpoints. Our goal is to assess the performance of such comprehensive image feature sets for application to a wide variety of diagnostic problems. We perform this study on 12 endpoints including 6 renal tumor subtype endpoints and 6 renal cancer grade endpoints. Keywords-histology, image mining, computer-aided diagnosis PMID:28163980

Three-dimensional gender differences in facial form of children in the North East of England.

PubMed

Bugaighis, Iman; Mattick, Clare R; Tiddeman, Bernard; Hobson, Ross

2013-06-01

The aim of the prospective cross-sectional morphometric study was to explore three dimensional (3D) facial shape and form (shape plus size) variation within and between 8- and 12-year-old Caucasian children; 39 males age-matched with 41 females. The 3D images were captured using a stereophotogrammeteric system, and facial form was recorded by digitizing 39 anthropometric landmarks for each scan. The x, y, z coordinates of each landmark were extracted and used to calculate linear and angular measurements. 3D landmark asymmetry was quantified using Generalized Procrustes Analysis (GPA) and an average face was constructed for each gender. The average faces were superimposed and differences were visualized and quantified. Shape variations were explored using GPA and PrincipalComponent Analysis. Analysis of covariance and Pearson correlation coefficients were used to explore gender differences and to determine any correlation between facial measurements and height or weight. Multivariate analysis was used to ascertain differences in facial measurements or 3D landmark asymmetry. There were no differences in height or weight between genders. There was a significant positive correlation between facial measurements and height and weight and statistically significant differences in linear facial width measurements between genders. These differences were related to the larger size of males rather than differences in shape. There were no age- or gender-linked significant differences in 3D landmark asymmetry. Shape analysis confirmed similarities between both males and females for facial shape and form in 8- to 12-year-old children. Any differences found were related to differences in facial size rather than shape.

Evolution in the Caribbean Classroom: A Critical Analysis of the Role of Biology Teachers and Science Standards in Shaping Evolution Instruction in Belize

ERIC Educational Resources Information Center

Nunez, Elvis Enrique; Pringle, Rose M.; Showalter, Kevin Tyler

2012-01-01

A survey of the literature on evolution instruction provides evidence that teachers' personal views and understandings can shape instructional approaches and content delivered in science classrooms regardless of established science standards. This study is the first to quantify evolutionary worldviews of in-service teachers in the Caribbean,…

Form and performance: body shape and prey-capture success in four drift-feeding minnows

Treesearch

Pedro A. Rincón; Markus Bastir; Gary D. Grossman

2008-01-01

Identifying links between morphology and performance for ecologically relevant tasks will help elucidate the relationships between organismal design and fitness. We conducted a laboratory study to quantify the relationship between variation in body shape and prey-capture success in four drift-feeding minnow species. We offered drifting prey to individual fish in a test...

Bio-Inspired Methods for Producing Adaptive Beampatterns with Diffracting Baffle Shapes

DTIC Science & Technology

The diversity of local shape features and their role in shaping the functional/ultrasonic characteristics of the noseleaves and pinnae in bats have...have been used to recreate active deformations of the noseleaf shapes that some bat species show as part of their biosonar behaviors and put the

Perceptual representation and effectiveness of local figure–ground cues in natural contours

PubMed Central

Sakai, Ko; Matsuoka, Shouhei; Kurematsu, Ken; Hatori, Yasuhiro

2015-01-01

A contour shape strongly influences the perceptual segregation of a figure from the ground. We investigated the contribution of local contour shape to figure–ground segregation. Although previous studies have reported local contour features that evoke figure–ground perception, they were often image features and not necessarily perceptual features. First, we examined whether contour features, specifically, convexity, closure, and symmetry, underlie the perceptual representation of natural contour shapes. We performed similarity tests between local contours, and examined the contribution of the contour features to the perceptual similarities between the contours. The local contours were sampled from natural contours so that their distribution was uniform in the space composed of the three contour features. This sampling ensured the equal appearance frequency of the factors and a wide variety of contour shapes including those comprised of contradictory factors that induce figure in the opposite directions. This sampling from natural contours is advantageous in order to randomly pickup a variety of contours that satisfy a wide range of cue combinations. Multidimensional scaling analyses showed that the combinations of convexity, closure, and symmetry contribute to perceptual similarity, thus they are perceptual quantities. Second, we examined whether the three features contribute to local figure–ground perception. We performed psychophysical experiments to judge the direction of the figure along the local contours, and examined the contribution of the features to the figure–ground judgment. Multiple linear regression analyses showed that closure was a significant factor, but that convexity and symmetry were not. These results indicate that closure is dominant in the local figure–ground perception with natural contours when the other cues coexist with equal probability including contradictory cases. PMID:26579057

Perceptual representation and effectiveness of local figure-ground cues in natural contours.

PubMed

Sakai, Ko; Matsuoka, Shouhei; Kurematsu, Ken; Hatori, Yasuhiro

2015-01-01

A contour shape strongly influences the perceptual segregation of a figure from the ground. We investigated the contribution of local contour shape to figure-ground segregation. Although previous studies have reported local contour features that evoke figure-ground perception, they were often image features and not necessarily perceptual features. First, we examined whether contour features, specifically, convexity, closure, and symmetry, underlie the perceptual representation of natural contour shapes. We performed similarity tests between local contours, and examined the contribution of the contour features to the perceptual similarities between the contours. The local contours were sampled from natural contours so that their distribution was uniform in the space composed of the three contour features. This sampling ensured the equal appearance frequency of the factors and a wide variety of contour shapes including those comprised of contradictory factors that induce figure in the opposite directions. This sampling from natural contours is advantageous in order to randomly pickup a variety of contours that satisfy a wide range of cue combinations. Multidimensional scaling analyses showed that the combinations of convexity, closure, and symmetry contribute to perceptual similarity, thus they are perceptual quantities. Second, we examined whether the three features contribute to local figure-ground perception. We performed psychophysical experiments to judge the direction of the figure along the local contours, and examined the contribution of the features to the figure-ground judgment. Multiple linear regression analyses showed that closure was a significant factor, but that convexity and symmetry were not. These results indicate that closure is dominant in the local figure-ground perception with natural contours when the other cues coexist with equal probability including contradictory cases.

Cascaded ensemble of convolutional neural networks and handcrafted features for mitosis detection

NASA Astrophysics Data System (ADS)

Wang, Haibo; Cruz-Roa, Angel; Basavanhally, Ajay; Gilmore, Hannah; Shih, Natalie; Feldman, Mike; Tomaszewski, John; Gonzalez, Fabio; Madabhushi, Anant

2014-03-01

Breast cancer (BCa) grading plays an important role in predicting disease aggressiveness and patient outcome. A key component of BCa grade is mitotic count, which involves quantifying the number of cells in the process of dividing (i.e. undergoing mitosis) at a specific point in time. Currently mitosis counting is done manually by a pathologist looking at multiple high power fields on a glass slide under a microscope, an extremely laborious and time consuming process. The development of computerized systems for automated detection of mitotic nuclei, while highly desirable, is confounded by the highly variable shape and appearance of mitoses. Existing methods use either handcrafted features that capture certain morphological, statistical or textural attributes of mitoses or features learned with convolutional neural networks (CNN). While handcrafted features are inspired by the domain and the particular application, the data-driven CNN models tend to be domain agnostic and attempt to learn additional feature bases that cannot be represented through any of the handcrafted features. On the other hand, CNN is computationally more complex and needs a large number of labeled training instances. Since handcrafted features attempt to model domain pertinent attributes and CNN approaches are largely unsupervised feature generation methods, there is an appeal to attempting to combine these two distinct classes of feature generation strategies to create an integrated set of attributes that can potentially outperform either class of feature extraction strategies individually. In this paper, we present a cascaded approach for mitosis detection that intelligently combines a CNN model and handcrafted features (morphology, color and texture features). By employing a light CNN model, the proposed approach is far less demanding computationally, and the cascaded strategy of combining handcrafted features and CNN-derived features enables the possibility of maximizing performance by leveraging the disconnected feature sets. Evaluation on the public ICPR12 mitosis dataset that has 226 mitoses annotated on 35 High Power Fields (HPF, x400 magnification) by several pathologists and 15 testing HPFs yielded an F-measure of 0.7345. Apart from this being the second best performance ever recorded for this MITOS dataset, our approach is faster and requires fewer computing resources compared to extant methods, making this feasible for clinical use.

Short-term perceptual learning in visual conjunction search.

PubMed

Su, Yuling; Lai, Yunpeng; Huang, Wanyi; Tan, Wei; Qu, Zhe; Ding, Yulong

2014-08-01

Although some studies showed that training can improve the ability of cross-dimension conjunction search, less is known about the underlying mechanism. Specifically, it remains unclear whether training of visual conjunction search can successfully bind different features of separated dimensions into a new function unit at early stages of visual processing. In the present study, we utilized stimulus specificity and generalization to provide a new approach to investigate the mechanisms underlying perceptual learning (PL) in visual conjunction search. Five experiments consistently showed that after 40 to 50 min of training of color-shape/orientation conjunction search, the ability to search for a certain conjunction target improved significantly and the learning effects did not transfer to a new target that differed from the trained target in both color and shape/orientation features. However, the learning effects were not strictly specific. In color-shape conjunction search, although the learning effect could not transfer to a same-shape different-color target, it almost completely transferred to a same-color different-shape target. In color-orientation conjunction search, the learning effect partly transferred to a new target that shared same color or same orientation with the trained target. Moreover, the sum of transfer effects for the same color target and the same orientation target in color-orientation conjunction search was algebraically equivalent to the learning effect for trained target, showing an additive transfer effect. The different transfer patterns in color-shape and color-orientation conjunction search learning might reflect the different complexity and discriminability between feature dimensions. These results suggested a feature-based attention enhancement mechanism rather than a unitization mechanism underlying the short-term PL of color-shape/orientation conjunction search.

Deep Correlated Holistic Metric Learning for Sketch-Based 3D Shape Retrieval.

PubMed

Dai, Guoxian; Xie, Jin; Fang, Yi

2018-07-01

How to effectively retrieve desired 3D models with simple queries is a long-standing problem in computer vision community. The model-based approach is quite straightforward but nontrivial, since people could not always have the desired 3D query model available by side. Recently, large amounts of wide-screen electronic devices are prevail in our daily lives, which makes the sketch-based 3D shape retrieval a promising candidate due to its simpleness and efficiency. The main challenge of sketch-based approach is the huge modality gap between sketch and 3D shape. In this paper, we proposed a novel deep correlated holistic metric learning (DCHML) method to mitigate the discrepancy between sketch and 3D shape domains. The proposed DCHML trains two distinct deep neural networks (one for each domain) jointly, which learns two deep nonlinear transformations to map features from both domains into a new feature space. The proposed loss, including discriminative loss and correlation loss, aims to increase the discrimination of features within each domain as well as the correlation between different domains. In the new feature space, the discriminative loss minimizes the intra-class distance of the deep transformed features and maximizes the inter-class distance of the deep transformed features to a large margin within each domain, while the correlation loss focused on mitigating the distribution discrepancy across different domains. Different from existing deep metric learning methods only with loss at the output layer, our proposed DCHML is trained with loss at both hidden layer and output layer to further improve the performance by encouraging features in the hidden layer also with desired properties. Our proposed method is evaluated on three benchmarks, including 3D Shape Retrieval Contest 2013, 2014, and 2016 benchmarks, and the experimental results demonstrate the superiority of our proposed method over the state-of-the-art methods.

Statistical shape modelling of hip and lumbar spine morphology and their relationship in the MRC National Survey of Health and Development.

PubMed

Pavlova, Anastasia V; Saunders, Fiona R; Muthuri, Stella G; Gregory, Jennifer S; Barr, Rebecca J; Martin, Kathryn R; Hardy, Rebecca J; Cooper, Rachel; Adams, Judith E; Kuh, Diana; Aspden, Richard M

2017-08-01

The anatomical shape of bones and joints is important for their proper function but quantifying this, and detecting pathological variations, is difficult to do. Numerical descriptions would also enable correlations between joint shapes to be explored. Statistical shape modelling (SSM) is a method of image analysis employing pattern recognition statistics to describe and quantify such shapes from images; it uses principal components analysis to generate modes of variation describing each image in terms of a set of numerical scores after removing global size variation. We used SSM to quantify the shapes of the hip and the lumbar spine in dual-energy x-ray absorptiometry (DXA) images from 1511 individuals in the MRC National Survey of Health and Development at ages 60-64 years. We compared shapes of both joints in men and women and hypothesised that hip and spine shape would be strongly correlated. We also investigated associations with height, weight, body mass index (BMI) and local (hip or lumber spine) bone mineral density. In the hip, all except one of the first 10 modes differed between men and women. Men had a wider femoral neck, smaller neck-shaft angle, increased presence of osteophytes and a loss of the femoral head/neck curvature compared with women. Women presented with a flattening of the femoral head and greater acetabular coverage of the femoral head. Greater weight was associated with a shorter, wider femoral neck and larger greater and lesser trochanters. Taller height was accompanied by a flattening of the curve between superior head and neck and a larger lesser trochanter. Four of the first eight modes describing lumbar spine shape differed between men and women. Women tended to have a more lordotic spine than men with relatively smaller but caudally increasing anterior-posterior (a-p) vertebral diameters. Men were more likely to have a straighter spine with larger vertebral a-p diameters relative to vertebral height than women, increasing cranially. A weak correlation was found between body weight and a-p vertebral diameter. No correlations were found between shape modes and height in men, whereas in women there was a weak positive correlation between height and evenness of spinal curvature. Linear relationships between hip and spine shapes were weak and inconsistent in both sexes, thereby offering little support for our hypothesis. In conclusion, men and women entering their seventh decade have small but statistically significant differences in the shapes of their hips and their spines. Associations with height, weight, BMI and BMD are small and correspond to subtle variations whose anatomical significance is not yet clear. Correlations between hip and spine shapes are small. © 2017 The Authors. Journal of Anatomy published by John Wiley & Sons Ltd on behalf of Anatomical Society.

Avian egg shape: Form, function, and evolution.

PubMed

Stoddard, Mary Caswell; Yong, Ee Hou; Akkaynak, Derya; Sheard, Catherine; Tobias, Joseph A; Mahadevan, L

2017-06-23

Avian egg shape is generally explained as an adaptation to life history, yet we currently lack a global synthesis of how egg-shape differences arise and evolve. Here, we apply morphometric, mechanistic, and macroevolutionary analyses to the egg shapes of 1400 bird species. We characterize egg-shape diversity in terms of two biologically relevant variables, asymmetry and ellipticity, allowing us to quantify the observed morphologies in a two-dimensional morphospace. We then propose a simple mechanical model that explains the observed egg-shape diversity based on geometric and material properties of the egg membrane. Finally, using phylogenetic models, we show that egg shape correlates with flight ability on broad taxonomic scales, suggesting that adaptations for flight may have been critical drivers of egg-shape variation in birds. Copyright © 2017 The Authors, some rights reserved; exclusive licensee American Association for the Advancement of Science. No claim to original U.S. Government Works.

Deep-learning derived features for lung nodule classification with limited datasets

NASA Astrophysics Data System (ADS)

Thammasorn, P.; Wu, W.; Pierce, L. A.; Pipavath, S. N.; Lampe, P. D.; Houghton, A. M.; Haynor, D. R.; Chaovalitwongse, W. A.; Kinahan, P. E.

2018-02-01

Only a few percent of indeterminate nodules found in lung CT images are cancer. However, enabling earlier diagnosis is important to avoid invasive procedures or long-time surveillance to those benign nodules. We are evaluating a classification framework using radiomics features derived with a machine learning approach from a small data set of indeterminate CT lung nodule images. We used a retrospective analysis of 194 cases with pulmonary nodules in the CT images with or without contrast enhancement from lung cancer screening clinics. The nodules were contoured by a radiologist and texture features of the lesion were calculated. In addition, sematic features describing shape were categorized. We also explored a Multiband network, a feature derivation path that uses a modified convolutional neural network (CNN) with a Triplet Network. This was trained to create discriminative feature representations useful for variable-sized nodule classification. The diagnostic accuracy was evaluated for multiple machine learning algorithms using texture, shape, and CNN features. In the CT contrast-enhanced group, the texture or semantic shape features yielded an overall diagnostic accuracy of 80%. Use of a standard deep learning network in the framework for feature derivation yielded features that substantially underperformed compared to texture and/or semantic features. However, the proposed Multiband approach of feature derivation produced results similar in diagnostic accuracy to the texture and semantic features. While the Multiband feature derivation approach did not outperform the texture and/or semantic features, its equivalent performance indicates promise for future improvements to increase diagnostic accuracy. Importantly, the Multiband approach adapts readily to different size lesions without interpolation, and performed well with relatively small amount of training data.

Vessel Classification in Cosmo-Skymed SAR Data Using Hierarchical Feature Selection

NASA Astrophysics Data System (ADS)

Makedonas, A.; Theoharatos, C.; Tsagaris, V.; Anastasopoulos, V.; Costicoglou, S.

2015-04-01

SAR based ship detection and classification are important elements of maritime monitoring applications. Recently, high-resolution SAR data have opened new possibilities to researchers for achieving improved classification results. In this work, a hierarchical vessel classification procedure is presented based on a robust feature extraction and selection scheme that utilizes scale, shape and texture features in a hierarchical way. Initially, different types of feature extraction algorithms are implemented in order to form the utilized feature pool, able to represent the structure, material, orientation and other vessel type characteristics. A two-stage hierarchical feature selection algorithm is utilized next in order to be able to discriminate effectively civilian vessels into three distinct types, in COSMO-SkyMed SAR images: cargos, small ships and tankers. In our analysis, scale and shape features are utilized in order to discriminate smaller types of vessels present in the available SAR data, or shape specific vessels. Then, the most informative texture and intensity features are incorporated in order to be able to better distinguish the civilian types with high accuracy. A feature selection procedure that utilizes heuristic measures based on features' statistical characteristics, followed by an exhaustive research with feature sets formed by the most qualified features is carried out, in order to discriminate the most appropriate combination of features for the final classification. In our analysis, five COSMO-SkyMed SAR data with 2.2m x 2.2m resolution were used to analyse the detailed characteristics of these types of ships. A total of 111 ships with available AIS data were used in the classification process. The experimental results show that this method has good performance in ship classification, with an overall accuracy reaching 83%. Further investigation of additional features and proper feature selection is currently in progress.

SU-E-J-270: Repeated 18F-FDG PET/CTs Based Feature Analysis for the Predication of Anal Cancer Recurrence

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

Wang, J; Chuong, M; Choi, W

Purpose: To identify PET/CT based imaging predictors of anal cancer recurrence and evaluate baseline vs. mid-treatment vs. post-treatment PET/CT scans in the tumor recurrence prediction. Methods: FDG-PET/CT scans were obtained at baseline, during chemoradiotherapy (CRT, midtreatment), and after CRT (post-treatment) in 17 patients of anal cancer. Four patients had tumor recurrence. For each patient, the mid-treatment and post-treatment scans were respectively aligned to the baseline scan by a rigid registration followed by a deformable registration. PET/CT image features were computed within the manually delineated tumor volume of each scan to characterize the intensity histogram, spatial patterns (texture), and shape ofmore » the tumors, as well as the changes of these features resulting from CRT. A total of 335 image features were extracted. An Exact Logistic Regression model was employed to analyze these PET/CT image features in order to identify potential predictors for tumor recurrence. Results: Eleven potential predictors of cancer recurrence were identified with p < 0.10, including five shape features, five statistical texture features, and one CT intensity histogram feature. Six features were indentified from posttreatment scans, 3 from mid-treatment scans, and 2 from baseline scans. These features indicated that there were differences in shape, intensity, and spatial pattern between tumors with and without recurrence. Recurrent tumors tended to have more compact shape (higher roundness and lower elongation) and larger intensity difference between baseline and follow-up scans, compared to non-recurrent tumors. Conclusion: PET/CT based anal cancer recurrence predictors were identified. The post-CRT PET/CT is the most important scan for the prediction of cancer recurrence. The baseline and mid-CRT PET/CT also showed value in the prediction and would be more useful for the predication of tumor recurrence in early stage of CRT. This work was supported in part by the National Cancer Institute Grant R01CA172638.« less

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.

Target objects defined by a conjunction of colour and shape can be selected independently and in parallel.

PubMed

Jenkins, Michael; Grubert, Anna; Eimer, Martin

2017-11-01

It is generally assumed that during search for targets defined by a feature conjunction, attention is allocated sequentially to individual objects. We tested this hypothesis by tracking the time course of attentional processing biases with the N2pc component in tasks where observers searched for two targets defined by a colour/shape conjunction. In Experiment 1, two displays presented in rapid succession (100 ms or 10 ms SOA) each contained a target and a colour-matching or shape-matching distractor on opposite sides. Target objects in both displays elicited N2pc components of similar size that overlapped in time when the SOA was 10 ms, suggesting that attention was allocated in parallel to both targets. Analogous results were found in Experiment 2, where targets and partially matching distractors were both accompanied by an object without target-matching features. Colour-matching and shape-matching distractors also elicited N2pc components, and the target N2pc was initially identical to the sum of the two distractor N2pcs, suggesting that the initial phase of attentional object selection was guided independently by feature templates for target colour and shape. Beyond 230 ms after display onset, the target N2pc became superadditive, indicating that attentional selection processes now started to be sensitive to the presence of feature conjunctions. Results show that independent attentional selection processes can be activated in parallel by two target objects in situations where these objects are defined by a feature conjunction.

Quantitative analysis of fetal facial morphology using 3D ultrasound and statistical shape modeling: a feasibility study.

PubMed

Dall'Asta, Andrea; Schievano, Silvia; Bruse, Jan L; Paramasivam, Gowrishankar; Kaihura, Christine Tita; Dunaway, David; Lees, Christoph C

2017-07-01

The antenatal detection of facial dysmorphism using 3-dimensional ultrasound may raise the suspicion of an underlying genetic condition but infrequently leads to a definitive antenatal diagnosis. Despite advances in array and noninvasive prenatal testing, not all genetic conditions can be ascertained from such testing. The aim of this study was to investigate the feasibility of quantitative assessment of fetal face features using prenatal 3-dimensional ultrasound volumes and statistical shape modeling. STUDY DESIGN: Thirteen normal and 7 abnormal stored 3-dimensional ultrasound fetal face volumes were analyzed, at a median gestation of 29 +4  weeks (25 +0 to 36 +1 ). The 20 3-dimensional surface meshes generated were aligned and served as input for a statistical shape model, which computed the mean 3-dimensional face shape and 3-dimensional shape variations using principal component analysis. Ten shape modes explained more than 90% of the total shape variability in the population. While the first mode accounted for overall size differences, the second highlighted shape feature changes from an overall proportionate toward a more asymmetric face shape with a wide prominent forehead and an undersized, posteriorly positioned chin. Analysis of the Mahalanobis distance in principal component analysis shape space suggested differences between normal and abnormal fetuses (median and interquartile range distance values, 7.31 ± 5.54 for the normal group vs 13.27 ± 9.82 for the abnormal group) (P = .056). This feasibility study demonstrates that objective characterization and quantification of fetal facial morphology is possible from 3-dimensional ultrasound. This technique has the potential to assist in utero diagnosis, particularly of rare conditions in which facial dysmorphology is a feature. Copyright © 2017 Elsevier Inc. All rights reserved.

Feature diagnosticity and task context shape activity in human scene-selective cortex.

PubMed

Lowe, Matthew X; Gallivan, Jason P; Ferber, Susanne; Cant, Jonathan S

2016-01-15

Scenes are constructed from multiple visual features, yet previous research investigating scene processing has often focused on the contributions of single features in isolation. In the real world, features rarely exist independently of one another and likely converge to inform scene identity in unique ways. Here, we utilize fMRI and pattern classification techniques to examine the interactions between task context (i.e., attend to diagnostic global scene features; texture or layout) and high-level scene attributes (content and spatial boundary) to test the novel hypothesis that scene-selective cortex represents multiple visual features, the importance of which varies according to their diagnostic relevance across scene categories and task demands. Our results show for the first time that scene representations are driven by interactions between multiple visual features and high-level scene attributes. Specifically, univariate analysis of scene-selective cortex revealed that task context and feature diagnosticity shape activity differentially across scene categories. Examination using multivariate decoding methods revealed results consistent with univariate findings, but also evidence for an interaction between high-level scene attributes and diagnostic visual features within scene categories. Critically, these findings suggest visual feature representations are not distributed uniformly across scene categories but are shaped by task context and feature diagnosticity. Thus, we propose that scene-selective cortex constructs a flexible representation of the environment by integrating multiple diagnostically relevant visual features, the nature of which varies according to the particular scene being perceived and the goals of the observer. Copyright © 2015 Elsevier Inc. All rights reserved.

Curvature by design and on demand in liquid crystal elastomers

NASA Astrophysics Data System (ADS)

Kowalski, B. A.; Mostajeran, C.; Godman, N. P.; Warner, M.; White, T. J.

2018-01-01

The shape of liquid crystalline elastomers (LCEs) with spatial variation in the director orientation can be transformed by exposure to a stimulus. Here, informed by previously reported analytical treatments, we prepare complex spiral patterns imprinted into LCEs and quantify the resulting shape transformation. Quantification of the stimuli-induced shapes reveals good agreement between predicted and experimentally observed curvatures. We conclude this communication by reporting a design strategy to allow LCE films to be anchored at their external boundaries onto rigid substrates without incurring internal, mechanical-mismatch stresses upon actuation, a critical advance to the realization of shape transformation of LCEs in practical device applications.

Recent Progress on Modeling Slip Deformation in Shape Memory Alloys

NASA Astrophysics Data System (ADS)

Sehitoglu, H.; Alkan, S.

2018-03-01

This paper presents an overview of slip deformation in shape memory alloys. The performance of shape memory alloys depends on their slip resistance often quantified through the Critical Resolved Shear Stress (CRSS) or the flow stress. We highlight previous studies that identify the active slip systems and then proceed to show how non- Schmid effects can be dominant in shape memory slip behavior. The work is mostly derived from our recent studies while we highlight key earlier works on slip deformation. We finally discuss the implications of understanding the role of slip on curtailing the transformation strains and also the temperature range over which superelasticity prevails.

Potentiation and Overshadowing of Shape by Wall Color in a Kite-Shaped Maze Using Rats in a Foraging Task

ERIC Educational Resources Information Center

Cole, Mark R.; Gibson, Laura; Pollack, Adam; Yates, Lynsey

2011-01-01

The interaction between redundant geometric and featural cues in open field search tasks has been examined widely with results that are not always consistent. Cheng (1986) found evidence that when searching for food in rectangular environments, rats used the geometrical characteristics of the environment rather than local featural cues, suggesting…

A Computational Model of Multidimensional Shape

PubMed Central

Liu, Xiuwen; Shi, Yonggang; Dinov, Ivo

2010-01-01

We develop a computational model of shape that extends existing Riemannian models of curves to multidimensional objects of general topological type. We construct shape spaces equipped with geodesic metrics that measure how costly it is to interpolate two shapes through elastic deformations. The model employs a representation of shape based on the discrete exterior derivative of parametrizations over a finite simplicial complex. We develop algorithms to calculate geodesics and geodesic distances, as well as tools to quantify local shape similarities and contrasts, thus obtaining a formulation that accounts for regional differences and integrates them into a global measure of dissimilarity. The Riemannian shape spaces provide a common framework to treat numerous problems such as the statistical modeling of shapes, the comparison of shapes associated with different individuals or groups, and modeling and simulation of shape dynamics. We give multiple examples of geodesic interpolations and illustrations of the use of the models in brain mapping, particularly, the analysis of anatomical variation based on neuroimaging data. PMID:21057668

Shape classification of wear particles by image boundary analysis using machine learning algorithms

NASA Astrophysics Data System (ADS)

Yuan, Wei; Chin, K. S.; Hua, Meng; Dong, Guangneng; Wang, Chunhui

2016-05-01

The shape features of wear particles generated from wear track usually contain plenty of information about the wear states of a machinery operational condition. Techniques to quickly identify types of wear particles quickly to respond to the machine operation and prolong the machine's life appear to be lacking and are yet to be established. To bridge rapid off-line feature recognition with on-line wear mode identification, this paper presents a new radial concave deviation (RCD) method that mainly involves the use of the particle boundary signal to analyze wear particle features. Signal output from the RCDs subsequently facilitates the determination of several other feature parameters, typically relevant to the shape and size of the wear particle. Debris feature and type are identified through the use of various classification methods, such as linear discriminant analysis, quadratic discriminant analysis, naïve Bayesian method, and classification and regression tree method (CART). The average errors of the training and test via ten-fold cross validation suggest CART is a highly suitable approach for classifying and analyzing particle features. Furthermore, the results of the wear debris analysis enable the maintenance team to diagnose faults appropriately.

GBshape: a genome browser database for DNA shape annotations.

PubMed

Chiu, Tsu-Pei; Yang, Lin; Zhou, Tianyin; Main, Bradley J; Parker, Stephen C J; Nuzhdin, Sergey V; Tullius, Thomas D; Rohs, Remo

2015-01-01

Many regulatory mechanisms require a high degree of specificity in protein-DNA binding. Nucleotide sequence does not provide an answer to the question of why a protein binds only to a small subset of the many putative binding sites in the genome that share the same core motif. Whereas higher-order effects, such as chromatin accessibility, cooperativity and cofactors, have been described, DNA shape recently gained attention as another feature that fine-tunes the DNA binding specificities of some transcription factor families. Our Genome Browser for DNA shape annotations (GBshape; freely available at http://rohslab.cmb.usc.edu/GBshape/) provides minor groove width, propeller twist, roll, helix twist and hydroxyl radical cleavage predictions for the entire genomes of 94 organisms. Additional genomes can easily be added using the GBshape framework. GBshape can be used to visualize DNA shape annotations qualitatively in a genome browser track format, and to download quantitative values of DNA shape features as a function of genomic position at nucleotide resolution. As biological applications, we illustrate the periodicity of DNA shape features that are present in nucleosome-occupied sequences from human, fly and worm, and we demonstrate structural similarities between transcription start sites in the genomes of four Drosophila species. © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

Quantifying Post- Laser Ablation Prostate Therapy Changes on MRI via a Domain-Specific Biomechanical Model: Preliminary Findings

PubMed Central

Toth, Robert; Sperling, Dan; Madabhushi, Anant

2016-01-01

Focal laser ablation destroys cancerous cells via thermal destruction of tissue by a laser. Heat is absorbed, causing thermal necrosis of the target region. It combines the aggressive benefits of radiation treatment (destroying cancer cells) without the harmful side effects (due to its precise localization). MRI is typically used pre-treatment to determine the targeted area, and post-treatment to determine efficacy by detecting necrotic tissue, or tumor recurrence. However, no system exists to quantitatively evaluate the post-treatment effects on the morphology and structure via MRI. To quantify these changes, the pre- and post-treatment MR images must first be spatially aligned. The goal is to quantify (a) laser-induced shape-based changes, and (b) changes in MRI parameters post-treatment. The shape-based changes may be correlated with treatment efficacy, and the quantitative effects of laser treatment over time is currently poorly understood. This work attempts to model changes in gland morphology following laser treatment due to (1) patient alignment, (2) changes due to surrounding organs such as the bladder and rectum, and (3) changes due to the treatment itself. To isolate the treatment-induced shape-based changes, the changes from (1) and (2) are first modeled and removed using a finite element model (FEM). A FEM models the physical properties of tissue. The use of a physical biomechanical model is important since a stated goal of this work is to determine the physical shape-based changes to the prostate from the treatment, and therefore only physical real deformations are to be allowed. A second FEM is then used to isolate the physical, shape-based, treatment-induced changes. We applied and evaluated our model in capturing the laser induced changes to the prostate morphology on eight patients with 3.0 Tesla, T2-weighted MRI, acquired approximately six months following treatment. Our results suggest the laser treatment causes a decrease in prostate volume, which appears to manifest predominantly at the site of ablation. After spatially aligning the images, changes to MRI intensity values are clearly visible at the site of ablation. Our results suggest that our new methodology is able to capture and quantify the degree of laser-induced changes to the prostate. The quantitative measurements reflecting of the deformation changes can be used to track treatment response over time. PMID:27088600

Feature extraction for face recognition via Active Shape Model (ASM) and Active Appearance Model (AAM)

NASA Astrophysics Data System (ADS)

Iqtait, M.; Mohamad, F. S.; Mamat, M.

2018-03-01

Biometric is a pattern recognition system which is used for automatic recognition of persons based on characteristics and features of an individual. Face recognition with high recognition rate is still a challenging task and usually accomplished in three phases consisting of face detection, feature extraction, and expression classification. Precise and strong location of trait point is a complicated and difficult issue in face recognition. Cootes proposed a Multi Resolution Active Shape Models (ASM) algorithm, which could extract specified shape accurately and efficiently. Furthermore, as the improvement of ASM, Active Appearance Models algorithm (AAM) is proposed to extracts both shape and texture of specified object simultaneously. In this paper we give more details about the two algorithms and give the results of experiments, testing their performance on one dataset of faces. We found that the ASM is faster and gains more accurate trait point location than the AAM, but the AAM gains a better match to the texture.

The Dynamics of Germinal Centre Selection as Measured by Graph-Theoretical Analysis of Mutational Lineage Trees

PubMed Central

Dunn-Walters, Deborah K.; Belelovsky, Alex; Edelman, Hanna; Banerjee, Monica; Mehr, Ramit

2002-01-01

We have developed a rigorous graph-theoretical algorithm for quantifying the shape properties of mutational lineage trees. We show that information about the dynamics of hypermutation and antigen-driven clonal selection during the humoral immune response is contained in the shape of mutational lineage trees deduced from the responding clones. Age and tissue related differences in the selection process can be studied using this method. Thus, tree shape analysis can be used as a means of elucidating humoral immune response dynamics in various situations. PMID:15144020

Optimal Symmetric Multimodal Templates and Concatenated Random Forests for Supervised Brain Tumor Segmentation (Simplified) with ANTsR.

PubMed

Tustison, Nicholas J; Shrinidhi, K L; Wintermark, Max; Durst, Christopher R; Kandel, Benjamin M; Gee, James C; Grossman, Murray C; Avants, Brian B

2015-04-01

Segmenting and quantifying gliomas from MRI is an important task for diagnosis, planning intervention, and for tracking tumor changes over time. However, this task is complicated by the lack of prior knowledge concerning tumor location, spatial extent, shape, possible displacement of normal tissue, and intensity signature. To accommodate such complications, we introduce a framework for supervised segmentation based on multiple modality intensity, geometry, and asymmetry feature sets. These features drive a supervised whole-brain and tumor segmentation approach based on random forest-derived probabilities. The asymmetry-related features (based on optimal symmetric multimodal templates) demonstrate excellent discriminative properties within this framework. We also gain performance by generating probability maps from random forest models and using these maps for a refining Markov random field regularized probabilistic segmentation. This strategy allows us to interface the supervised learning capabilities of the random forest model with regularized probabilistic segmentation using the recently developed ANTsR package--a comprehensive statistical and visualization interface between the popular Advanced Normalization Tools (ANTs) and the R statistical project. The reported algorithmic framework was the top-performing entry in the MICCAI 2013 Multimodal Brain Tumor Segmentation challenge. The challenge data were widely varying consisting of both high-grade and low-grade glioma tumor four-modality MRI from five different institutions. Average Dice overlap measures for the final algorithmic assessment were 0.87, 0.78, and 0.74 for "complete", "core", and "enhanced" tumor components, respectively.

An eye tracking study of bloodstain pattern analysts during pattern classification.

PubMed

Arthur, R M; Hoogenboom, J; Green, R D; Taylor, M C; de Bruin, K G

2018-05-01

Bloodstain pattern analysis (BPA) is the forensic discipline concerned with the classification and interpretation of bloodstains and bloodstain patterns at the crime scene. At present, it is unclear exactly which stain or pattern properties and their associated values are most relevant to analysts when classifying a bloodstain pattern. Eye tracking technology has been widely used to investigate human perception and cognition. Its application to forensics, however, is limited. This is the first study to use eye tracking as a tool for gaining access to the mindset of the bloodstain pattern expert. An eye tracking method was used to follow the gaze of 24 bloodstain pattern analysts during an assigned task of classifying a laboratory-generated test bloodstain pattern. With the aid of an automated image-processing methodology, the properties of selected features of the pattern were quantified leading to the delineation of areas of interest (AOIs). Eye tracking data were collected for each AOI and combined with verbal statements made by analysts after the classification task to determine the critical range of values for relevant diagnostic features. Eye-tracking data indicated that there were four main regions of the pattern that analysts were most interested in. Within each region, individual elements or groups of elements that exhibited features associated with directionality, size, colour and shape appeared to capture the most interest of analysts during the classification task. The study showed that the eye movements of trained bloodstain pattern experts and their verbal descriptions of a pattern were well correlated.

FracPaQ: a MATLAB™ toolbox for the quantification of fracture patterns

NASA Astrophysics Data System (ADS)

Healy, David; Rizzo, Roberto; Farrell, Natalie; Watkins, Hannah; Cornwell, David; Gomez-Rivas, Enrique; Timms, Nick

2017-04-01

The patterns of fractures in deformed rocks are rarely uniform or random. Fracture orientations, sizes, shapes and spatial distributions often exhibit some kind of order. In detail, there may be relationships among the different fracture attributes e.g. small fractures dominated by one orientation, larger fractures by another. These relationships are important because the mechanical (e.g. strength, anisotropy) and transport (e.g. fluids, heat) properties of rock depend on these fracture patterns and fracture attributes. This presentation describes an open source toolbox to quantify fracture patterns, including distributions in fracture attributes and their spatial variation. Software has been developed to quantify fracture patterns from 2-D digital images, such as thin section micrographs, geological maps, outcrop or aerial photographs or satellite images. The toolbox comprises a suite of MATLAB™ scripts based on published quantitative methods for the analysis of fracture attributes: orientations, lengths, intensity, density and connectivity. An estimate of permeability in 2-D is made using a parallel plate model. The software provides an objective and consistent methodology for quantifying fracture patterns and their variations in 2-D across a wide range of length scales. Our current focus for the application of the software is on quantifying crack and fracture patterns in and around fault zones. There is a large body of published work on the quantification of relatively simple joint patterns, but fault zones present a bigger, and arguably more important, challenge. The methods presented are inherently scale independent, and a key task will be to analyse and integrate quantitative fracture pattern data from micro- to macro-scales. New features in this release include multi-scale analyses based on a wavelet method to look for scale transitions, support for multi-colour traces in the input file processed as separate fracture sets, and combining fracture traces from multiple 2-D images to derive the statistically equivalent 3-D fracture pattern expressed as a 2nd rank crack tensor.

Quantifying patterns of change in marine ecosystem response to multiple pressures.

PubMed

Large, Scott I; Fay, Gavin; Friedland, Kevin D; Link, Jason S

2015-01-01

The ability to understand and ultimately predict ecosystem response to multiple pressures is paramount to successfully implement ecosystem-based management. Thresholds shifts and nonlinear patterns in ecosystem responses can be used to determine reference points that identify levels of a pressure that may drastically alter ecosystem status, which can inform management action. However, quantifying ecosystem reference points has proven elusive due in large part to the multi-dimensional nature of both ecosystem pressures and ecosystem responses. We used ecological indicators, synthetic measures of ecosystem status and functioning, to enumerate important ecosystem attributes and to reduce the complexity of the Northeast Shelf Large Marine Ecosystem (NES LME). Random forests were used to quantify the importance of four environmental and four anthropogenic pressure variables to the value of ecological indicators, and to quantify shifts in aggregate ecological indicator response along pressure gradients. Anthropogenic pressure variables were critical defining features and were able to predict an average of 8-13% (up to 25-66% for individual ecological indicators) of the variation in ecological indicator values, whereas environmental pressures were able to predict an average of 1-5 % (up to 9-26% for individual ecological indicators) of ecological indicator variation. Each pressure variable predicted a different suite of ecological indicator's variation and the shapes of ecological indicator responses along pressure gradients were generally nonlinear. Threshold shifts in ecosystem response to exploitation, the most important pressure variable, occurred when commercial landings were 20 and 60% of total surveyed biomass. Although present, threshold shifts in ecosystem response to environmental pressures were much less important, which suggests that anthropogenic pressures have significantly altered the ecosystem structure and functioning of the NES LME. Gradient response curves provide ecologically informed transformations of pressure variables to explain patterns of ecosystem structure and functioning. By concurrently identifying thresholds for a suite of ecological indicator responses to multiple pressures, we demonstrate that ecosystem reference points can be evaluated and used to support ecosystem-based management.

Radiogenomic analysis of lower grade glioma: a pilot multi-institutional study shows an association between quantitative image features and tumor genomics

NASA Astrophysics Data System (ADS)

Mazurowski, Maciej A.; Clark, Kal; Czarnek, Nicholas M.; Shamsesfandabadi, Parisa; Peters, Katherine B.; Saha, Ashirbani

2017-03-01

Recent studies showed that genomic analysis of lower grade gliomas can be very effective for stratification of patients into groups with different prognosis and proposed specific genomic classifications. In this study, we explore the association of one of those genomic classifications with imaging parameters to determine whether imaging could serve a similar role to genomics in cancer patient treatment. Specifically, we analyzed imaging and genomics data for 110 patients from 5 institutions from The Cancer Genome Atlas and The Cancer Imaging Archive datasets. The analyzed imaging data contained preoperative FLAIR sequence for each patient. The images were analyzed using the in-house algorithms which quantify 2D and 3D aspects of the tumor shape. Genomic data consisted of a cluster of clusters classification proposed in a very recent and leading publication in the field of lower grade glioma genomics. Our statistical analysis showed that there is a strong association between the tumor cluster-of-clusters subtype and two imaging features: bounding ellipsoid volume ratio and angular standard deviation. This result shows high promise for the potential use of imaging as a surrogate measure for genomics in the decision process regarding treatment of lower grade glioma patients.

Allometric scaling of infraorbital surface topography in Homo.

PubMed

Maddux, Scott D; Franciscus, Robert G

2009-02-01

Infraorbital morphology is often included in phylogenetic and functional analyses of Homo. The inclusion of distinct infraorbital configurations, such as the "canine fossa" in Homo sapiens or the "inflated" maxilla in Neandertals, is generally based on either descriptive or qualitative assessments of this morphology, or simple linear chord and subtense measurements. However, the complex curvilinear surface of the infraorbital region has proven difficult to quantify through these traditional methods. In this study, we assess infraorbital shape and its potential allometric scaling in fossil Homo (n=18) and recent humans (n=110) with a geometric morphometric method well-suited for quantifying complex surface topographies. Our results indicate that important aspects of infraorbital shape are correlated with overall infraorbital size across Homo. Specifically, individuals with larger infraorbital areas tend to exhibit relatively flatter infraorbital surface topographies, taller and narrower infraorbital areas, sloped inferior orbital rims, anteroinferiorly oriented maxillary body facies, posteroinferiorly oriented maxillary processes of the zygomatic, and non-everted lateral nasal margins. In contrast, individuals with smaller infraorbital regions generally exhibit relatively depressed surface topographies, shorter and wider infraorbital areas, projecting inferior orbital rims, posteroinferiorly oriented maxillary body facies, anteroinferiorly oriented maxillary processes, and everted lateral nasal margins. These contrasts form a continuum and only appear dichotomized at the ends of the infraorbital size spectrum. In light of these results, we question the utility of incorporating traditionally polarized infraorbital morphologies in phylogenetic and functional analyses without due consideration of continuous infraorbital and facial size variation in Homo. We conclude that the essentially flat infraorbital surface topography of Neandertals is not unique and can be explained, in part, as a function of possessing large infraorbital regions, the ancestral condition for Homo. Furthermore, it appears likely that the diminutive infraorbital region of anatomically modern Homo sapiens is a primary derived trait, with related features such as depressed infraorbital surface topography expressed as correlated secondary characters.

View subspaces for indexing and retrieval of 3D models

NASA Astrophysics Data System (ADS)

Dutagaci, Helin; Godil, Afzal; Sankur, Bülent; Yemez, Yücel

2010-02-01

View-based indexing schemes for 3D object retrieval are gaining popularity since they provide good retrieval results. These schemes are coherent with the theory that humans recognize objects based on their 2D appearances. The viewbased techniques also allow users to search with various queries such as binary images, range images and even 2D sketches. The previous view-based techniques use classical 2D shape descriptors such as Fourier invariants, Zernike moments, Scale Invariant Feature Transform-based local features and 2D Digital Fourier Transform coefficients. These methods describe each object independent of others. In this work, we explore data driven subspace models, such as Principal Component Analysis, Independent Component Analysis and Nonnegative Matrix Factorization to describe the shape information of the views. We treat the depth images obtained from various points of the view sphere as 2D intensity images and train a subspace to extract the inherent structure of the views within a database. We also show the benefit of categorizing shapes according to their eigenvalue spread. Both the shape categorization and data-driven feature set conjectures are tested on the PSB database and compared with the competitor view-based 3D shape retrieval algorithms.

Enhanced lines and box-shaped features in the gamma-ray spectrum from annihilating dark matter in the NMSSM

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

Cerdeño, D.G.; Peiró, M.; Robles, S., E-mail: davidg.cerdeno@gmail.com, E-mail: miguel.peiro@uam.es, E-mail: sandra.robles@uam.es

2016-04-01

We study spectral features in the gamma-ray emission from dark matter (DM) annihilation in the Next-to-Minimal Supersymmetric Standard Model (NMSSM), with either neutralino or right-handed (RH) sneutrino DM . We perform a series of scans over the NMSSM parameter space, compute the DM annihilation cross section into two photons and the contribution of box-shaped features, and compare them with the limits derived from the Fermi-LAT search for gamma-ray lines using the latest Pass 8 data. We implement the LHC bounds on the Higgs sector and on the masses of supersymmetric particles as well as the constraints on low-energy observables. Wemore » also consider the recent upper limits from the Fermi-LAT satellite on the continuum gamma-ray emission from dwarf spheroidal galaxies (dSphs). We show that in the case of the RH sneutrino the constraint on gamma-ray spectral features can be more stringent than the dSph bounds. This is due to the Breit-Wigner enhancement near the ubiquitous resonances with a CP even Higgs and the contribution of scalar and pseudoscalar Higgs final states to box-shaped features. By contrast, for neutralino DM, the di-photon final state is only enhanced in the resonance with a Z boson and box-shaped features are even more suppressed. Therefore, the observation of spectral features could constitute a discriminating factor between both models. In addition, we compare our results with direct DM searches, including the SuperCDMS and LUX limits on the elastic DM-nucleus scattering cross section and show that some of these scenarios would be accessible to next generation experiments. Thus, our findings strengthen the idea of complementarity among distinct DM search strategies.« less

A mathematical theory of shape and neuro-fuzzy methodology-based diagnostic analysis: a comparative study on early detection and treatment planning of brain cancer.

PubMed

Kar, Subrata; Majumder, D Dutta

2017-08-01

Investigation of brain cancer can detect the abnormal growth of tissue in the brain using computed tomography (CT) scans and magnetic resonance (MR) images of patients. The proposed method classifies brain cancer on shape-based feature extraction as either benign or malignant. The authors used input variables such as shape distance (SD) and shape similarity measure (SSM) in fuzzy tools, and used fuzzy rules to evaluate the risk status as an output variable. We presented a classifier neural network system (NNS), namely Levenberg-Marquardt (LM), which is a feed-forward back-propagation learning algorithm used to train the NN for the status of brain cancer, if any, and which achieved satisfactory performance with 100% accuracy. The proposed methodology is divided into three phases. First, we find the region of interest (ROI) in the brain to detect the tumors using CT and MR images. Second, we extract the shape-based features, like SD and SSM, and grade the brain tumors as benign or malignant with the concept of SD function and SSM as shape-based parameters. Third, we classify the brain cancers using neuro-fuzzy tools. In this experiment, we used a 16-sample database with SSM (μ) values and classified the benignancy or malignancy of the brain tumor lesions using the neuro-fuzzy system (NFS). We have developed a fuzzy expert system (FES) and NFS for early detection of brain cancer from CT and MR images. In this experiment, shape-based features, such as SD and SSM, were extracted from the ROI of brain tumor lesions. These shape-based features were considered as input variables and, using fuzzy rules, we were able to evaluate brain cancer risk values for each case. We used an NNS with LM, a feed-forward back-propagation learning algorithm, as a classifier for the diagnosis of brain cancer and achieved satisfactory performance with 100% accuracy. The proposed network was trained with MR image datasets of 16 cases. The 16 cases were fed to the ANN with 2 input neurons, one hidden layer of 10 neurons and 2 output neurons. Of the 16-sample database, 10 datasets for training, 3 datasets for validation, and 3 datasets for testing were used in the ANN classification system. From the SSM (µ) confusion matrix, the number of output datasets of true positive, false positive, true negative and false negative was 6, 0, 10, and 0, respectively. The sensitivity, specificity and accuracy were each equal to 100%. The method of diagnosing brain cancer presented in this study is a successful model to assist doctors in the screening and treatment of brain cancer patients. The presented FES successfully identified the presence of brain cancer in CT and MR images using the extracted shape-based features and the use of NFS for the identification of brain cancer in the early stages. From the analysis and diagnosis of the disease, the doctors can decide the stage of cancer and take the necessary steps for more accurate treatment. Here, we have presented an investigation and comparison study of the shape-based feature extraction method with the use of NFS for classifying brain tumors as showing normal or abnormal patterns. The results have proved that the shape-based features with the use of NFS can achieve a satisfactory performance with 100% accuracy. We intend to extend this methodology for the early detection of cancer in other regions such as the prostate region and human cervix.

Spectroscopic Methods of Remote Sensing for Vegetation Characterization

NASA Astrophysics Data System (ADS)

Kokaly, R. F.

2013-12-01

Imaging spectroscopy (IS), often referred to as hyperspectral remote sensing, is one of the latest innovations in a very long history of spectroscopy. Spectroscopic methods have been used for understanding the composition of the world around us, as well as, the solar system and distant parts of the universe. Continuous sampling of the electromagnetic spectrum in narrow bands is what separates IS from previous forms of remote sensing. Terrestrial imaging spectrometers often have hundreds of channels that cover the wavelength range of reflected solar radiation, including the visible, near-infrared (NIR), and shortwave infrared (SWIR) regions. In part due to the large number of channels, a wide variety of methods have been applied to extract information from IS data sets. These can be grouped into several broad classes, including: multi-channel indices, statistical procedures, full spectrum mixing models, and spectroscopic methods. Spectroscopic methods carry on the more than 150 year history of laboratory-based spectroscopy applied to material identification and characterization. Spectroscopic methods of IS relate the positions and shapes of spectral features resolved by airborne and spaceborne sensors to the biochemical and physical composition of vegetation in a pixel. The chlorophyll 680nm, water 980nm, water 1200nm, SWIR 1700nm, SWIR 2100nm, and SWIR 2300nm features have been the subject of study. Spectral feature analysis (SFA) involves isolating such an absorption feature using continuum removal (CR) and calculating descriptors of the feature, such as center position, depth, width, area, and asymmetry. SFA has been applied to quantify pigment and non-pigment biochemical concentrations in leaves, plants, and canopies. Spectral feature comparison (SFC) utilizes CR of features in each pixel's spectrum and linear regression with continuum-removed features in reference spectra in a library of known vegetation types to map vegetation species and communities. SFC has been applied to map the distributions of minerals in soils and rocks; however, its application to characterize vegetation cover has been less widespread than SFA. Using IS data and the USGS Processing Routines in IDL for Spectroscopic Measurements (PRISM; http://pubs.usgs.gov/of/2011/1155/), this talk will examine requirements for and limitations in applying SFA and SFC to characterize vegetation. A time series of Airborne Visible/InfraRed Imaging Spectrometer (AVIRIS) data collected in the marshes of Louisiana following the Deepwater Horizon oil spill will be used to examine the impact of varying leaf water content on the shapes of the SWIR 1700, 2100, and 2300 nm features and the implications of these changes on vegetation identification and biochemical estimation. The USGS collection of HyMap data over Afghanistan, the largest terrestrial coverage of IS data to date, will be used to demonstrate the characterization of vegetation in arid and semi-arid regions, in which chlorophyll absorption is often weak and soil and rock mineral absorption features overlap vegetation features. Hyperion data, overlapping the HyMap data, will be presented to illustrate the complications that arise when signal-to-noise is low. The benefits of and challenges to applying a spectroscopic remote sensing approach to imaging spectrometer data will be discussed.

Incidental biasing of attention from visual long-term memory.

PubMed

Fan, Judith E; Turk-Browne, Nicholas B

2016-06-01

Holding recently experienced information in mind can help us achieve our current goals. However, such immediate and direct forms of guidance from working memory are less helpful over extended delays or when other related information in long-term memory is useful for reaching these goals. Here we show that information that was encoded in the past but is no longer present or relevant to the task also guides attention. We examined this by associating multiple unique features with novel shapes in visual long-term memory (VLTM), and subsequently testing how memories for these objects biased the deployment of attention. In Experiment 1, VLTM for associated features guided visual search for the shapes, even when these features had never been task-relevant. In Experiment 2, associated features captured attention when presented in isolation during a secondary task that was completely unrelated to the shapes. These findings suggest that long-term memory enables a durable and automatic type of memory-based attentional control. (PsycINFO Database Record (c) 2016 APA, all rights reserved).

Retrospective cues based on object features improve visual working memory performance in older adults.

PubMed

Gilchrist, Amanda L; Duarte, Audrey; Verhaeghen, Paul

2016-01-01

Research with younger adults has shown that retrospective cues can be used to orient top-down attention toward relevant items in working memory. We examined whether older adults could take advantage of these cues to improve memory performance. Younger and older adults were presented with visual arrays of five colored shapes; during maintenance, participants were presented either with an informative cue based on an object feature (here, object shape or color) that would be probed, or with an uninformative, neutral cue. Although older adults were less accurate overall, both age groups benefited from the presentation of an informative, feature-based cue relative to a neutral cue. Surprisingly, we also observed differences in the effectiveness of shape versus color cues and their effects upon post-cue memory load. These results suggest that older adults can use top-down attention to remove irrelevant items from visual working memory, provided that task-relevant features function as cues.

Robustness of Radiomic Features in [11C]Choline and [18F]FDG PET/CT Imaging of Nasopharyngeal Carcinoma: Impact of Segmentation and Discretization.

PubMed

Lu, Lijun; Lv, Wenbing; Jiang, Jun; Ma, Jianhua; Feng, Qianjin; Rahmim, Arman; Chen, Wufan

2016-12-01

Radiomic features are increasingly utilized to evaluate tumor heterogeneity in PET imaging and to enable enhanced prediction of therapy response and outcome. An important ingredient to success in translation of radiomic features to clinical reality is to quantify and ascertain their robustness. In the present work, we studied the impact of segmentation and discretization on 88 radiomic features in 2-deoxy-2-[ 18 F]fluoro-D-glucose ([ 18 F]FDG) and [ 11 C]methyl-choline ([ 11 C]choline) positron emission tomography/X-ray computed tomography (PET/CT) imaging of nasopharyngeal carcinoma. Forty patients underwent [ 18 F]FDG PET/CT scans. Of these, nine patients were imaged on a different day utilizing [ 11 C]choline PET/CT. Tumors were delineated using reference manual segmentation by the consensus of three expert physicians, using 41, 50, and 70 % maximum standardized uptake value (SUV max ) threshold with background correction, Nestle's method, and watershed and region growing methods, and then discretized with fixed bin size (0.05, 0.1, 0.2, 0.5, and 1) in units of SUV. A total of 88 features, including 21 first-order intensity features, 10 shape features, and 57 second- and higher-order textural features, were extracted from the tumors. The robustness of the features was evaluated via the intraclass correlation coefficient (ICC) for seven kinds of segmentation methods (involving all 88 features) and five kinds of discretization bin size (involving the 57 second- and higher-order features). Forty-four (50 %) and 55 (63 %) features depicted ICC ≥0.8 with respect to segmentation as obtained from [ 18 F]FDG and [ 11 C]choline, respectively. Thirteen (23 %) and 12 (21 %) features showed ICC ≥0.8 with respect to discretization as obtained from [ 18 F]FDG and [ 11 C]choline, respectively. Six features were obtained from both [ 18 F]FDG and [ 11 C]choline having ICC ≥0.8 for both segmentation and discretization, five of which were gray-level co-occurrence matrix (GLCM) features (SumEntropy, Entropy, DifEntropy, Homogeneity1, and Homogeneity2) and one of which was an neighborhood gray-tone different matrix (NGTDM) feature (Coarseness). Discretization generated larger effects on features than segmentation in both tracers. Features extracted from [ 11 C]choline were more robust than [ 18 F]FDG for segmentation. Discretization had very similar effects on features extracted from both tracers.

Adhesion mechanisms on solar glass: Effects of relative humidity, surface roughness, and particle shape and size

DOE PAGES

Moutinho, Helio R.; Jiang, Cun -Sheng; To, Bobby; ...

2017-07-27

To better understand and quantify soiling rates on solar panels, we are investigating the adhesion mechanisms between dust particles and solar glass. In this work, we report on two of the fundamental adhesion mechanisms: van der Waals and capillary adhesion forces. The adhesion was determined using force versus distance (F-z) measurements performed with an atomic force microscope (AFM). To emulate dust interacting with the front surface of a solar panel, we measured how oxidized AFM tips, SiO 2 glass spheres, and real dust particles adhered to actual solar glass. The van der Waals forces were evaluated by measurements performed withmore » zero relative humidity in a glove box, and the capillary forces were measured in a stable environment created inside the AFM enclosure with relative humidity values ranging from 18% to 80%. To simulate topographic features of the solar panels caused by factors such as cleaning and abrasion, we induced different degrees of surface roughness in the solar glass. As a result, we were able to 1) identify and quantify both the van der Waals and capillary forces, 2) establish the effects of surface roughness, relative humidity, and particle size on the adhesion mechanisms, and 3) compare adhesion forces between well-controlled particles (AFM tips and glass spheres) and real dust particles.« less

A multiscale analysis of coral reef topographic complexity using lidar-derived bathymetry

USGS Publications Warehouse

Zawada, D.G.; Brock, J.C.

2009-01-01

Coral reefs represent one of the most irregular substrates in the marine environment. This roughness or topographic complexity is an important structural characteristic of reef habitats that affects a number of ecological and environmental attributes, including species diversity and water circulation. Little is known about the range of topographic complexity exhibited within a reef or between different reef systems. The objective of this study was to quantify topographic complexity for a 5-km x 5-km reefscape along the northern Florida Keys reef tract, over spatial scales ranging from meters to hundreds of meters. The underlying dataset was a 1-m spatial resolution, digital elevation model constructed from lidar measurements. Topographic complexity was quantified using a fractal algorithm, which provided a multi-scale characterization of reef roughness. The computed fractal dimensions (D) are a measure of substrate irregularity and are bounded between values of 2 and 3. Spatial patterns in D were positively correlated with known reef zonation in the area. Landward regions of the study site contain relatively smooth (D ??? 2.35) flat-topped patch reefs, which give way to rougher (D ??? 2.5), deep, knoll-shaped patch reefs. The seaward boundary contains a mixture of substrate features, including discontinuous shelf-edge reefs, and exhibits a corresponding range of roughness values (2.28 ??? D ??? 2.61). ?? 2009 Coastal Education and Research Foundation.

Photogrammetry research for FAST eleven-meter reflector panel surface shape measurement

NASA Astrophysics Data System (ADS)

Zhou, Rongwei; Zhu, Lichun; Li, Weimin; Hu, Jingwen; Zhai, Xuebing

2010-10-01

In order to design and manufacture the Five-hundred-meter Aperture Spherical Radio Telescope (FAST) active reflector measuring equipment, measurement on each reflector panel surface shape was presented, static measurement of the whole neutral spherical network of nodes was performed, real-time dynamic measurement at the cable network dynamic deformation was undertaken. In the implementation process of the FAST, reflector panel surface shape detection was completed before eleven-meter reflector panel installation. Binocular vision system was constructed based on the method of binocular stereo vision in machine vision, eleven-meter reflector panel surface shape was measured with photogrammetry method. Cameras were calibrated with the feature points. Under the linearity camera model, the lighting spot array was used as calibration standard pattern, and the intrinsic and extrinsic parameters were acquired. The images were collected for digital image processing and analyzing with two cameras, feature points were extracted with the detection algorithm of characteristic points, and those characteristic points were matched based on epipolar constraint method. Three-dimensional reconstruction coordinates of feature points were analyzed and reflective panel surface shape structure was established by curve and surface fitting method. The error of reflector panel surface shape was calculated to realize automatic measurement on reflector panel surface shape. The results show that unit reflector panel surface inspection accuracy was 2.30mm, within the standard deviation error of 5.00mm. Compared with the requirement of reflector panel machining precision, photogrammetry has fine precision and operation feasibility on eleven-meter reflector panel surface shape measurement for FAST.

Constraining Cometary Crystal Shapes from IR Spectral Features

NASA Astrophysics Data System (ADS)

Wooden, D. H.; Lindsay, S.; Harker, D. E.; Kelley, M. S.; Woodward, C. E.; Murphy, J. R.

2013-12-01

A major challenge in deriving the silicate mineralogy of comets is ascertaining how the anisotropic nature of forsterite crystals affects the spectral features' wavelength, relative intensity, and asymmetry. Forsterite features are identified in cometary comae near 10, 11.05-11.2, 16, 19, 23.5, 27.5 and 33 μm [1-10], so accurate models for forsterite's absorption efficiency (Qabs) are a primary requirement to compute IR spectral energy distributions (SEDs, λFλ vs. λ) and constrain the silicate mineralogy of comets. Forsterite is an anisotropic crystal, with three crystallographic axes with distinct indices of refraction for the a-, b-, and c-axis. The shape of a forsterite crystal significantly affects its spectral features [13-16]. We need models that account for crystal shape. The IR absorption efficiencies of forsterite are computed using the discrete dipole approximation (DDA) code DDSCAT [11,12]. Starting from a fiducial crystal shape of a cube, we systematically elongate/reduce one of the crystallographic axes. Also, we elongate/reduce one axis while the lengths of the other two axes are slightly asymmetric (0.8:1.2). The most significant grain shape characteristic that affects the crystalline spectral features is the relative lengths of the crystallographic axes. The second significant grain shape characteristic is breaking the symmetry of all three axes [17]. Synthetic spectral energy distributions using seven crystal shape classes [17] are fit to the observed SED of comet C/1995 O1 (Hale-Bopp). The Hale-Bopp crystalline residual better matches equant, b-platelets, c-platelets, and b-columns spectral shape classes, while a-platelets, a-columns and c-columns worsen the spectral fits. Forsterite condensation and partial evaporation experiments demonstrate that environmental temperature and grain shape are connected [18-20]. Thus, grain shape is a potential probe for protoplanetary disk temperatures where the cometary crystalline forsterite formed. The forsterite crystal shapes (equant, b-platelets, c-platelets, b-colums - excluding a- and c-columns) derived from our modeling [17] of comet Hale-Bopp, compared to laboratory synthesis experiments [18], suggests that these crystals are high temperature condensates. By observing and modeling the crystalline features in comet ISON, we may constrain forsterite crystal shape(s) and link to their formation temperature(s) and environment(s). References: [1] Campins, H., Ryan, E.V. 1989. ApJ, 341, 1059 [2] Crovisier, J., et al. 1997. Science, 275, 1904 [3] Wooden, D.H., et al. 1999. ApJ, 517, 1034 [4] Wooden, D.H., et al. 2004. ApJL, 612, L77 [5] Harker, D.E., et al. 2002. ApJ, 580, 579 [6] --. 2004, ApJ, 615, 1081 [7] Lisse, C.M., et al. 2006. Icarus 195, 941-944. [8] Lisse, C.M., et.al. 2007. Icarus 191, 223-240. [9] Kelley, M.S., et al. 2010, LPSC, 41, #2375 [10] Harker, D.E., et al. 2011, AJ, 141, 26 [11] Draine, B.T., & Flatau, P.J. 1994, J. Opt. Soc. Am. A, 11, 1491 [12] Draine, B.T., & Flatau, P.J. 2008, J. Opt. Soc. Am. A, 25, 2693 [13] Fabian, D., et al., 2001, A&A, 378, 228 [14] Tamanai, A., et al. 2006. ApJ, 648, L147 [15] Tamanai, A., et al. 2009. ASP Conf. Ser., 414, 438 [16] Koike, C., et al. 2010. ApJ, 709, 983 [17] Lindsay, S.S., et al. 2013, ApJ, 766, 54 [18] Tsuchiyama, A. 1998. Mineralogical J., 20, 59 [19] Kobatake, H., et al., 2008. Icarus, 198, 208 [20] Takigawa, A., et al.. 2009. ApJL, 707, L97

Negations in syllogistic reasoning: evidence for a heuristic-analytic conflict.

PubMed

Stupple, Edward J N; Waterhouse, Eleanor F

2009-08-01

An experiment utilizing response time measures was conducted to test dominant processing strategies in syllogistic reasoning with the expanded quantifier set proposed by Roberts (2005). Through adding negations to existing quantifiers it is possible to change problem surface features without altering logical validity. Biases based on surface features such as atmosphere, matching, and the probability heuristics model (PHM; Chater & Oaksford, 1999; Wetherick & Gilhooly, 1995) would not be expected to show variance in response latencies, but participant responses should be highly sensitive to changes in the surface features of the quantifiers. In contrast, according to analytic accounts such as mental models theory and mental logic (e.g., Johnson-Laird & Byrne, 1991; Rips, 1994) participants should exhibit increased response times for negated premises, but not be overly impacted upon by the surface features of the conclusion. Data indicated that the dominant response strategy was based on a matching heuristic, but also provided evidence of a resource-demanding analytic procedure for dealing with double negatives. The authors propose that dual-process theories offer a stronger account of these data whereby participants employ competing heuristic and analytic strategies and fall back on a heuristic response when analytic processing fails.

Novel Spectral Representations and Sparsity-Driven Algorithms for Shape Modeling and Analysis

NASA Astrophysics Data System (ADS)

Zhong, Ming

In this dissertation, we focus on extending classical spectral shape analysis by incorporating spectral graph wavelets and sparsity-seeking algorithms. Defined with the graph Laplacian eigenbasis, the spectral graph wavelets are localized both in the vertex domain and graph spectral domain, and thus are very effective in describing local geometry. With a rich dictionary of elementary vectors and forcing certain sparsity constraints, a real life signal can often be well approximated by a very sparse coefficient representation. The many successful applications of sparse signal representation in computer vision and image processing inspire us to explore the idea of employing sparse modeling techniques with dictionary of spectral basis to solve various shape modeling problems. Conventional spectral mesh compression uses the eigenfunctions of mesh Laplacian as shape bases, which are highly inefficient in representing local geometry. To ameliorate, we advocate an innovative approach to 3D mesh compression using spectral graph wavelets as dictionary to encode mesh geometry. The spectral graph wavelets are locally defined at individual vertices and can better capture local shape information than Laplacian eigenbasis. The multi-scale SGWs form a redundant dictionary as shape basis, so we formulate the compression of 3D shape as a sparse approximation problem that can be readily handled by greedy pursuit algorithms. Surface inpainting refers to the completion or recovery of missing shape geometry based on the shape information that is currently available. We devise a new surface inpainting algorithm founded upon the theory and techniques of sparse signal recovery. Instead of estimating the missing geometry directly, our novel method is to find this low-dimensional representation which describes the entire original shape. More specifically, we find that, for many shapes, the vertex coordinate function can be well approximated by a very sparse coefficient representation with respect to the dictionary comprising its Laplacian eigenbasis, and it is then possible to recover this sparse representation from partial measurements of the original shape. Taking advantage of the sparsity cue, we advocate a novel variational approach for surface inpainting, integrating data fidelity constraints on the shape domain with coefficient sparsity constraints on the transformed domain. Because of the powerful properties of Laplacian eigenbasis, the inpainting results of our method tend to be globally coherent with the remaining shape. Informative and discriminative feature descriptors are vital in qualitative and quantitative shape analysis for a large variety of graphics applications. We advocate novel strategies to define generalized, user-specified features on shapes. Our new region descriptors are primarily built upon the coefficients of spectral graph wavelets that are both multi-scale and multi-level in nature, consisting of both local and global information. Based on our novel spectral feature descriptor, we developed a user-specified feature detection framework and a tensor-based shape matching algorithm. Through various experiments, we demonstrate the competitive performance of our proposed methods and the great potential of spectral basis and sparsity-driven methods for shape modeling.

Quantification of organ motion based on an adaptive image-based scale invariant feature method

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

Paganelli, Chiara; Peroni, Marta; Baroni, Guido

2013-11-15

Purpose: The availability of corresponding landmarks in IGRT image series allows quantifying the inter and intrafractional motion of internal organs. In this study, an approach for the automatic localization of anatomical landmarks is presented, with the aim of describing the nonrigid motion of anatomo-pathological structures in radiotherapy treatments according to local image contrast.Methods: An adaptive scale invariant feature transform (SIFT) was developed from the integration of a standard 3D SIFT approach with a local image-based contrast definition. The robustness and invariance of the proposed method to shape-preserving and deformable transforms were analyzed in a CT phantom study. The application ofmore » contrast transforms to the phantom images was also tested, in order to verify the variation of the local adaptive measure in relation to the modification of image contrast. The method was also applied to a lung 4D CT dataset, relying on manual feature identification by an expert user as ground truth. The 3D residual distance between matches obtained in adaptive-SIFT was then computed to verify the internal motion quantification with respect to the expert user. Extracted corresponding features in the lungs were used as regularization landmarks in a multistage deformable image registration (DIR) mapping the inhale vs exhale phase. The residual distances between the warped manual landmarks and their reference position in the inhale phase were evaluated, in order to provide a quantitative indication of the registration performed with the three different point sets.Results: The phantom study confirmed the method invariance and robustness properties to shape-preserving and deformable transforms, showing residual matching errors below the voxel dimension. The adapted SIFT algorithm on the 4D CT dataset provided automated and accurate motion detection of peak to peak breathing motion. The proposed method resulted in reduced residual errors with respect to standard SIFT, providing a motion description comparable to expert manual identification, as confirmed by DIR.Conclusions: The application of the method to a 4D lung CT patient dataset demonstrated adaptive-SIFT potential as an automatic tool to detect landmarks for DIR regularization and internal motion quantification. Future works should include the optimization of the computational cost and the application of the method to other anatomical sites and image modalities.« less

Corneal shape and astigmatism: with a note on myopia.

PubMed Central

Weale, R A

1988-01-01

The elliptical shape and the physiological astigmatism of the normal neonatal human cornea are attributed to the ellipsoidal shape of the eyeball. This in turn is a feature of ocular development. The analysis is used to examine earlier observations on myopia. PMID:3179259

Segmentation of prostate boundaries from ultrasound images using statistical shape model.

PubMed

Shen, Dinggang; Zhan, Yiqiang; Davatzikos, Christos

2003-04-01

This paper presents a statistical shape model for the automatic prostate segmentation in transrectal ultrasound images. A Gabor filter bank is first used to characterize the prostate boundaries in ultrasound images in both multiple scales and multiple orientations. The Gabor features are further reconstructed to be invariant to the rotation of the ultrasound probe and incorporated in the prostate model as image attributes for guiding the deformable segmentation. A hierarchical deformation strategy is then employed, in which the model adaptively focuses on the similarity of different Gabor features at different deformation stages using a multiresolution technique, i.e., coarse features first and fine features later. A number of successful experiments validate the algorithm.

Facial soft biometric features for forensic face recognition.

PubMed

Tome, Pedro; Vera-Rodriguez, Ruben; Fierrez, Julian; Ortega-Garcia, Javier

2015-12-01

This paper proposes a functional feature-based approach useful for real forensic caseworks, based on the shape, orientation and size of facial traits, which can be considered as a soft biometric approach. The motivation of this work is to provide a set of facial features, which can be understood by non-experts such as judges and support the work of forensic examiners who, in practice, carry out a thorough manual comparison of face images paying special attention to the similarities and differences in shape and size of various facial traits. This new approach constitutes a tool that automatically converts a set of facial landmarks to a set of features (shape and size) corresponding to facial regions of forensic value. These features are furthermore evaluated in a population to generate statistics to support forensic examiners. The proposed features can also be used as additional information that can improve the performance of traditional face recognition systems. These features follow the forensic methodology and are obtained in a continuous and discrete manner from raw images. A statistical analysis is also carried out to study the stability, discrimination power and correlation of the proposed facial features on two realistic databases: MORPH and ATVS Forensic DB. Finally, the performance of both continuous and discrete features is analyzed using different similarity measures. Experimental results show high discrimination power and good recognition performance, especially for continuous features. A final fusion of the best systems configurations achieves rank 10 match results of 100% for ATVS database and 75% for MORPH database demonstrating the benefits of using this information in practice. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

Raman studies of single-walled carbon nanotubes synthesized by pulsed laser ablation at room temperature

NASA Astrophysics Data System (ADS)

Dixit, Saurabh; Shukla, A. K.

2018-06-01

In this article, single-walled carbon nanotubes (SWCNTs) are synthesized at room temperature using pulsed laser ablation of ferrocene mixed graphitic target. Radial breathing mode (RBM) reveals the presence of semiconducting SWCNTs of multiple diameters. Quantum confinement model is developed for Raman line-shape of G - feature. It is invoked here that G-feature is the manifestation of TO phonons in the semiconducting SWCNTs. Disorder in the SWCNTs is studied here as a function of the concentration of ferrocene in the graphitic target using X-ray diffraction analysis, oscillator strength of G - feature and D mode and Raman line-shape model of G - feature. Furthermore, phonon softening of G - feature of semiconducting SWCNTs is observed as a function of the diameter of nanotube.

Shape Distributions of Nonlinear Dynamical Systems for Video-Based Inference.

PubMed

Venkataraman, Vinay; Turaga, Pavan

2016-12-01

This paper presents a shape-theoretic framework for dynamical analysis of nonlinear dynamical systems which appear frequently in several video-based inference tasks. Traditional approaches to dynamical modeling have included linear and nonlinear methods with their respective drawbacks. A novel approach we propose is the use of descriptors of the shape of the dynamical attractor as a feature representation of nature of dynamics. The proposed framework has two main advantages over traditional approaches: a) representation of the dynamical system is derived directly from the observational data, without any inherent assumptions, and b) the proposed features show stability under different time-series lengths where traditional dynamical invariants fail. We illustrate our idea using nonlinear dynamical models such as Lorenz and Rossler systems, where our feature representations (shape distribution) support our hypothesis that the local shape of the reconstructed phase space can be used as a discriminative feature. Our experimental analyses on these models also indicate that the proposed framework show stability for different time-series lengths, which is useful when the available number of samples are small/variable. The specific applications of interest in this paper are: 1) activity recognition using motion capture and RGBD sensors, 2) activity quality assessment for applications in stroke rehabilitation, and 3) dynamical scene classification. We provide experimental validation through action and gesture recognition experiments on motion capture and Kinect datasets. In all these scenarios, we show experimental evidence of the favorable properties of the proposed representation.

General Multivariate Linear Modeling of Surface Shapes Using SurfStat

PubMed Central

Chung, Moo K.; Worsley, Keith J.; Nacewicz, Brendon, M.; Dalton, Kim M.; Davidson, Richard J.

2010-01-01

Although there are many imaging studies on traditional ROI-based amygdala volumetry, there are very few studies on modeling amygdala shape variations. This paper present a unified computational and statistical framework for modeling amygdala shape variations in a clinical population. The weighted spherical harmonic representation is used as to parameterize, to smooth out, and to normalize amygdala surfaces. The representation is subsequently used as an input for multivariate linear models accounting for nuisance covariates such as age and brain size difference using SurfStat package that completely avoids the complexity of specifying design matrices. The methodology has been applied for quantifying abnormal local amygdala shape variations in 22 high functioning autistic subjects. PMID:20620211

Textural and Mineralogical Analysis of Volcanic Rocks by µ-XRF Mapping.

PubMed

Germinario, Luigi; Cossio, Roberto; Maritan, Lara; Borghi, Alessandro; Mazzoli, Claudio

2016-06-01

In this study, µ-XRF was applied as a novel surface technique for quick acquisition of elemental X-ray maps of rocks, image analysis of which provides quantitative information on texture and rock-forming minerals. Bench-top µ-XRF is cost-effective, fast, and non-destructive, can be applied to both large (up to a few tens of cm) and fragile samples, and yields major and trace element analysis with good sensitivity. Here, X-ray mapping was performed with a resolution of 103.5 µm and spot size of 30 µm over sample areas of about 5×4 cm of Euganean trachyte, a volcanic porphyritic rock from the Euganean Hills (NE Italy) traditionally used in cultural heritage. The relative abundance of phenocrysts and groundmass, as well as the size and shape of the various mineral phases, were obtained from image analysis of the elemental maps. The quantified petrographic features allowed identification of various extraction sites, revealing an objective method for archaeometric provenance studies exploiting µ-XRF imaging.

An economic passive sampling method to detect particulate pollutants using magnetic measurements.

PubMed

Cao, Liwan; Appel, Erwin; Hu, Shouyun; Ma, Mingming

2015-10-01

Identifying particulate matter (PM) emitted from industrial processes into the atmosphere is an important issue in environmental research. This paper presents a passive sampling method using simple artificial samplers that maintains the advantage of bio-monitoring, but overcomes some of its disadvantages. The samplers were tested in a heavily polluted area (Linfen, China) and compared to results from leaf samples. Spatial variations of magnetic susceptibility from artificial passive samplers and leaf samples show very similar patterns. Scanning electron microscopy suggests that the collected PM are mostly in the range of 2-25 μm; frequent occurrence of spherical shape indicates industrial combustion dominates PM emission. Magnetic properties around power plants show different features than other plants. This sampling method provides a suitable and economic tool for semi-quantifying temporal and spatial distribution of air quality; they can be installed in a regular grid and calibrate the weight of PM. Copyright © 2015 Elsevier Ltd. All rights reserved.

Insights on the Spectral Signatures of Stellar Activity and Planets from PCA

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

Davis, Allen B.; Fischer, Debra A.; Cisewski, Jessi

Photospheric velocities and stellar activity features such as spots and faculae produce measurable radial velocity signals that currently obscure the detection of sub-meter-per-second planetary signals. However, photospheric velocities are imprinted differently in a high-resolution spectrum than are Keplerian Doppler shifts. Photospheric activity produces subtle differences in the shapes of absorption lines due to differences in how temperature or pressure affects the atomic transitions. In contrast, Keplerian Doppler shifts affect every spectral line in the same way. With a high enough signal-to-noise (S/N) and resolution, statistical techniques can exploit differences in spectra to disentangle the photospheric velocities and detect lower-amplitude exoplanetmore » signals. We use simulated disk-integrated time-series spectra and principal component analysis (PCA) to show that photospheric signals introduce spectral line variability that is distinct from that of Doppler shifts. We quantify the impact of instrumental resolution and S/N for this work.« less

Derivation of two well-behaved theoretical contagion indices and their sampling properties and application for assessing forest landscape diversity

Treesearch

Bernard R. Parresol

2011-01-01

Studies of spatial patterns of landscapes are useful to quantify human impact, predict wildlife effects, or describe variability of landscape features. A common approach to identify and quantify landscape structure is with a landscape scale model known as a contagion index. A contagion index quantifies two distinct components of landscape diversity: composition and...

The Lake-Catchment (LakeCat) Dataset: Characterizing landscape features for lake basins within the conterminous USA

EPA Science Inventory

Natural and human-related landscape features influence the ecology and water quality within lakes. It is critical, therefore, to quantify landscape features in a hydrologically meaningful way to effectively manage these important ecosystems. Such summaries of the landscape are of...

Automated landmarking and geometric characterization of the carotid siphon.

PubMed

Bogunović, Hrvoje; Pozo, José María; Cárdenes, Rubén; Villa-Uriol, María Cruz; Blanc, Raphaël; Piotin, Michel; Frangi, Alejandro F

2012-05-01

The geometry of the carotid siphon has a large variability between subjects, which has prompted its study as a potential geometric risk factor for the onset of vascular pathologies on and off the internal carotid artery (ICA). In this work, we present a methodology for an objective and extensive geometric characterization of carotid siphon parameterized by a set of anatomical landmarks. We introduce a complete and automated characterization pipeline. Starting from the segmentation of vasculature from angiographic image and its centerline extraction, we first identify ICA by characterizing vessel tree bifurcations and training a support vector machine classifier to detect ICA terminal bifurcation. On ICA centerline curve, we detect anatomical landmarks of carotid siphon by modeling it as a sequence of four bends and selecting their centers and interfaces between them. Bends are detected from the trajectory of the curvature vector expressed in the parallel transport frame of the curve. Finally, using the detected landmarks, we characterize the geometry in two complementary ways. First, with a set of local and global geometric features, known to affect hemodynamics. Second, using large deformation diffeomorphic metric curve mapping (LDDMCM) to quantify pairwise shape similarity. We processed 96 images acquired with 3D rotational angiography. ICA identification had a cross-validation success rate of 99%. Automated landmarking was validated by computing limits of agreement with the reference taken to be the locations of the manually placed landmarks averaged across multiple observers. For all but one landmark, either the bias was not statistically significant or the variability was within 50% of the inter-observer one. The subsequently computed values of geometric features and LDDMCM were commensurate to the ones obtained with manual landmarking. The characterization based on pair-wise LDDMCM proved better in classifying the carotid siphon shape classes than the one based on geometric features. The proposed characterization provides a rich description of geometry and is ready to be applied in the search for geometric risk factors of the carotid siphon. Copyright © 2012 Elsevier B.V. All rights reserved.

Single-Input and Multiple-Output Surface Acoustic Wave Sensing for Damage Quantification in Piezoelectric Sensors.

PubMed

Pamwani, Lavish; Habib, Anowarul; Melandsø, Frank; Ahluwalia, Balpreet Singh; Shelke, Amit

2018-06-22

The main aim of the paper is damage detection at the microscale in the anisotropic piezoelectric sensors using surface acoustic waves (SAWs). A novel technique based on the single input and multiple output of Rayleigh waves is proposed to detect the microscale cracks/flaws in the sensor. A convex-shaped interdigital transducer is fabricated for excitation of divergent SAWs in the sensor. An angularly shaped interdigital transducer (IDT) is fabricated at 0 degrees and ±20 degrees for sensing the convex shape evolution of SAWs. A precalibrated damage was introduced in the piezoelectric sensor material using a micro-indenter in the direction perpendicular to the pointing direction of the SAW. Damage detection algorithms based on empirical mode decomposition (EMD) and principal component analysis (PCA) are implemented to quantify the evolution of damage in piezoelectric sensor material. The evolution of the damage was quantified using a proposed condition indicator (CI) based on normalized Euclidean norm of the change in principal angles, corresponding to pristine and damaged states. The CI indicator provides a robust and accurate metric for detection and quantification of damage.

Quantifying Three-Dimensional Morphology and RNA from Individual Embryos

PubMed Central

Green, Rebecca M.; Leach, Courtney L.; Hoehn, Natasha; Marcucio, Ralph S.; Hallgrímsson, Benedikt

2017-01-01

Quantitative analysis of morphogenesis aids our understanding of developmental processes by providing a method to link changes in shape with cellular and molecular processes. Over the last decade many methods have been developed for 3D imaging of embryos using microCT scanning to quantify the shape of embryos during development. These methods generally involve a powerful, cross-linking fixative such as paraformaldehyde to limit shrinkage during the CT scan. However, the extended time frames that these embryos are incubated in such fixatives prevent use of the tissues for molecular analysis after microCT scanning. This is a significant problem because it limits the ability to correlate variation in molecular data with morphology at the level of individual embryos. Here, we outline a novel method that allows RNA, DNA or protein isolation following CT scan while also allowing imaging of different tissue layers within the developing embryo. We show shape differences early in craniofacial development (E11.5) between common mouse genetic backgrounds, and demonstrate that we are able to generate RNA from these embryos after CT scanning that is suitable for downstream RT-PCR and RNAseq analyses. PMID:28152580

A star-shaped polythiophene dendrimer coating for solid-phase microextraction of triazole agrochemicals.

PubMed

Abolghasemi, Mir Mahdi; Habibiyan, Rahim; Jaymand, Mehdi; Piryaei, Marzieh

2018-02-14

A nanostructured star-shaped polythiophene dendrimer was prepared and used as a fiber coating for headspace solid phase microextraction of selected triazolic pesticides (tebuconazole, hexaconazole, penconazole, diniconazole, difenoconazole, triticonazole) from water samples. The dendrimer with its large surface area was characterized by thermogravimetric analysis, UV-Vis spectroscopy and field emission scanning electron microscopy. It was placed on a stainless steel wire for use in SPME. The experimental conditions for fiber coating, extraction, stirring rate, ionic strength, pH value, desorption temperature and time were optimized. Following thermal desorption, the pesticides were quantified by GC-MS. Under optimum conditions, the repeatability (RSD) for one fiber (for n = 3) ranges from 4.3 to 5.6%. The detection limits are between 8 and 12 pg mL -1 . The method is fast, inexpensive (in terms of equipment), and the fiber has high thermal stability. Graphical abstract Schematic presentation of a nanostructured star-shaped polythiophene dendrimer for use in headspace solid phase microextraction of the triazolic pesticides (tebuconazole, hexaconazole, penconazole, diniconazole, difenoconazole, triticonazole). They were then quantified by gas chromatography-mass spectrometry.

The Macro Dynamics of Weapon System Acquisition: Shaping Early Decisions to Get Better Outcomes

DTIC Science & Technology

2012-05-17

defects and rework •Design tools and processes •Lack of feedback to key design and SE processes •Lack of quantified risk and uncertainty at key... Tools for Rapid Exploration of the Physical Design Space Coupling Operability, Interoperability, and Physical Feasibility Analyses – a Game Changer...Interoperability •Training Quantified Margins and Uncertainties at Each Critical Decision Point M&S RDT&E A Continuum of Tools Underpinned with

Inattentional blindness: A combination of a relational set and a feature inhibition set?

PubMed

Goldstein, Rebecca R; Beck, Melissa R

2016-07-01

Two experiments were conducted to directly test the feature set hypothesis and the relational set hypothesis in an inattentional blindness task. The feature set hypothesis predicts that unexpected objects that match the to-be-attended stimuli will be reported most. The relational set hypothesis predicts that unexpected objects that match the relationship between the to-be-attended and the to-be-ignored stimuli will be reported the most. Experiment 1 manipulated the luminance of the stimuli. Participants were instructed to monitor the gray letter shapes and to ignore either black or white letter shapes. The unexpected objects that exhibited the luminance relation of the to-be-attended to the to-be-ignored stimuli were reported by participants the most. Experiment 2 manipulated the color of the stimuli. Participants were instructed to monitor the yellower orange or the redder orange letter shapes and to ignore the redder orange or yellower letter shapes. The unexpected objects that exhibited the color relation of the to-be-attended to the to-be-ignored stimuli were reported the most. The results do not support the use of a feature set to accomplish the task and instead support the use of a relational set. In addition, the results point to the concurrent use of multiple attentional sets that are both excitatory and inhibitory.

Creating Concepts from Converging Features in Human Cortex

PubMed Central

Coutanche, Marc N.; Thompson-Schill, Sharon L.

2015-01-01

To make sense of the world around us, our brain must remember the overlapping features of millions of objects. Crucially, it must also represent each object's unique feature-convergence. Some theories propose that an integration area (or “convergence zone”) binds together separate features. We report an investigation of our knowledge of objects' features and identity, and the link between them. We used functional magnetic resonance imaging to record neural activity, as humans attempted to detect a cued fruit or vegetable in visual noise. Crucially, we analyzed brain activity before a fruit or vegetable was present, allowing us to interrogate top-down activity. We found that pattern-classification algorithms could be used to decode the detection target's identity in the left anterior temporal lobe (ATL), its shape in lateral occipital cortex, and its color in right V4. A novel decoding-dependency analysis revealed that identity information in left ATL was specifically predicted by the temporal convergence of shape and color codes in early visual regions. People with stronger feature-and-identity dependencies had more similar top-down and bottom-up activity patterns. These results fulfill three key requirements for a neural convergence zone: a convergence result (object identity), ingredients (color and shape), and the link between them. PMID:24692512

Simulation of synthetic gecko arrays shearing on rough surfaces

PubMed Central

Gillies, Andrew G.; Fearing, Ronald S.

2014-01-01

To better understand the role of surface roughness and tip geometry in the adhesion of gecko synthetic adhesives, a model is developed that attempts to uncover the relationship between surface feature size and the adhesive terminal feature shape. This model is the first to predict the adhesive behaviour of a plurality of hairs acting in shear on simulated rough surfaces using analytically derived contact models. The models showed that the nanoscale geometry of the tip shape alters the macroscale adhesion of the array of fibres by nearly an order of magnitude, and that on sinusoidal surfaces with amplitudes much larger than the nanoscale features, spatula-shaped features can increase adhesive forces by 2.5 times on smooth surfaces and 10 times on rough surfaces. Interestingly, the summation of the fibres acting in concert shows behaviour much more complex that what could be predicted with the pull-off model of a single fibre. Both the Johnson–Kendall–Roberts and Kendall peel models can explain the experimentally observed frictional adhesion effect previously described in the literature. Similar to experimental results recently reported on the macroscale features of the gecko adhesive system, adhesion drops dramatically when surface roughness exceeds the size and spacing of the adhesive fibrillar features. PMID:24694893

Linearly additive shape and color signals in monkey inferotemporal cortex.

PubMed

McMahon, David B T; Olson, Carl R

2009-04-01

How does the brain represent a red circle? One possibility is that there is a specialized and possibly time-consuming process whereby the attributes of shape and color, carried by separate populations of neurons in low-order visual cortex, are bound together into a unitary neural representation. Another possibility is that neurons in high-order visual cortex are selective, by virtue of their bottom-up input from low-order visual areas, for particular conjunctions of shape and color. A third possibility is that they simply sum shape and color signals linearly. We tested these ideas by measuring the responses of inferotemporal cortex neurons to sets of stimuli in which two attributes-shape and color-varied independently. We find that a few neurons exhibit conjunction selectivity but that in most neurons the influences of shape and color sum linearly. Contrary to the idea of conjunction coding, few neurons respond selectively to a particular combination of shape and color. Contrary to the idea that binding requires time, conjunction signals, when present, occur as early as feature signals. We argue that neither conjunction selectivity nor a specialized feature binding process is necessary for the effective representation of shape-color combinations.

On river-floodplain interaction and hydrograph skewness

NASA Astrophysics Data System (ADS)

Fleischmann, Ayan S.; Paiva, Rodrigo C. D.; Collischonn, Walter; Sorribas, Mino V.; Pontes, Paulo R. M.

2016-10-01

Understanding hydrological processes occurring within a basin by looking at its outlet hydrograph can improve and foster comprehension of ungauged regions. In this context, we present an extensive examination of the roles that floodplains play on driving hydrograph shapes. Observations of many river hydrographs with large floodplain influence are carried out and indicate that a negative skewness of the hydrographs is present among many of them. Through a series of numerical experiments and analytical reasoning, we show how the relationship between flood wave celerity and discharge in such systems is responsible for determining the hydrograph shapes. The more water inundates the floodplains upstream of the observed point, the more negatively skewed is the observed hydrograph. A case study is performed in the Amazon River Basin, where major rivers with large floodplain attenuation (e.g., Purus, Madeira, and Juruá) are identified with higher negative skewness in the respective hydrographs. Finally, different wetland types could be distinguished by using this feature, e.g., wetlands maintained by endogenous processes, from wetlands governed by overbank flow (along river floodplains). A metric of hydrograph skewness was developed to quantify this effect, based on the time derivative of discharge. Together with the skewness concept, it may be used in other studies concerning the relevance of floodplain attenuation in large, ungauged rivers, where remote sensing data (e.g., satellite altimetry) can be very useful.

Morphometric analysis of Passiflora leaves: the relationship between landmarks of the vasculature and elliptical Fourier descriptors of the blade

PubMed Central

2017-01-01

Abstract Background: Leaf shape among Passiflora species is spectacularly diverse. Underlying this diversity in leaf shape are profound changes in the patterning of the primary vasculature and laminar outgrowth. Each of these aspects of leaf morphology—vasculature and blade—provides different insights into leaf patterning. Results: Here, we morphometrically analyze >3300 leaves from 40 different Passiflora species collected sequentially across the vine. Each leaf is measured in two different ways: using 1) 15 homologous Procrustes-adjusted landmarks of the vasculature, sinuses, and lobes; and 2) Elliptical Fourier Descriptors (EFDs), which quantify the outline of the leaf. The ability of landmarks, EFDs, and both datasets together are compared to determine their relative ability to predict species and node position within the vine. Pairwise correlation of x and y landmark coordinates and EFD harmonic coefficients reveals close associations between traits and insights into the relationship between vasculature and blade patterning. Conclusions: Landmarks, more reflective of the vasculature, and EFDs, more reflective of the blade contour, describe both similar and distinct features of leaf morphology. Landmarks and EFDs vary in ability to predict species identity and node position in the vine and exhibit a correlational structure (both within landmark or EFD traits and between the two data types) revealing constraints between vascular and blade patterning underlying natural variation in leaf morphology among Passiflora species. PMID:28369351

Lung boundary detection in pediatric chest x-rays

NASA Astrophysics Data System (ADS)

Candemir, Sema; Antani, Sameer; Jaeger, Stefan; Browning, Renee; Thoma, George R.

2015-03-01

Tuberculosis (TB) is a major public health problem worldwide, and highly prevalent in developing countries. According to the World Health Organization (WHO), over 95% of TB deaths occur in low- and middle- income countries that often have under-resourced health care systems. In an effort to aid population screening in such resource challenged settings, the U.S. National Library of Medicine has developed a chest X-ray (CXR) screening system that provides a pre-decision on pulmonary abnormalities. When the system is presented with a digital CXR image from the Picture Archive and Communication Systems (PACS) or an imaging source, it automatically identifies the lung regions in the image, extracts image features, and classifies the image as normal or abnormal using trained machine-learning algorithms. The system has been trained on adult CXR images, and this article presents enhancements toward including pediatric CXR images. Our adult lung boundary detection algorithm is model-based. We note the lung shape differences during pediatric developmental stages, and adulthood, and propose building new lung models suitable for pediatric developmental stages. In this study, we quantify changes in lung shape from infancy to adulthood toward enhancing our lung segmentation algorithm. Our initial findings suggest pediatric age groupings of 0 - 23 months, 2 - 10 years, and 11 - 18 years. We present justification for our groupings. We report on the quality of boundary detection algorithm with the pediatric lung models.

Tracking climate change in a dispersal-limited species: reduced spatial and genetic connectivity in a montane salamander.

PubMed

Velo-Antón, G; Parra, J L; Parra-Olea, G; Zamudio, K R

2013-06-01

Tropical montane taxa are often locally adapted to very specific climatic conditions, contributing to their lower dispersal potential across complex landscapes. Climate and landscape features in montane regions affect population genetic structure in predictable ways, yet few empirical studies quantify the effects of both factors in shaping genetic structure of montane-adapted taxa. Here, we considered temporal and spatial variability in climate to explain contemporary genetic differentiation between populations of the montane salamander, Pseudoeurycea leprosa. Specifically, we used ecological niche modelling (ENM) and measured spatial connectivity and gene flow (using both mtDNA and microsatellite markers) across extant populations of P. leprosa in the Trans-Mexican Volcanic Belt (TVB). Our results indicate significant spatial and genetic isolation among populations, but we cannot distinguish between isolation by distance over time or current landscape barriers as mechanisms shaping population genetic divergences. Combining ecological niche modelling, spatial connectivity analyses, and historical and contemporary genetic signatures from different classes of genetic markers allows for inference of historical evolutionary processes and predictions of the impacts future climate change will have on the genetic diversity of montane taxa with low dispersal rates. Pseudoeurycea leprosa is one montane species among many endemic to this region and thus is a case study for the continued persistence of spatially and genetically isolated populations in the highly biodiverse TVB of central Mexico. © 2013 John Wiley & Sons Ltd.

Transposable Element Dynamics among Asymbiotic and Ectomycorrhizal Amanita Fungi

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

Hess, Jaqueline; Skrede, Inger; Wolfe, Benjamin E.

Transposable elements (TEs) are ubiquitous inhabitants of eukaryotic genomes and their proliferation and dispersal shape genome architectures and diversity. Nevertheless, TE dynamics are often explored for one species at a time and are rarely considered in ecological contexts. Recent work with plant pathogens suggests a link between symbiosis and TE abundance. The genomes of pathogenic fungi appear to house an increased abundance of TEs, and TEs are frequently associated with the genes involved in symbiosis. To investigate whether this pattern is general, and relevant to mutualistic plant-fungal symbioses, we sequenced the genomes of related asymbiotic (AS) and ectomycorrhizal (ECM) Amanitamore » fungi. We used methods developed to interrogate both assembled and unassembled sequences, and characterized and quantified TEs across three AS and three ECM species, including the AS outgroup Volvariella volvacea. The ECM genomes are characterized by abundant numbers of TEs, an especially prominent feature of unassembled sequencing libraries. Increased TE activity in ECM species is also supported by phylogenetic analysis of the three most abundant TE superfamilies; phylogenies revealed many radiations within contemporary ECM species. However, the AS species Amanita thiersii also houses extensive amplifications of elements, highlighting the influence of additional evolutionary parameters on TE abundance. Our analyses provide further evidence for a link between symbiotic associations among plants and fungi, and increased TE activity, while highlighting the importance individual species’ natural histories may have in shaping genome architecture.« less

Transposable Element Dynamics among Asymbiotic and Ectomycorrhizal Amanita Fungi

DOE PAGES

Hess, Jaqueline; Skrede, Inger; Wolfe, Benjamin E.; ...

2014-06-12

Transposable elements (TEs) are ubiquitous inhabitants of eukaryotic genomes and their proliferation and dispersal shape genome architectures and diversity. Nevertheless, TE dynamics are often explored for one species at a time and are rarely considered in ecological contexts. Recent work with plant pathogens suggests a link between symbiosis and TE abundance. The genomes of pathogenic fungi appear to house an increased abundance of TEs, and TEs are frequently associated with the genes involved in symbiosis. To investigate whether this pattern is general, and relevant to mutualistic plant-fungal symbioses, we sequenced the genomes of related asymbiotic (AS) and ectomycorrhizal (ECM) Amanitamore » fungi. We used methods developed to interrogate both assembled and unassembled sequences, and characterized and quantified TEs across three AS and three ECM species, including the AS outgroup Volvariella volvacea. The ECM genomes are characterized by abundant numbers of TEs, an especially prominent feature of unassembled sequencing libraries. Increased TE activity in ECM species is also supported by phylogenetic analysis of the three most abundant TE superfamilies; phylogenies revealed many radiations within contemporary ECM species. However, the AS species Amanita thiersii also houses extensive amplifications of elements, highlighting the influence of additional evolutionary parameters on TE abundance. Our analyses provide further evidence for a link between symbiotic associations among plants and fungi, and increased TE activity, while highlighting the importance individual species’ natural histories may have in shaping genome architecture.« less

Description and recognition of faces from 3D data

NASA Astrophysics Data System (ADS)

Coombes, Anne M.; Richards, Robin; Linney, Alfred D.; Bruce, Vicki; Fright, Rick

1992-12-01

A method based on differential geometry, is presented for mathematically describing the shape of the facial surface. Three-dimensional data for the face are collected by optical surface scanning. The method allows the segmentation of the face into regions of a particular `surface type,' according to the surface curvature. Eight different surface types are produced which all have perceptually meaningful interpretations. The correspondence of the surface type regions to the facial features are easily visualized, allowing a qualitative assessment of the face. A quantitative description of the face in terms of the surface type regions can be produced and the variation of the description between faces is demonstrated. A set of optical surface scans can be registered together and averages to produce an average male and average female face. Thus an assessment of how individuals vary from the average can be made as well as a general statement about the differences between male and female faces. This method will enable an investigation to be made as to how reliably faces can be individuated by their surface shape which, if feasible, may be the basis of an automatic system for recognizing faces. It also has applications in physical anthropology, for classification of the face, facial reconstructive surgery, to quantify the changes in a face altered by reconstructive surgery and growth, and in visual perception, to assess the recognizability of faces. Examples of some of these applications are presented.

Analyzing Fish Condition Factor Index Through Skew-Gaussian Information Theory Quantifiers

NASA Astrophysics Data System (ADS)

Contreras-Reyes, Javier E.

2016-06-01

Biological-fishery indicators have been widely studied. As such the condition factor (CF) index, which interprets the fatness level of a certain species based on length and weight, has been investigated, too. However, CF has been studied without considering its temporal features and distribution. In this paper, we analyze the CF time series via skew-gaussian distributions that consider the asymmetry produced by extreme events. This index is characterized by a threshold autoregressive model and corresponds to a stationary process depending on the shape parameter of the skew-gaussian distribution. Then we use the Jensen-Shannon (JS) distance to compare CF by length classes. This distance has mathematical advantages over other divergences such as Kullback-Leibler and Jeffrey’s, and the triangular inequality property. Our results are applied to a biological catalogue of anchovy (Engraulis ringens) from the northern coast of Chile, for the period 1990-2010 that consider monthly CF time series by length classes and sex. We find that for high values of shape parameter, JS distance tends to be more sensible to detect discrepancies than Jeffrey’s divergence. In addition, the body condition of male anchovies with higher lengths coincides with the ending of the moderate-strong El Niño event 91-92 and for both males and females, the smaller lengths coincide with the beginning of the strong El Niño event 97-98.

Erratum to: Morphometric analysis of Passiflora leaves: the relationship between landmarks of the vasculature and elliptical Fourier descriptors of the blade.

PubMed

Chitwood, Daniel H; Otoni, Wagner C

2017-10-01

Leaf shape among Passiflora species is spectacularly diverse. Underlying this diversity in leaf shape are profound changes in the patterning of the primary vasculature and laminar outgrowth. Each of these aspects of leaf morphology-vasculature and blade-provides different insights into leaf patterning. Here, we morphometrically analyze >3300 leaves from 40 different Passiflora species collected sequentially across the vine. Each leaf is measured in two different ways: using 1) 15 homologous Procrustes-adjusted landmarks of the vasculature, sinuses, and lobes; and 2) Elliptical Fourier Descriptors (EFDs), which quantify the outline of the leaf. The ability of landmarks, EFDs, and both datasets together are compared to determine their relative ability to predict species and node position within the vine. Pairwise correlation of x and y landmark coordinates and EFD harmonic coefficients reveals close associations between traits and insights into the relationship between vasculature and blade patterning. Landmarks, more reflective of the vasculature, and EFDs, more reflective of the blade contour, describe both similar and distinct features of leaf morphology. Landmarks and EFDs vary in ability to predict species identity and node position in the vine and exhibit a correlational structure (both within landmark or EFD traits and between the two data types) revealing constraints between vascular and blade patterning underlying natural variation in leaf morphology among Passiflora species. © The Authors 2017. Published by Oxford University Press.

Morphometric analysis of Passiflora leaves: the relationship between landmarks of the vasculature and elliptical Fourier descriptors of the blade.

PubMed

Chitwood, Daniel H; Otoni, Wagner C

2017-01-01

Leaf shape among Passiflora species is spectacularly diverse. Underlying this diversity in leaf shape are profound changes in the patterning of the primary vasculature and laminar outgrowth. Each of these aspects of leaf morphology-vasculature and blade-provides different insights into leaf patterning. Here, we morphometrically analyze >3300 leaves from 40 different Passiflora species collected sequentially across the vine. Each leaf is measured in two different ways: using 1) 15 homologous Procrustes-adjusted landmarks of the vasculature, sinuses, and lobes; and 2) Elliptical Fourier Descriptors (EFDs), which quantify the outline of the leaf. The ability of landmarks, EFDs, and both datasets together are compared to determine their relative ability to predict species and node position within the vine. Pairwise correlation of x and y landmark coordinates and EFD harmonic coefficients reveals close associations between traits and insights into the relationship between vasculature and blade patterning. Landmarks, more reflective of the vasculature, and EFDs, more reflective of the blade contour, describe both similar and distinct features of leaf morphology. Landmarks and EFDs vary in ability to predict species identity and node position in the vine and exhibit a correlational structure (both within landmark or EFD traits and between the two data types) revealing constraints between vascular and blade patterning underlying natural variation in leaf morphology among Passiflora species. © The Author 2017. Published by Oxford University Press.

A novel fruit shape classification method based on multi-scale analysis

NASA Astrophysics Data System (ADS)

Gui, Jiangsheng; Ying, Yibin; Rao, Xiuqin

2005-11-01

Shape is one of the major concerns and which is still a difficult problem in automated inspection and sorting of fruits. In this research, we proposed the multi-scale energy distribution (MSED) for object shape description, the relationship between objects shape and its boundary energy distribution at multi-scale was explored for shape extraction. MSED offers not only the mainly energy which represent primary shape information at the lower scales, but also subordinate energy which represent local shape information at higher differential scales. Thus, it provides a natural tool for multi resolution representation and can be used as a feature for shape classification. We addressed the three main processing steps in the MSED-based shape classification. They are namely, 1) image preprocessing and citrus shape extraction, 2) shape resample and shape feature normalization, 3) energy decomposition by wavelet and classification by BP neural network. Hereinto, shape resample is resample 256 boundary pixel from a curve which is approximated original boundary by using cubic spline in order to get uniform raw data. A probability function was defined and an effective method to select a start point was given through maximal expectation, which overcame the inconvenience of traditional methods in order to have a property of rotation invariants. The experiment result is relatively well normal citrus and serious abnormality, with a classification rate superior to 91.2%. The global correct classification rate is 89.77%, and our method is more effective than traditional method. The global result can meet the request of fruit grading.

Quantifying distinct associations on different temporal scales: comparison of DCCA and Pearson methods

NASA Astrophysics Data System (ADS)

Piao, Lin; Fu, Zuntao

2016-11-01

Cross-correlation between pairs of variables takes multi-time scale characteristic, and it can be totally different on different time scales (changing from positive correlation to negative one), e.g., the associations between mean air temperature and relative humidity over regions to the east of Taihang mountain in China. Therefore, how to correctly unveil these correlations on different time scales is really of great importance since we actually do not know if the correlation varies with scales in advance. Here, we compare two methods, i.e. Detrended Cross-Correlation Analysis (DCCA for short) and Pearson correlation, in quantifying scale-dependent correlations directly to raw observed records and artificially generated sequences with known cross-correlation features. Studies show that 1) DCCA related methods can indeed quantify scale-dependent correlations, but not Pearson method; 2) the correlation features from DCCA related methods are robust to contaminated noises, however, the results from Pearson method are sensitive to noise; 3) the scale-dependent correlation results from DCCA related methods are robust to the amplitude ratio between slow and fast components, while Pearson method may be sensitive to the amplitude ratio. All these features indicate that DCCA related methods take some advantages in correctly quantifying scale-dependent correlations, which results from different physical processes.

Quantifying distinct associations on different temporal scales: comparison of DCCA and Pearson methods.

PubMed

Piao, Lin; Fu, Zuntao

2016-11-09

Cross-correlation between pairs of variables takes multi-time scale characteristic, and it can be totally different on different time scales (changing from positive correlation to negative one), e.g., the associations between mean air temperature and relative humidity over regions to the east of Taihang mountain in China. Therefore, how to correctly unveil these correlations on different time scales is really of great importance since we actually do not know if the correlation varies with scales in advance. Here, we compare two methods, i.e. Detrended Cross-Correlation Analysis (DCCA for short) and Pearson correlation, in quantifying scale-dependent correlations directly to raw observed records and artificially generated sequences with known cross-correlation features. Studies show that 1) DCCA related methods can indeed quantify scale-dependent correlations, but not Pearson method; 2) the correlation features from DCCA related methods are robust to contaminated noises, however, the results from Pearson method are sensitive to noise; 3) the scale-dependent correlation results from DCCA related methods are robust to the amplitude ratio between slow and fast components, while Pearson method may be sensitive to the amplitude ratio. All these features indicate that DCCA related methods take some advantages in correctly quantifying scale-dependent correlations, which results from different physical processes.

Neural spike-timing patterns vary with sound shape and periodicity in three auditory cortical fields

PubMed Central

Lee, Christopher M.; Osman, Ahmad F.; Volgushev, Maxim; Escabí, Monty A.

2016-01-01

Mammals perceive a wide range of temporal cues in natural sounds, and the auditory cortex is essential for their detection and discrimination. The rat primary (A1), ventral (VAF), and caudal suprarhinal (cSRAF) auditory cortical fields have separate thalamocortical pathways that may support unique temporal cue sensitivities. To explore this, we record responses of single neurons in the three fields to variations in envelope shape and modulation frequency of periodic noise sequences. Spike rate, relative synchrony, and first-spike latency metrics have previously been used to quantify neural sensitivities to temporal sound cues; however, such metrics do not measure absolute spike timing of sustained responses to sound shape. To address this, in this study we quantify two forms of spike-timing precision, jitter, and reliability. In all three fields, we find that jitter decreases logarithmically with increase in the basis spline (B-spline) cutoff frequency used to shape the sound envelope. In contrast, reliability decreases logarithmically with increase in sound envelope modulation frequency. In A1, jitter and reliability vary independently, whereas in ventral cortical fields, jitter and reliability covary. Jitter time scales increase (A1 < VAF < cSRAF) and modulation frequency upper cutoffs decrease (A1 > VAF > cSRAF) with ventral progression from A1. These results suggest a transition from independent encoding of shape and periodicity sound cues on short time scales in A1 to a joint encoding of these same cues on longer time scales in ventral nonprimary cortices. PMID:26843599

Orthogonal decomposition of left ventricular remodeling in myocardial infarction

PubMed Central

Zhang, Xingyu; Medrano-Gracia, Pau; Ambale-Venkatesh, Bharath; Bluemke, David A.; Cowan, Brett R; Finn, J. Paul; Kadish, Alan H.; Lee, Daniel C.; Lima, Joao A. C.; Young, Alistair A.; Suinesiaputra, Avan

2017-01-01

Abstract Left ventricular size and shape are important for quantifying cardiac remodeling in response to cardiovascular disease. Geometric remodeling indices have been shown to have prognostic value in predicting adverse events in the clinical literature, but these often describe interrelated shape changes. We developed a novel method for deriving orthogonal remodeling components directly from any (moderately independent) set of clinical remodeling indices. Results: Six clinical remodeling indices (end-diastolic volume index, sphericity, relative wall thickness, ejection fraction, apical conicity, and longitudinal shortening) were evaluated using cardiac magnetic resonance images of 300 patients with myocardial infarction, and 1991 asymptomatic subjects, obtained from the Cardiac Atlas Project. Partial least squares (PLS) regression of left ventricular shape models resulted in remodeling components that were optimally associated with each remodeling index. A Gram–Schmidt orthogonalization process, by which remodeling components were successively removed from the shape space in the order of shape variance explained, resulted in a set of orthonormal remodeling components. Remodeling scores could then be calculated that quantify the amount of each remodeling component present in each case. A one-factor PLS regression led to more decoupling between scores from the different remodeling components across the entire cohort, and zero correlation between clinical indices and subsequent scores. Conclusions: The PLS orthogonal remodeling components had similar power to describe differences between myocardial infarction patients and asymptomatic subjects as principal component analysis, but were better associated with well-understood clinical indices of cardiac remodeling. The data and analyses are available from www.cardiacatlas.org. PMID:28327972

gWEGA: GPU-accelerated WEGA for molecular superposition and shape comparison.

PubMed

Yan, Xin; Li, Jiabo; Gu, Qiong; Xu, Jun

2014-06-05

Virtual screening of a large chemical library for drug lead identification requires searching/superimposing a large number of three-dimensional (3D) chemical structures. This article reports a graphic processing unit (GPU)-accelerated weighted Gaussian algorithm (gWEGA) that expedites shape or shape-feature similarity score-based virtual screening. With 86 GPU nodes (each node has one GPU card), gWEGA can screen 110 million conformations derived from an entire ZINC drug-like database with diverse antidiabetic agents as query structures within 2 s (i.e., screening more than 55 million conformations per second). The rapid screening speed was accomplished through the massive parallelization on multiple GPU nodes and rapid prescreening of 3D structures (based on their shape descriptors and pharmacophore feature compositions). Copyright © 2014 Wiley Periodicals, Inc.

Prostate segmentation in MR images using discriminant boundary features.

PubMed

Yang, Meijuan; Li, Xuelong; Turkbey, Baris; Choyke, Peter L; Yan, Pingkun

2013-02-01

Segmentation of the prostate in magnetic resonance image has become more in need for its assistance to diagnosis and surgical planning of prostate carcinoma. Due to the natural variability of anatomical structures, statistical shape model has been widely applied in medical image segmentation. Robust and distinctive local features are critical for statistical shape model to achieve accurate segmentation results. The scale invariant feature transformation (SIFT) has been employed to capture the information of the local patch surrounding the boundary. However, when SIFT feature being used for segmentation, the scale and variance are not specified with the location of the point of interest. To deal with it, the discriminant analysis in machine learning is introduced to measure the distinctiveness of the learned SIFT features for each landmark directly and to make the scale and variance adaptive to the locations. As the gray values and gradients vary significantly over the boundary of the prostate, separate appearance descriptors are built for each landmark and then optimized. After that, a two stage coarse-to-fine segmentation approach is carried out by incorporating the local shape variations. Finally, the experiments on prostate segmentation from MR image are conducted to verify the efficiency of the proposed algorithms.

Computational Cardiac Anatomy Using MRI

PubMed Central

Beg, Mirza Faisal; Helm, Patrick A.; McVeigh, Elliot; Miller, Michael I.; Winslow, Raimond L.

2005-01-01

Ventricular geometry and fiber orientation may undergo global or local remodeling in cardiac disease. However, there are as yet no mathematical and computational methods for quantifying variation of geometry and fiber orientation or the nature of their remodeling in disease. Toward this goal, a landmark and image intensity-based large deformation diffeomorphic metric mapping (LDDMM) method to transform heart geometry into common coordinates for quantification of shape and form was developed. Two automated landmark placement methods for modeling tissue deformations expected in different cardiac pathologies are presented. The transformations, computed using the combined use of landmarks and image intensities, yields high-registration accuracy of heart anatomies even in the presence of significant variation of cardiac shape and form. Once heart anatomies have been registered, properties of tissue geometry and cardiac fiber orientation in corresponding regions of different hearts may be quantified. PMID:15508155

Feeling form: the neural basis of haptic shape perception.

PubMed

Yau, Jeffrey M; Kim, Sung Soo; Thakur, Pramodsingh H; Bensmaia, Sliman J

2016-02-01

The tactile perception of the shape of objects critically guides our ability to interact with them. In this review, we describe how shape information is processed as it ascends the somatosensory neuraxis of primates. At the somatosensory periphery, spatial form is represented in the spatial patterns of activation evoked across populations of mechanoreceptive afferents. In the cerebral cortex, neurons respond selectively to particular spatial features, like orientation and curvature. While feature selectivity of neurons in the earlier processing stages can be understood in terms of linear receptive field models, higher order somatosensory neurons exhibit nonlinear response properties that result in tuning for more complex geometrical features. In fact, tactile shape processing bears remarkable analogies to its visual counterpart and the two may rely on shared neural circuitry. Furthermore, one of the unique aspects of primate somatosensation is that it contains a deformable sensory sheet. Because the relative positions of cutaneous mechanoreceptors depend on the conformation of the hand, the haptic perception of three-dimensional objects requires the integration of cutaneous and proprioceptive signals, an integration that is observed throughout somatosensory cortex. Copyright © 2016 the American Physiological Society.

Femtosecond laser pulse optimization for multiphoton cytometry and control of fluorescence

NASA Astrophysics Data System (ADS)

Tkaczyk, Eric Robert

This body of work encompasses optimization of near infrared femtosecond laser pulses both for enhancement of flow cytometry as well as adaptive pulse shaping to control fluorescence. A two-photon system for in vivo flow cytometry is demonstrated, which allows noninvasive quantification of circulating cell populations in a single live mouse. We monitor fluorescently-labeled red blood cells for more than two weeks, and are also able to noninvasively measure circulation times of two distinct populations of breast cancer cells simultaneously in a single mouse. We build a custom laser excitation source in the form of an extended cavity mode-locked oscillator, which enables superior detection in whole blood or saline of cell lines expressing fluorescent proteins including the green fluorescent protein (GFP), tdTomato and mPlum. A mathematical model explains unique features of the signals. The ability to distinguish different fluorescent species is central to simultaneous measurement of multiple molecular targets in high throughput applications including the multiphoton flow cytometer. We demonstrate that two dyes which are not distinguishable to one-photon measurements can be differentiated and in fact quantified in mixture via phase-shaped two-photon excitation pulses found by a genetic algorithm. We also selectively enhance or suppress two-photon fluorescence of numerous common dyes with tailored pulse shapes. Using a multiplicative (rather than ratiometric) fitness parameter, we are able to control the fluorescence while maintaining a strong signal. With this method, we control the two-photon fluorescence of the blue fluorescent protein (BFP), which is of particular interest in investigations of protein-protein interactions, and has frustrated previous attempts of control. Implementing an acousto-optic interferometer, we use the same experimental setup to measure two-photon excitation cross-sections of dyes and prove that photon-photon interferences are the predominant mechanism of control. This research establishes the basis for molecularly tailored pulse shaping in multiphoton flow cytometry, which will advance our ability to probe the biology of circulating cells during disease progression and response to therapy.

Overvaluation of Shape and Weight in Binge Eating Disorder

ERIC Educational Resources Information Center

Hrabosky, Joshua I.; Masheb, Robin M.; White, Marney A.; Grilo, Carlos M.

2007-01-01

The excessive influence of shape or weight on self-evaluation--referred to as overvaluation--is considered by some a central feature across eating disorders but is not a diagnostic requirement for binge eating disorder (BED). This study examined shape/weight overvaluation in 399 consecutive patients with BED. Participants completed semistructured…

Quantifying groundwater dependency of riparian surface hydrologic features using the exit gradient

EPA Science Inventory

This study examines groundwater exit gradients as a way to quantify groundwater interactions with surface water. We calibrated high resolution groundwater models for the basin fill sediments in the lower Calapooia watershed, Oregon, using data collected between 1928--2000. The e...

What Do We Learn from Binding Features? Evidence for Multilevel Feature Integration

ERIC Educational Resources Information Center

Colzato, Lorenza S.; Raffone, Antonino; Hommel, Bernhard

2006-01-01

Four experiments were conducted to investigate the relationship between the binding of visual features (as measured by their after-effects on subsequent binding) and the learning of feature-conjunction probabilities. Both binding and learning effects were obtained, but they did not interact. Interestingly, (shape-color) binding effects…

Feature bindings are maintained in visual short-term memory without sustained focused attention.

PubMed

Delvenne, Jean-François; Cleeremans, Axel; Laloyaux, Cédric

2010-01-01

Does the maintenance of feature bindings in visual short-term memory (VSTM) require sustained focused attention? This issue was investigated in three experiments, in which memory for single features (i.e., colors or shapes) was compared with memory for feature bindings (i.e., the link between the color and shape of an object). Attention was manipulated during the memory retention interval with a retro-cue, which allows attention to be directed and focused on a subset of memory items. The retro-cue was presented 700 ms after the offset of the memory display and 700 ms before the onset of the test display. If the maintenance of feature bindings - but not of individual features - in memory requires sustained focused attention, the retro-cue should not affect memory performance. Contrary to this prediction, we found that both memory for feature bindings and memory for individual features were equally improved by the retro-cue. Therefore, this finding does not support the view that the sustained focused attention is needed to properly maintain feature bindings in VSTM.

SU-F-R-30: Interscanner Variability of Radiomics Features in Computed Tomography (CT) Using a Standard ACR Phantom

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

Shafiq ul Hassan, M; Zhang, G; Moros, E

2016-06-15

Purpose: A simple approach to investigate Interscanner variability of Radiomics features in computed tomography (CT) using a standard ACR phantom. Methods: The standard ACR phantom was scanned on CT scanners from three different manufacturers. Scanning parameters of 120 KVp, 200 mA were used while slice thickness of 3.0 mm on two scanners and 3.27 mm on third scanner was used. Three spherical regions of interest (ROI) from water, medium density and high density inserts were contoured. Ninety four Radiomics features were extracted using an in-house program. These features include shape (11), intensity (22), GLCM (26), GLZSM (11), RLM (11), andmore » NGTDM (5) and 8 fractal dimensions features. To evaluate the Interscanner variability across three scanners, a coefficient of variation (COV) is calculated for each feature group. Each group is further classified according to the COV- by calculating the percentage of features in each of the following categories: COV less than 2%, between 2 and 10% and greater than 10%. Results: For all feature groups, similar trend was observed for three different inserts. Shape features were the most robust for all scanners as expected. 70% of the shape features had COV <2%. For intensity feature group, 2% COV varied from 9 to 32% for three scanners. All features in four groups GLCM, GLZSM, RLM and NGTDM were found to have Interscanner variability ≥2%. The fractal dimensions dependence for medium and high density inserts were similar while it was different for water inserts. Conclusion: We concluded that even for similar scanning conditions, Interscanner variability across different scanners was significant. The texture features based on GLCM, GLZSM, RLM and NGTDM are highly scanner dependent. Since the inserts of the ACR Phantom are not heterogeneous in HU values suggests that matrix based 2nd order features are highly affected by variation in noise. Research partly funded by NIH/NCI R01CA190105-01.« less

Costs of storing colour and complex shape in visual working memory: Insights from pupil size and slow waves.

PubMed

Kursawe, Michael A; Zimmer, Hubert D

2015-06-01

We investigated the impact of perceptual processing demands on visual working memory of coloured complex random polygons during change detection. Processing load was assessed by pupil size (Exp. 1) and additionally slow wave potentials (Exp. 2). Task difficulty was manipulated by presenting different set sizes (1, 2, 4 items) and by making different features (colour, shape, or both) task-relevant. Memory performance in the colour condition was better than in the shape and both condition which did not differ. Pupil dilation and the posterior N1 increased with set size independent of type of feature. In contrast, slow waves and a posterior P2 component showed set size effects but only if shape was task-relevant. In the colour condition slow waves did not vary with set size. We suggest that pupil size and N1 indicates different states of attentional effort corresponding to the number of presented items. In contrast, slow waves reflect processes related to encoding and maintenance strategies. The observation that their potentials vary with the type of feature (simple colour versus complex shape) indicates that perceptual complexity already influences encoding and storage and not only comparison of targets with memory entries at the moment of testing. Copyright © 2015 Elsevier B.V. All rights reserved.

Effect of the electric field ratio on electroosmotic flow patterns in cross-shaped microchannels by the lattice-Boltzmann Method

NASA Astrophysics Data System (ADS)

Socias, Alvaro; Oyarzun, Diego; Guzman, Amador

2014-11-01

The electroosmotic flow (EOF) pattern characteristics in cross-shaped microchannels flow are important features when either suppressing or enhancing flow features for injection and separation or mixing of multiple species are the wanted objectives. There are situations in EOF in cross-shaped microchannels where the fluid flows toward unexpected and unwanted directions under a given external electric field that depends of both the applied electric field and lengths of the different channels. This article describes the effect of the electric field ratio, defined as the ratio between longitudinal nominal electric field ELong = (VE-VW) /(LW + LE) and the nominal electric field E a = (VS-VE) /(VS + VE) , where E, S and W define the east, south and west directions of the cross-shaped microchannel; V is the externally applied voltage and L is the length, on the EOF characteristics in a cross-shaped microchannel. We use the lattice-Boltzmann method (LBM) for solving the discretized Boltzmann Transport Equation (BTE) describing the coupled processes of hydrodynamics and electrodynamic. Our numerical simulations allow us to determine the EOF pattern for a wide range of the electric field ratio and Ea such that inverted flow features are captured and described, which are very important to determine for flow separation or mixing.

Classification of pulmonary nodules in lung CT images using shape and texture features

NASA Astrophysics Data System (ADS)

Dhara, Ashis Kumar; Mukhopadhyay, Sudipta; Dutta, Anirvan; Garg, Mandeep; Khandelwal, Niranjan; Kumar, Prafulla

2016-03-01

Differentiation of malignant and benign pulmonary nodules is important for prognosis of lung cancer. In this paper, benign and malignant nodules are classified using support vector machine. Several shape-based and texture-based features are used to represent the pulmonary nodules in the feature space. A semi-automated technique is used for nodule segmentation. Relevant features are selected for efficient representation of nodules in the feature space. The proposed scheme and the competing technique are evaluated on a data set of 542 nodules of Lung Image Database Consortium and Image Database Resource Initiative. The nodules with composite rank of malignancy "1","2" are considered as benign and "4","5" are considered as malignant. Area under the receiver operating characteristics curve is 0:9465 for the proposed method. The proposed method outperforms the competing technique.

Stick-Shape, Rice-Size Features on Martian Rock "Haroldswick"

NASA Image and Video Library

2018-02-08

The dark, stick-shaped features clustered on this Martian rock are about the size of grains of rice. This is a focus-merged view from the Mars Hand Lens Imager (MAHLI) camera on NASA's Curiosity Mars rover. It covers an area about 2 inches (5 centimeters) across. The focus-merged product was generated autonomously by MAHLI combining the in-focus portions of a few separate images taken at different focus settings on Jan. 1, 2018, during the 1,922nd Martian day, or sol, of Curiosity's work on Mars. This rock target, called "Haroldswick," is near the southern, uphill edge of "Vera Rubin Ridge" on lower Mount Sharp. The origin of the stick-shaped features is uncertain. One possibility is that they are erosion-resistant bits of dark material from mineral veins cutting through rocks in this area. https://photojournal.jpl.nasa.gov/catalog/PIA22213

SEGMENTATION OF MITOCHONDRIA IN ELECTRON MICROSCOPY IMAGES USING ALGEBRAIC CURVES.

PubMed

Seyedhosseini, Mojtaba; Ellisman, Mark H; Tasdizen, Tolga

2013-01-01

High-resolution microscopy techniques have been used to generate large volumes of data with enough details for understanding the complex structure of the nervous system. However, automatic techniques are required to segment cells and intracellular structures in these multi-terabyte datasets and make anatomical analysis possible on a large scale. We propose a fully automated method that exploits both shape information and regional statistics to segment irregularly shaped intracellular structures such as mitochondria in electron microscopy (EM) images. The main idea is to use algebraic curves to extract shape features together with texture features from image patches. Then, these powerful features are used to learn a random forest classifier, which can predict mitochondria locations precisely. Finally, the algebraic curves together with regional information are used to segment the mitochondria at the predicted locations. We demonstrate that our method outperforms the state-of-the-art algorithms in segmentation of mitochondria in EM images.

Medial Demons Registration Localizes The Degree of Genetic Influence Over Subcortical Shape Variability: An N= 1480 Meta-Analysis

PubMed Central

Gutman, Boris A.; Jahanshad, Neda; Ching, Christopher R.K.; Wang, Yalin; Kochunov, Peter V.; Nichols, Thomas E.; Thompson, Paul M.

2015-01-01

We present a multi-cohort shape heritability study, extending the fast spherical demons registration to subcortical shapes via medial modeling. A multi-channel demons registration based on vector spherical harmonics is applied to medial and curvature features, while controlling for metric distortion. We registered and compared seven subcortical structures of 1480 twins and siblings from the Queensland Twin Imaging Study and Human Connectome Project: Thalamus, Caudate, Putamen, Pallidum, Hippocampus, Amygdala, and Nucleus Accumbens. Radial distance and tensor-based morphometry (TBM) features were found to be highly heritable throughout the entire basal ganglia and limbic system. Surface maps reveal subtle variation in heritability across functionally distinct parts of each structure. Medial Demons reveals more significantly heritable regions than two previously described surface registration methods. This approach may help to prioritize features and measures for genome-wide association studies. PMID:26413211

Medial Demons Registration Localizes The Degree of Genetic Influence Over Subcortical Shape Variability: An N= 1480 Meta-Analysis.

PubMed

Gutman, Boris A; Jahanshad, Neda; Ching, Christopher R K; Wang, Yalin; Kochunov, Peter V; Nichols, Thomas E; Thompson, Paul M

2015-04-01

We present a multi-cohort shape heritability study, extending the fast spherical demons registration to subcortical shapes via medial modeling. A multi-channel demons registration based on vector spherical harmonics is applied to medial and curvature features, while controlling for metric distortion. We registered and compared seven subcortical structures of 1480 twins and siblings from the Queensland Twin Imaging Study and Human Connectome Project: Thalamus, Caudate, Putamen, Pallidum, Hippocampus, Amygdala, and Nucleus Accumbens . Radial distance and tensor-based morphometry (TBM) features were found to be highly heritable throughout the entire basal ganglia and limbic system. Surface maps reveal subtle variation in heritability across functionally distinct parts of each structure. Medial Demons reveals more significantly heritable regions than two previously described surface registration methods. This approach may help to prioritize features and measures for genome-wide association studies.

UV laser-ablated surface textures as potential regulator of cellular response.

PubMed

Chandra, Prafulla; Lai, Karen; Sung, Hak-Joon; Murthy, N Sanjeeva; Kohn, Joachim

2010-06-01

Textured surfaces obtained by UV laser ablation of poly(ethylene terephthalate) films were used to study the effect of shape and spacing of surface features on cellular response. Two distinct patterns, cones and ripples with spacing from 2 to 25 μm, were produced. Surface features with different shapes and spacings were produced by varying pulse repetition rate, laser fluence, and exposure time. The effects of the surface texture parameters, i.e., shape and spacing, on cell attachment, proliferation, and morphology of neonatal human dermal fibroblasts and mouse fibroblasts were studied. Cell attachment was the highest in the regions with cones at ∼4 μm spacing. As feature spacing increased, cell spreading decreased, and the fibroblasts became more circular, indicating a stress-mediated cell shrinkage. This study shows that UV laser ablation is a useful alternative to lithographic techniques to produce surface patterns for controlling cell attachment and growth on biomaterial surfaces.

The first close-up images of Jupiter's polar regions: Results from the Juno mission JunoCam instrument

NASA Astrophysics Data System (ADS)

Orton, Glenn S.; Hansen, Candice; Caplinger, Michael; Ravine, Michael; Atreya, Sushil; Ingersoll, Andrew P.; Jensen, Elsa; Momary, Thomas; Lipkaman, Leslie; Krysak, Daniel; Zimdar, Robert; Bolton, Scott

2017-05-01

During Juno's first perijove encounter, the JunoCam instrument acquired the first images of Jupiter's polar regions at 50-70 km spatial scale at low emission angles. Poleward of 64-68° planetocentric latitude, where Jupiter's east-west banded structure breaks down, several types of discrete features appear on a darker background. Cyclonic oval features are clustered near both poles. Other oval-shaped features are also present, ranging in size from 2000 km down to JunoCam's resolution limits. The largest and brightest features often have chaotic shapes. Two narrow linear features in the north, associated with an overlying haze feature, traverse tens of degrees of longitude. JunoCam also detected an optically thin cloud or haze layer past the northern nightside terminator estimated to be 58 ± 21 km (approximately three scale heights) above the main cloud deck. JunoCam will acquire polar images on every perijove, allowing us to track the state and evolution of longer-lived features.

Case study of 3D fingerprints applications

PubMed Central

Liu, Feng; Liang, Jinrong; Shen, Linlin; Yang, Meng; Zhang, David; Lai, Zhihui

2017-01-01

Human fingers are 3D objects. More information will be provided if three dimensional (3D) fingerprints are available compared with two dimensional (2D) fingerprints. Thus, this paper firstly collected 3D finger point cloud data by Structured-light Illumination method. Additional features from 3D fingerprint images are then studied and extracted. The applications of these features are finally discussed. A series of experiments are conducted to demonstrate the helpfulness of 3D information to fingerprint recognition. Results show that a quick alignment can be easily implemented under the guidance of 3D finger shape feature even though this feature does not work for fingerprint recognition directly. The newly defined distinctive 3D shape ridge feature can be used for personal authentication with Equal Error Rate (EER) of ~8.3%. Also, it is helpful to remove false core point. Furthermore, a promising of EER ~1.3% is realized by combining this feature with 2D features for fingerprint recognition which indicates the prospect of 3D fingerprint recognition. PMID:28399141

Case study of 3D fingerprints applications.

PubMed

Liu, Feng; Liang, Jinrong; Shen, Linlin; Yang, Meng; Zhang, David; Lai, Zhihui

2017-01-01

Human fingers are 3D objects. More information will be provided if three dimensional (3D) fingerprints are available compared with two dimensional (2D) fingerprints. Thus, this paper firstly collected 3D finger point cloud data by Structured-light Illumination method. Additional features from 3D fingerprint images are then studied and extracted. The applications of these features are finally discussed. A series of experiments are conducted to demonstrate the helpfulness of 3D information to fingerprint recognition. Results show that a quick alignment can be easily implemented under the guidance of 3D finger shape feature even though this feature does not work for fingerprint recognition directly. The newly defined distinctive 3D shape ridge feature can be used for personal authentication with Equal Error Rate (EER) of ~8.3%. Also, it is helpful to remove false core point. Furthermore, a promising of EER ~1.3% is realized by combining this feature with 2D features for fingerprint recognition which indicates the prospect of 3D fingerprint recognition.

Evolution of the longitudinal and azimuthal structure of the near-side jet peak in Pb-Pb collisions at √{sN N}=2.76 TeV

NASA Astrophysics Data System (ADS)

Adam, J.; Adamová, D.; Aggarwal, M. M.; Aglieri Rinella, G.; Agnello, M.; Agrawal, N.; Ahammed, Z.; Ahmad, S.; Ahn, S. U.; Aiola, S.; Akindinov, A.; Alam, S. N.; Albuquerque, D. S. D.; Aleksandrov, D.; Alessandro, B.; Alexandre, D.; Alfaro Molina, R.; Alici, A.; Alkin, A.; Alme, J.; Alt, T.; Altinpinar, S.; Altsybeev, I.; Alves Garcia Prado, C.; An, M.; Andrei, C.; Andrews, H. A.; Andronic, A.; Anguelov, V.; Anson, C.; Antičić, T.; Antinori, F.; Antonioli, P.; Anwar, R.; Aphecetche, L.; Appelshäuser, H.; Arcelli, S.; Arnaldi, R.; Arnold, O. W.; Arsene, I. C.; Arslandok, M.; Audurier, B.; Augustinus, A.; Averbeck, R.; Azmi, M. D.; Badalà, A.; Baek, Y. W.; Bagnasco, S.; Bailhache, R.; Bala, R.; Balasubramanian, S.; Baldisseri, A.; Baral, R. C.; Barbano, A. M.; Barbera, R.; Barile, F.; Barnaföldi, G. G.; Barnby, L. S.; Barret, V.; Bartalini, P.; Barth, K.; Bartke, J.; Bartsch, E.; Basile, M.; Bastid, N.; Basu, S.; Bathen, B.; Batigne, G.; Batista Camejo, A.; Batyunya, B.; Batzing, P. C.; Bearden, I. G.; Beck, H.; Bedda, C.; Behera, N. K.; Belikov, I.; Bellini, F.; Bello Martinez, H.; Bellwied, R.; Beltran, L. G. E.; Belyaev, V.; Bencedi, G.; Beole, S.; Bercuci, A.; Berdnikov, Y.; Berenyi, D.; Bertens, R. A.; Berzano, D.; Betev, L.; Bhasin, A.; Bhat, I. R.; Bhati, A. K.; Bhattacharjee, B.; Bhom, J.; Bianchi, L.; Bianchi, N.; Bianchin, C.; Bielčík, J.; Bielčíková, J.; Bilandzic, A.; Biro, G.; Biswas, R.; Biswas, S.; Bjelogrlic, S.; Blair, J. T.; Blau, D.; Blume, C.; Bock, F.; Bogdanov, A.; Boldizsár, L.; Bombara, M.; Bonora, M.; Book, J.; Borel, H.; Borissov, A.; Borri, M.; Botta, E.; Bourjau, C.; Braun-Munzinger, P.; Bregant, M.; Broker, T. A.; Browning, T. A.; Broz, M.; Brucken, E. J.; Bruna, E.; Bruno, G. E.; Budnikov, D.; Buesching, H.; Bufalino, S.; Buhler, P.; Buitron, S. A. I.; Buncic, P.; Busch, O.; Buthelezi, Z.; Butt, J. B.; Buxton, J. T.; Cabala, J.; Caffarri, D.; Caines, H.; Caliva, A.; Calvo Villar, E.; Camerini, P.; Carena, F.; Carena, W.; Carnesecchi, F.; Castillo Castellanos, J.; Castro, A. J.; Casula, E. A. R.; Ceballos Sanchez, C.; Cepila, J.; Cerello, P.; Cerkala, J.; Chang, B.; Chapeland, S.; Chartier, M.; Charvet, J. L.; Chattopadhyay, S.; Chattopadhyay, S.; Chauvin, A.; Chelnokov, V.; Cherney, M.; Cheshkov, C.; Cheynis, B.; Chibante Barroso, V.; Chinellato, D. D.; Cho, S.; Chochula, P.; Choi, K.; Chojnacki, M.; Choudhury, S.; Christakoglou, P.; Christensen, C. H.; Christiansen, P.; Chujo, T.; Chung, S. U.; Cicalo, C.; Cifarelli, L.; Cindolo, F.; Cleymans, J.; Colamaria, F.; Colella, D.; Collu, A.; Colocci, M.; Conesa Balbastre, G.; Conesa Del Valle, Z.; Connors, M. E.; Contreras, J. G.; Cormier, T. M.; Corrales Morales, Y.; Cortés Maldonado, I.; Cortese, P.; Cosentino, M. R.; Costa, F.; Crkovská, J.; Crochet, P.; Cruz Albino, R.; Cuautle, E.; Cunqueiro, L.; Dahms, T.; Dainese, A.; Danisch, M. C.; Danu, A.; Das, D.; Das, I.; Das, S.; Dash, A.; Dash, S.; de, S.; de Caro, A.; de Cataldo, G.; de Conti, C.; de Cuveland, J.; de Falco, A.; de Gruttola, D.; De Marco, N.; de Pasquale, S.; de Souza, R. D.; Deisting, A.; Deloff, A.; Deplano, C.; Dhankher, P.; di Bari, D.; di Mauro, A.; di Nezza, P.; di Ruzza, B.; Diaz Corchero, M. A.; Dietel, T.; Dillenseger, P.; Divià, R.; Djuvsland, Ø.; Dobrin, A.; Domenicis Gimenez, D.; Dönigus, B.; Dordic, O.; Drozhzhova, T.; Dubey, A. K.; Dubla, A.; Ducroux, L.; Duggal, A. K.; Dupieux, P.; Ehlers, R. J.; Elia, D.; Endress, E.; Engel, H.; Epple, E.; Erazmus, B.; Erhardt, F.; Espagnon, B.; Esumi, S.; Eulisse, G.; Eum, J.; Evans, D.; Evdokimov, S.; Eyyubova, G.; Fabbietti, L.; Fabris, D.; Faivre, J.; Fantoni, A.; Fasel, M.; Feldkamp, L.; Feliciello, A.; Feofilov, G.; Ferencei, J.; Fernández Téllez, A.; Ferreiro, E. G.; Ferretti, A.; Festanti, A.; Feuillard, V. J. G.; Figiel, J.; Figueredo, M. A. S.; Filchagin, S.; Finogeev, D.; Fionda, F. M.; Fiore, E. M.; Floris, M.; Foertsch, S.; Foka, P.; Fokin, S.; Fragiacomo, E.; Francescon, A.; Francisco, A.; Frankenfeld, U.; Fronze, G. G.; Fuchs, U.; Furget, C.; Furs, A.; Fusco Girard, M.; Gaardhøje, J. J.; Gagliardi, M.; Gago, A. M.; Gajdosova, K.; Gallio, M.; Galvan, C. D.; Gangadharan, D. R.; Ganoti, P.; Gao, C.; Garabatos, C.; Garcia-Solis, E.; Garg, K.; Garg, P.; Gargiulo, C.; Gasik, P.; Gauger, E. F.; Gay Ducati, M. B.; Germain, M.; Ghosh, P.; Ghosh, S. K.; Gianotti, P.; Giubellino, P.; Giubilato, P.; Gladysz-Dziadus, E.; Glässel, P.; Goméz Coral, D. M.; Gomez Ramirez, A.; Gonzalez, A. S.; Gonzalez, V.; González-Zamora, P.; Gorbunov, S.; Görlich, L.; Gotovac, S.; Grabski, V.; Graczykowski, L. K.; Graham, K. L.; Greiner, L.; Grelli, A.; Grigoras, C.; Grigoriev, V.; Grigoryan, A.; Grigoryan, S.; Grion, N.; Gronefeld, J. M.; Grosse-Oetringhaus, J. F.; Grosso, R.; Gruber, L.; Guber, F.; Guernane, R.; Guerzoni, B.; Gulbrandsen, K.; Gunji, T.; Gupta, A.; Gupta, R.; Guzman, I. B.; Haake, R.; Hadjidakis, C.; Hamagaki, H.; Hamar, G.; Hamon, J. C.; Harris, J. W.; Harton, A.; Hatzifotiadou, D.; Hayashi, S.; Heckel, S. T.; Hellbär, E.; Helstrup, H.; Herghelegiu, A.; Herrera Corral, G.; Herrmann, F.; Hess, B. A.; Hetland, K. F.; Hillemanns, H.; Hippolyte, B.; Hladky, J.; Horak, D.; Hosokawa, R.; Hristov, P.; Hughes, C.; Humanic, T. J.; Hussain, N.; Hussain, T.; Hutter, D.; Hwang, D. S.; Ilkaev, R.; Inaba, M.; Ippolitov, M.; Irfan, M.; Isakov, V.; Islam, M. S.; Ivanov, M.; Ivanov, V.; Izucheev, V.; Jacak, B.; Jacazio, N.; Jacobs, P. M.; Jadhav, M. B.; Jadlovska, S.; Jadlovsky, J.; Jahnke, C.; Jakubowska, M. J.; Janik, M. A.; Jayarathna, P. H. S. Y.; Jena, C.; Jena, S.; Jimenez Bustamante, R. T.; Jones, P. G.; Jusko, A.; Kalinak, P.; Kalweit, A.; Kang, J. H.; Kaplin, V.; Kar, S.; Karasu Uysal, A.; Karavichev, O.; Karavicheva, T.; Karayan, L.; Karpechev, E.; Kebschull, U.; Keidel, R.; Keijdener, D. L. D.; Keil, M.; Mohisin Khan, M.; Khan, P.; Khan, S. A.; Khanzadeev, A.; Kharlov, Y.; Khatun, A.; Khuntia, A.; Kileng, B.; Kim, D. W.; Kim, D. J.; Kim, D.; Kim, H.; Kim, J. S.; Kim, J.; Kim, M.; Kim, M.; Kim, S.; Kim, T.; Kirsch, S.; Kisel, I.; Kiselev, S.; Kisiel, A.; Kiss, G.; Klay, J. L.; Klein, C.; Klein, J.; Klein-Bösing, C.; Klewin, S.; Kluge, A.; Knichel, M. L.; Knospe, A. G.; Kobdaj, C.; Kofarago, M.; Kollegger, T.; Kolojvari, A.; Kondratiev, V.; Kondratyeva, N.; Kondratyuk, E.; Konevskikh, A.; Kopcik, M.; Kour, M.; Kouzinopoulos, C.; Kovalenko, O.; Kovalenko, V.; Kowalski, M.; Koyithatta Meethaleveedu, G.; Králik, I.; Kravčáková, A.; Krivda, M.; Krizek, F.; Kryshen, E.; Krzewicki, M.; Kubera, A. M.; Kučera, V.; Kuhn, C.; Kuijer, P. G.; Kumar, A.; Kumar, J.; Kumar, L.; Kumar, S.; Kundu, S.; Kurashvili, P.; Kurepin, A.; Kurepin, A. B.; Kuryakin, A.; Kushpil, S.; Kweon, M. J.; Kwon, Y.; La Pointe, S. L.; La Rocca, P.; Lagana Fernandes, C.; Lakomov, I.; Langoy, R.; Lapidus, K.; Lara, C.; Lardeux, A.; Lattuca, A.; Laudi, E.; Lazaridis, L.; Lea, R.; Leardini, L.; Lee, S.; Lehas, F.; Lehner, S.; Lehrbach, J.; Lemmon, R. C.; Lenti, V.; Leogrande, E.; León Monzón, I.; Lévai, P.; Li, S.; Li, X.; Lien, J.; Lietava, R.; Lindal, S.; Lindenstruth, V.; Lippmann, C.; Lisa, M. A.; Ljunggren, H. M.; Llope, W.; Lodato, D. F.; Loenne, P. I.; Loginov, V.; Loizides, C.; Lopez, X.; López Torres, E.; Lowe, A.; Luettig, P.; Lunardon, M.; Luparello, G.; Lupi, M.; Lutz, T. H.; Maevskaya, A.; Mager, M.; Mahajan, S.; Mahmood, S. M.; Maire, A.; Majka, R. D.; Malaev, M.; Maldonado Cervantes, I.; Malinina, L.; Mal'Kevich, D.; Malzacher, P.; Mamonov, A.; Manko, V.; Manso, F.; Manzari, V.; Mao, Y.; Marchisone, M.; Mareš, J.; Margagliotti, G. V.; Margotti, A.; Margutti, J.; Marín, A.; Markert, C.; Marquard, M.; Martin, N. A.; Martinengo, P.; Martínez, M. I.; Martínez García, G.; Martinez Pedreira, M.; Mas, A.; Masciocchi, S.; Masera, M.; Masoni, A.; Mastroserio, A.; Matyja, A.; Mayer, C.; Mazer, J.; Mazzilli, M.; Mazzoni, M. A.; Meddi, F.; Melikyan, Y.; Menchaca-Rocha, A.; Meninno, E.; Mercado Pérez, J.; Meres, M.; Mhlanga, S.; Miake, Y.; Mieskolainen, M. M.; Mikhaylov, K.; Milano, L.; Milosevic, J.; Mischke, A.; Mishra, A. N.; Mishra, T.; Miśkowiec, D.; Mitra, J.; Mitu, C. M.; Mohammadi, N.; Mohanty, B.; Molnar, L.; Montes, E.; Moreira de Godoy, D. A.; Moreno, L. A. P.; Moretto, S.; Morreale, A.; Morsch, A.; Muccifora, V.; Mudnic, E.; Mühlheim, D.; Muhuri, S.; Mukherjee, M.; Mulligan, J. D.; Munhoz, M. G.; Münning, K.; Munzer, R. H.; Murakami, H.; Murray, S.; Musa, L.; Musinsky, J.; Myers, C. J.; Naik, B.; Nair, R.; Nandi, B. K.; Nania, R.; Nappi, E.; Naru, M. U.; Natal da Luz, H.; Nattrass, C.; Navarro, S. R.; Nayak, K.; Nayak, R.; Nayak, T. K.; Nazarenko, S.; Nedosekin, A.; Negrao de Oliveira, R. A.; Nellen, L.; Ng, F.; Nicassio, M.; Niculescu, M.; Niedziela, J.; Nielsen, B. S.; Nikolaev, S.; Nikulin, S.; Nikulin, V.; Noferini, F.; Nomokonov, P.; Nooren, G.; Noris, J. C. C.; Norman, J.; Nyanin, A.; Nystrand, J.; Oeschler, H.; Oh, S.; Ohlson, A.; Okubo, T.; Olah, L.; Oleniacz, J.; Oliveira da Silva, A. C.; Oliver, M. H.; Onderwaater, J.; Oppedisano, C.; Orava, R.; Oravec, M.; Ortiz Velasquez, A.; Oskarsson, A.; Otwinowski, J.; Oyama, K.; Ozdemir, M.; Pachmayer, Y.; Pacik, V.; Pagano, D.; Pagano, P.; Paić, G.; Pal, S. K.; Palni, P.; Pan, J.; Pandey, A. K.; Papikyan, V.; Pappalardo, G. S.; Pareek, P.; Park, J.; Park, W. J.; Parmar, S.; Passfeld, A.; Paticchio, V.; Patra, R. N.; Paul, B.; Pei, H.; Peitzmann, T.; Peng, X.; Pereira da Costa, H.; Peresunko, D.; Perez Lezama, E.; Peskov, V.; Pestov, Y.; Petráček, V.; Petrov, V.; Petrovici, M.; Petta, C.; Piano, S.; Pikna, M.; Pillot, P.; Pimentel, L. O. D. L.; Pinazza, O.; Pinsky, L.; Piyarathna, D. B.; Płoskoń, M.; Planinic, M.; Pluta, J.; Pochybova, S.; Podesta-Lerma, P. L. M.; Poghosyan, M. G.; Polichtchouk, B.; Poljak, N.; Poonsawat, W.; Pop, A.; Poppenborg, H.; Porteboeuf-Houssais, S.; Porter, J.; Pospisil, J.; Prasad, S. K.; Preghenella, R.; Prino, F.; Pruneau, C. A.; Pshenichnov, I.; Puccio, M.; Puddu, G.; Pujahari, P.; Punin, V.; Putschke, J.; Qvigstad, H.; Rachevski, A.; Raha, S.; Rajput, S.; Rak, J.; Rakotozafindrabe, A.; Ramello, L.; Rami, F.; Rana, D. B.; Raniwala, R.; Raniwala, S.; Räsänen, S. S.; Rascanu, B. T.; Rathee, D.; Ratza, V.; Ravasenga, I.; Read, K. F.; Redlich, K.; Rehman, A.; Reichelt, P.; Reidt, F.; Ren, X.; Renfordt, R.; Reolon, A. R.; Reshetin, A.; Reygers, K.; Riabov, V.; Ricci, R. A.; Richert, T.; Richter, M.; Riedler, P.; Riegler, W.; Riggi, F.; Ristea, C.; Rodríguez Cahuantzi, M.; Røed, K.; Rogochaya, E.; Rohr, D.; Röhrich, D.; Ronchetti, F.; Ronflette, L.; Rosnet, P.; Rossi, A.; Roukoutakis, F.; Roy, A.; Roy, C.; Roy, P.; Rubio Montero, A. J.; Rui, R.; Russo, R.; Ryabinkin, E.; Ryabov, Y.; Rybicki, A.; Saarinen, S.; Sadhu, S.; Sadovsky, S.; Šafařík, K.; Sahlmuller, B.; Sahoo, B.; Sahoo, P.; Sahoo, R.; Sahoo, S.; Sahu, P. K.; Saini, J.; Sakai, S.; Saleh, M. A.; Salzwedel, J.; Sambyal, S.; Samsonov, V.; Sandoval, A.; Sano, M.; Sarkar, D.; Sarkar, N.; Sarma, P.; Sas, M. H. P.; Scapparone, E.; Scarlassara, F.; Scharenberg, R. P.; Schiaua, C.; Schicker, R.; Schmidt, C.; Schmidt, H. R.; Schmidt, M.; Schukraft, J.; Schutz, Y.; Schwarz, K.; Schweda, K.; Scioli, G.; Scomparin, E.; Scott, R.; Šefčík, M.; Seger, J. E.; Sekiguchi, Y.; Sekihata, D.; Selyuzhenkov, I.; Senosi, K.; Senyukov, S.; Serradilla, E.; Sett, P.; Sevcenco, A.; Shabanov, A.; Shabetai, A.; Shadura, O.; Shahoyan, R.; Shangaraev, A.; Sharma, A.; Sharma, A.; Sharma, M.; Sharma, M.; Sharma, N.; Sheikh, A. I.; Shigaki, K.; Shou, Q.; Shtejer, K.; Sibiriak, Y.; Siddhanta, S.; Sielewicz, K. M.; Siemiarczuk, T.; Silvermyr, D.; Silvestre, C.; Simatovic, G.; Simonetti, G.; Singaraju, R.; Singh, R.; Singhal, V.; Sinha, T.; Sitar, B.; Sitta, M.; Skaali, T. B.; Slupecki, M.; Smirnov, N.; Snellings, R. J. M.; Snellman, T. W.; Song, J.; Song, M.; Song, Z.; Soramel, F.; Sorensen, S.; Sozzi, F.; Spiriti, E.; Sputowska, I.; Srivastava, B. K.; Stachel, J.; Stan, I.; Stankus, P.; Stenlund, E.; Steyn, G.; Stiller, J. H.; Stocco, D.; Strmen, P.; Suaide, A. A. P.; Sugitate, T.; Suire, C.; Suleymanov, M.; Suljic, M.; Sultanov, R.; Šumbera, M.; Sumowidagdo, S.; Suzuki, K.; Swain, S.; Szabo, A.; Szarka, I.; Szczepankiewicz, A.; Szymanski, M.; Tabassam, U.; Takahashi, J.; Tambave, G. J.; Tanaka, N.; Tarhini, M.; Tariq, M.; Tarzila, M. G.; Tauro, A.; Tejeda Muñoz, G.; Telesca, A.; Terasaki, K.; Terrevoli, C.; Teyssier, B.; Thakur, D.; Thomas, D.; Tieulent, R.; Tikhonov, A.; Timmins, A. R.; Toia, A.; Tripathy, S.; Trogolo, S.; Trombetta, G.; Trubnikov, V.; Trzaska, W. H.; Tsuji, T.; Tumkin, A.; Turrisi, R.; Tveter, T. S.; Ullaland, K.; Umaka, E. N.; Uras, A.; Usai, G. L.; Utrobicic, A.; Vala, M.; van der Maarel, J.; van Hoorne, J. W.; van Leeuwen, M.; Vanat, T.; Vande Vyvre, P.; Varga, D.; Vargas, A.; Vargyas, M.; Varma, R.; Vasileiou, M.; Vasiliev, A.; Vauthier, A.; Vázquez Doce, O.; Vechernin, V.; Veen, A. M.; Velure, A.; Vercellin, E.; Vergara Limón, S.; Vernet, R.; Vértesi, R.; Vickovic, L.; Vigolo, S.; Viinikainen, J.; Vilakazi, Z.; Villalobos Baillie, O.; Villatoro Tello, A.; Vinogradov, A.; Vinogradov, L.; Virgili, T.; Vislavicius, V.; Vodopyanov, A.; Völkl, M. A.; Voloshin, K.; Voloshin, S. A.; Volpe, G.; von Haller, B.; Vorobyev, I.; Voscek, D.; Vranic, D.; Vrláková, J.; Wagner, B.; Wagner, J.; Wang, H.; Wang, M.; Watanabe, D.; Watanabe, Y.; Weber, M.; Weber, S. G.; Weiser, D. F.; Wessels, J. P.; Westerhoff, U.; Whitehead, A. M.; Wiechula, J.; Wikne, J.; Wilk, G.; Wilkinson, J.; Willems, G. A.; Williams, M. C. S.; Windelband, B.; Winn, M.; Yalcin, S.; Yang, P.; Yano, S.; Yin, Z.; Yokoyama, H.; Yoo, I.-K.; Yoon, J. H.; Yurchenko, V.; Zaccolo, V.; Zaman, A.; Zampolli, C.; Zanoli, H. J. C.; Zaporozhets, S.; Zardoshti, N.; Zarochentsev, A.; Závada, P.; Zaviyalov, N.; Zbroszczyk, H.; Zhalov, M.; Zhang, H.; Zhang, X.; Zhang, Y.; Zhang, C.; Zhang, Z.; Zhao, C.; Zhigareva, N.; Zhou, D.; Zhou, Y.; Zhou, Z.; Zhu, H.; Zhu, J.; Zichichi, A.; Zimmermann, A.; Zimmermann, M. B.; Zinovjev, G.; Zmeskal, J.; Alice Collaboration

2017-09-01

In two-particle angular correlation measurements, jets give rise to a near-side peak, formed by particles associated to a higher-pT trigger particle. Measurements of these correlations as a function of pseudorapidity (Δ η ) and azimuthal (Δ φ ) differences are used to extract the centrality and pT dependence of the shape of the near-side peak in the pT range 1

Facilitating surgeon understanding of complex anatomy using a three-dimensional printed model.

PubMed

Cromeens, Barrett P; Ray, William C; Hoehne, Brad; Abayneh, Fikir; Adler, Brent; Besner, Gail E

2017-08-01

3-dimensional prints (3DP) anecdotally facilitate surgeon understanding of anatomy and decision-making. However, the actual benefit to surgeons or patients has not been quantified. This study investigates how surgeon understanding of complex anatomy is altered by a 3DP compared to computed tomography (CT) scan or CT + digital reconstruction (CT + DR). Key anatomic features were segmented from a CT-abdomen/pelvis of pygopagus twins to build a DR and printed in color on a 3D printer. Pediatric surgery trainees and attendings (n = 21) were tested regarding anatomy identification and their understanding of point-to-point distances, scale, and shape. There was no difference between media regarding point-to-point distances. The 3DP led to an increased number of correct answers for questions of scale and shape compared to CT (P < 0.05). CT + DR performance was intermediate but not statistically different from 3DP or CT. Identification of anatomy was inconsistent between media; however, answers were significantly closer to correct when using the 3DP. Participants completed the test faster with the 3DP (6.6 ± 0.5 min) (P < 0.05) than with CT (18.9 ± 2.5 min) or CT + 3DR (14.9 ± 1.5 min). Although point-to-point measurements were not different, 3DP increased the understanding of shape, scale, and anatomy. It enabled understanding significantly faster than other media. In difficult surgical cases with complex anatomy and a need for efficient multidisciplinary coordination, 3D printed models should be considered for surgical planning. Copyright © 2017 Elsevier Inc. All rights reserved.

Evolution of the longitudinal and azimuthal structure of the near-side jet peak in Pb-Pb collisions at s N N = 2.76 TeV

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

Adam, J.; Adamová, D.; Aggarwal, M. M.

In two-particle angular correlation measurements, jets give rise to a near-side peak, formed by particles associated to a higher-p T trigger particle. Measurements of these correlations as a function of pseudorapidity (Δη) and azimuthal (Δφ) differences are used to extract the centrality and p T dependence of the shape of the near-side peak in the p T range 1 < p T < 8 GeV/c in Pb-Pb and pp collisions at √ sNN = 2.76 TeV. A combined fit of the near-side peak and long-range correlations is applied to the data and the peak shape is quantified by the variancemore » of the distributions. And while the width of the peak in the Δφ direction is almost independent of centrality, a significant broadening in the Δη direction is found from peripheral to central collisions. This feature is prominent for the low-p T region and vanishes above 4 GeV/c. The widths measured in peripheral collisions are equal to those in pp collisions in the Δφ direction and above 3 GeV/c in the Δη direction. Furthermore, for the 10% most central collisions and 1 < p T,assoc < 2 GeV/c, 1 < p T,trig < 3 GeV/c, a departure from a Gaussian shape is found: a depletion develops around the center of the peak. Our results are compared to A Multi-Phase Transport (AMPT) model simulation as well as other theoretical calculations indicating that the broadening and the development of the depletion are connected to the strength of radial and longitudinal flow.« less

Brain White Matter Shape Changes in Amyotrophic Lateral Sclerosis (ALS): A Fractal Dimension Study

PubMed Central

Allexandre, Didier; Zhang, Luduan; Wang, Xiao-Feng; Pioro, Erik P.; Yue, Guang H.

2013-01-01

Amyotrophic lateral sclerosis (ALS) is a fatal progressive neurodegenerative disorder. Current diagnosis time is about 12-months due to lack of objective methods. Previous brain white matter voxel based morphometry (VBM) studies in ALS reported inconsistent results. Fractal dimension (FD) has successfully been used to quantify brain WM shape complexity in various neurological disorders and aging, but not yet studied in ALS. Therefore, we investigated WM morphometric changes using FD analyses in ALS patients with different clinical phenotypes. We hypothesized that FD would better capture clinical features of the WM morphometry in different ALS phenotypes than VBM analysis. High resolution MRI T1-weighted images were acquired in controls (n = 11), and ALS patients (n = 89). ALS patients were assigned into four subgroups based on their clinical phenotypes.VBM analysis was carried out using SPM8. FD values were estimated for brain WM skeleton, surface and general structure in both controls and ALS patients using our previously published algorithm. No significant VBM WM changes were observed between controls and ALS patients and among the ALS subgroups. In contrast, significant (p<0.05) FD reductions in skeleton and general structure were observed between ALS with dementia and other ALS subgroups. No significant differences in any of the FD measures were observed between control and ALS patients. FD correlated significantly with revised ALS functional rating scale (ALSFRS-R) score a clinical measure of function. Results suggest that brain WM shape complexity is more sensitive to ALS disease process when compared to volumetric VBM analysis and FD changes are dependent on the ALS phenotype. Correlation between FD and clinical measures suggests that FD could potentially serve as a biomarker of ALS pathophysiology, especially after confirmation by longitudinal studies. PMID:24040000

Evolution of the longitudinal and azimuthal structure of the near-side jet peak in Pb-Pb collisions at s N N = 2.76 TeV

DOE PAGES

Adam, J.; Adamová, D.; Aggarwal, M. M.; ...

2017-09-08

In two-particle angular correlation measurements, jets give rise to a near-side peak, formed by particles associated to a higher-p T trigger particle. Measurements of these correlations as a function of pseudorapidity (Δη) and azimuthal (Δφ) differences are used to extract the centrality and p T dependence of the shape of the near-side peak in the p T range 1 < p T < 8 GeV/c in Pb-Pb and pp collisions at √ sNN = 2.76 TeV. A combined fit of the near-side peak and long-range correlations is applied to the data and the peak shape is quantified by the variancemore » of the distributions. And while the width of the peak in the Δφ direction is almost independent of centrality, a significant broadening in the Δη direction is found from peripheral to central collisions. This feature is prominent for the low-p T region and vanishes above 4 GeV/c. The widths measured in peripheral collisions are equal to those in pp collisions in the Δφ direction and above 3 GeV/c in the Δη direction. Furthermore, for the 10% most central collisions and 1 < p T,assoc < 2 GeV/c, 1 < p T,trig < 3 GeV/c, a departure from a Gaussian shape is found: a depletion develops around the center of the peak. Our results are compared to A Multi-Phase Transport (AMPT) model simulation as well as other theoretical calculations indicating that the broadening and the development of the depletion are connected to the strength of radial and longitudinal flow.« less

Island morphology statistics and growth mechanism for oxidation of the Al(111) surface with thermal O2 and NO

NASA Astrophysics Data System (ADS)

Sexton, J. Z.; Kummel, A. C.

2004-10-01

Scanning tunneling microscopy (STM) was employed to study the mechanism for the oxidation of Al(111) with thermal O2 and NO in the 20%-40% monolayer coverage regime. Experiments show that the islands formed upon exposure to thermal O2 and NO have dramatically different shapes, which are ultimately dictated by the dynamics of the gas surface interaction. The circumference-to-area ratio and other island morphology statistics are used to quantify the average difference in the two island types. Ultrahigh-vacuum STM was employed to make the following observations: (1) Oxygen islands on the Al(111) surface, formed upon exposure to thermal oxygen, are elongated and noncompact. (2) Mixed O/N islands on the Al(111) surface, formed upon exposure to thermal nitric oxide (NO), are round and compact. (3) STM movies acquired during thermal O2 exposure indicate that a complex mechanism involving chemisorption initiated rearrangement of preexisting oxygen islands leads to the asymmetric and elongated island shapes. The overall mechanism for the oxidation of the Al(111) surface can be summarized in three regimes. Low coverage is dominated by widely isolated small oxygen features (<3 O atoms) where normal dissociative chemisorption and oxygen abstraction mechanisms are present. At 20%-40% monolayer coverage, additional oxygen chemisorption induces rearrangement of preexisting islands to form free-energy minimum island shapes. At greater than ˜40% monolayer coverage, the apparent surface oxygen coverage asymptotes corresponding to the conversion of the 2D islands to 3D Al2O3 surface crystallites. The rearrangement of oxygen islands on the surface to form the observed islands indicates that there is a short-range oxygen-oxygen attractive potential and a long-range oxygen-oxygen repulsive potential.

Asteroid spin and shape modelling using two lightcurve inversion methods

NASA Astrophysics Data System (ADS)

Marciniak, Anna; Bartczak, Przemyslaw; Konstanciak, Izabella; Dudzinski, Grzegorz; Mueller, Thomas G.; Duffard, Rene

2016-10-01

We are conducting an observing campaign to counteract strong selection effects in photometric studies of asteroids. Our targets are long-period (P>12 hours) and low-amplitude (a_max<0.25 mag) asteroids, that although numerous, have poor lightcurve datasets (Marciniak et al. 2015, PSS 118, 256). As a result such asteroids are very poorly studied in terms of their spins and shapes. Our campaign targets a sample of around 100 bright (H<11 mag) main belt asteroids sharing both of these features, resulting in a few tens of new composite lightcurves each year. At present the data gathered so far allowed to construct detailed models for the shape and spin for about ten targets.In this study we perform spin and shape modelling using two lightcurve inversion methods: convex inversion (Kaasalainen et al. 2001, Icarus, 153, 37) and nonconvex SAGE modelling algorithm (Shaping Asteroids with Genetic Evolution, Bartczak et al. 2014, MNRAS, 443, 1802). These two methods are independent from each other, and are based on different assumptions for the shape.Thus, the results obtained on the same datasets provide a cross-check of both the methods and the resulting spin and shape models. The results for the spin solutions are highly consistent, and the shape models are similar, though the ones from SAGE algorithm provide more details of the surface features. Nonconvex shape produced by SAGE have been compared with direct images from spacecrafts and the first results for targets like Eros or Lutetia (Batczak et al. 2014, ACM conf. 29B) provide a high level of agreement.Another way of validation is the shape model comparison with the asteroid shape contours obtained using different techniques (like the stellar occultation timings or adaptive optics imaging) or against data in thermal infrared range gathered by ground and space-bound observatories. The thermal data could provide assignment of size and albedo, but also can help to resolve spin-pole ambiguities. In special cases, the thermal data from Spitzer and Wise/NEOWise might even help in testing specific shape features via thermal infrared lightcurves.

Acoustic features of objects matched by an echolocating bottlenose dolphin.

PubMed

Delong, Caroline M; Au, Whitlow W L; Lemonds, David W; Harley, Heidi E; Roitblat, Herbert L

2006-03-01

The focus of this study was to investigate how dolphins use acoustic features in returning echolocation signals to discriminate among objects. An echolocating dolphin performed a match-to-sample task with objects that varied in size, shape, material, and texture. After the task was completed, the features of the object echoes were measured (e.g., target strength, peak frequency). The dolphin's error patterns were examined in conjunction with the between-object variation in acoustic features to identify the acoustic features that the dolphin used to discriminate among the objects. The present study explored two hypotheses regarding the way dolphins use acoustic information in echoes: (1) use of a single feature, or (2) use of a linear combination of multiple features. The results suggested that dolphins do not use a single feature across all object sets or a linear combination of six echo features. Five features appeared to be important to the dolphin on four or more sets: the echo spectrum shape, the pattern of changes in target strength and number of highlights as a function of object orientation, and peak and center frequency. These data suggest that dolphins use multiple features and integrate information across echoes from a range of object orientations.

Advances in structural damage assessment using strain measurements and invariant shape descriptors

NASA Astrophysics Data System (ADS)

Patki, Amol Suhas

Energy conservation has become one of the most important topic of engineering research over the last couple of decades all around the world and implies reduced energy consumption in order to preserve rapidly depleting natural resources. Along with development of fuel-efficient power plants and technology utilizing alternate fuel to traditional fossil fuels, the design and manufacturing of light-weight energy-efficient structures plays a major role in energy conservation. However this reduction in material and/or weight cannot be achieved at the expense of safety. Thus it is essential to either increase the confidence in the analysis of mechanics of traditional isotropic materials to reduce safety factors or develop new structural materials, such as fiber-reinforced (FRP) polymer matrix composites, which tend to have a higher strength to weight ratio. This doctoral research work will focus on two problems faced by the structural mechanics community viz. effects of closure and overloads on fatigue cracks and structural health monitoring of composites. Fatigue life prediction is largely empirical which in recent years has been shown to be a conservative design model. Investigation of crack growth mechanisms, such as crack closure can lead to design optimization. However, the lack of understanding and accepted theories introduces a degree of uncertainty in such models. Many of the complexity and uncertainty arise from the lack of an experimental technique to quantify crack closure. In this context, this research work offers the most compelling evidence to date of the effects of overload retardation and a confirmation of the Wheeler model using direct experimental observations of the stress field and crack tip plastic zone with the aid of thermoelastic stress analysis. On the other hand, the uncertainties in the post-damage behavior of energy saving FRP-composite materials increase their capital cost and maintenance cost. Damage in isotropic materials tends to be local to the area surrounding the damage, while damage in orthotropic materials tends to have more global repercussions. This calls for analysis of full-field strain distributions adding to the complexity of post-damage life estimation. This study explores shape descriptors used in the field of medical imagery, military targeting and biometric recognition for obtaining a qualitative and quantitative comparison between full-field strain data recorded from damaged composite panels using sophisticated experimental techniques. These descriptors are capable of decomposing images with 103 to 106 pixels into a feature vector with only a few hundred elements. This ability of shape descriptors to achieve enormous reduction in strain data, while providing unique representation, makes them a practical choice for the purpose of structural damage assessment. Consequently, it is relatively easy to statistically compare the shape descriptors of the full-field strain maps using similarity measures rather than the strain maps themselves. However, the wide range of geometric and design features in engineering components pose difficulties in the application of traditional shape description techniques. Thus a new shape descriptor is developed which is applicable to a wide range of specimen geometries. This work also illustrates how shape description techniques can be applied to full-field finite element model validations and updating.

Development and evaluation of statistical shape modeling for principal inner organs on torso CT images.

PubMed

Zhou, Xiangrong; Xu, Rui; Hara, Takeshi; Hirano, Yasushi; Yokoyama, Ryujiro; Kanematsu, Masayuki; Hoshi, Hiroaki; Kido, Shoji; Fujita, Hiroshi

2014-07-01

The shapes of the inner organs are important information for medical image analysis. Statistical shape modeling provides a way of quantifying and measuring shape variations of the inner organs in different patients. In this study, we developed a universal scheme that can be used for building the statistical shape models for different inner organs efficiently. This scheme combines the traditional point distribution modeling with a group-wise optimization method based on a measure called minimum description length to provide a practical means for 3D organ shape modeling. In experiments, the proposed scheme was applied to the building of five statistical shape models for hearts, livers, spleens, and right and left kidneys by use of 50 cases of 3D torso CT images. The performance of these models was evaluated by three measures: model compactness, model generalization, and model specificity. The experimental results showed that the constructed shape models have good "compactness" and satisfied the "generalization" performance for different organ shape representations; however, the "specificity" of these models should be improved in the future.

Textural analysis of early-phase spatiotemporal changes in contrast enhancement of breast lesions imaged with an ultrafast DCE-MRI protocol.

PubMed

Milenković, Jana; Dalmış, Mehmet Ufuk; Žgajnar, Janez; Platel, Bram

2017-09-01

New ultrafast view-sharing sequences have enabled breast dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI) to be performed at high spatial and temporal resolution. The aim of this study is to evaluate the diagnostic potential of textural features that quantify the spatiotemporal changes of the contrast-agent uptake in computer-aided diagnosis of malignant and benign breast lesions imaged with high spatial and temporal resolution DCE-MRI. The proposed approach is based on the textural analysis quantifying the spatial variation of six dynamic features of the early-phase contrast-agent uptake of a lesion's largest cross-sectional area. The textural analysis is performed by means of the second-order gray-level co-occurrence matrix, gray-level run-length matrix and gray-level difference matrix. This yields 35 textural features to quantify the spatial variation of each of the six dynamic features, providing a feature set of 210 features in total. The proposed feature set is evaluated based on receiver operating characteristic (ROC) curve analysis in a cross-validation scheme for random forests (RF) and two support vector machine classifiers, with linear and radial basis function (RBF) kernel. Evaluation is done on a dataset with 154 breast lesions (83 malignant and 71 benign) and compared to a previous approach based on 3D morphological features and the average and standard deviation of the same dynamic features over the entire lesion volume as well as their average for the smaller region of the strongest uptake rate. The area under the ROC curve (AUC) obtained by the proposed approach with the RF classifier was 0.8997, which was significantly higher (P = 0.0198) than the performance achieved by the previous approach (AUC = 0.8704) on the same dataset. Similarly, the proposed approach obtained a significantly higher result for both SVM classifiers with RBF (P = 0.0096) and linear kernel (P = 0.0417) obtaining AUC of 0.8876 and 0.8548, respectively, compared to AUC values of previous approach of 0.8562 and 0.8311, respectively. The proposed approach based on 2D textural features quantifying spatiotemporal changes of the contrast-agent uptake significantly outperforms the previous approach based on 3D morphology and dynamic analysis in differentiating the malignant and benign breast lesions, showing its potential to aid clinical decision making. © 2017 American Association of Physicists in Medicine.

Characterization and scaling of anisotropy of fabrics and fractures at laboratory scales: insights from volumetric analysis using computed tomography

NASA Astrophysics Data System (ADS)

Ketcham, Richard A.

2017-04-01

Anisotropy in three-dimensional quantities such as geometric shape and orientation is commonly quantified using principal components analysis, in which a second order tensor determines the orientations of orthogonal components and their relative magnitudes. This approach has many advantages, such as simplicity and ability to accommodate many forms of data, and resilience to data sparsity. However, when data are sufficiently plentiful and precise, they sometimes show that aspects of the principal components approach are oversimplifications that may affect how the data are interpreted or extrapolated for mathematical or physical modeling. High-resolution X-ray computed tomography (CT) can effectively extract thousands of measurements from a single sample, providing a data density sufficient to examine the ways in which anisotropy on the hand-sample scale and smaller can be quantified, and the extent to which the ways the data are simplified are faithful to the underlying distributions. Features within CT data can be considered as discrete objects or continuum fabrics; the latter can be characterized using a variety of metrics, such as the most commonly used mean intercept length, and also the more specialized star length and star volume distributions. Each method posits a different scaling among components that affects the measured degree of anisotropy. The star volume distribution is the most sensitive to anisotropy, and commonly distinguishes strong fabric components that are not orthogonal. Although these data are well-presented using a stereoplot, 3D rose diagrams are another visualization option that can often help identify these components. This talk presents examples from a number of cases, starting with trabecular bone and extending to geological features such as fractures and brittle and ductile fabrics, in which non-orthogonal principal components identified using CT provide some insight into the origin of the underlying structures, and how they should be interpreted and potentially up-scaled.

Effects of a cognitive-behavioral exposure-based body image therapy for overweight females with binge eating disorder: a pilot study.

PubMed

Lewer, Merle; Kosfelder, Joachim; Michalak, Johannes; Schroeder, Dorothea; Nasrawi, Nadia; Vocks, Silja

2017-01-01

Although not part of the diagnostic criteria of the DSM-5, body image disturbance seems to be a relevant feature of Binge Eating Disorder (BED) as well as of other eating disorders such as Anorexia Nervosa (AN) or Bulimia Nervosa (BN). Hence, the aim of the present pilot study was to assess the changeability of body image disturbance in a sample of overweight females with BED by a cognitive-behavioral treatment, directly addressing body image disturbance. Overweight females ( N  = 34) with BED were randomized to a manualized body image therapy or a waiting-list control group. The final sample consisted of n  = 15 participants in the intervention group and n  = 19 in the control group due to two drop-outs in the control condition. Before and after the intervention or the waiting period, respectively, participants filled out a questionnaire battery assessing several body image and eating disorder related features. To quantify the perceptual component of body image disturbance, a digital photo distortion technique based on a picture of each participant taken in a standardized suit was applied. In a two-way ANOVA, significant Time × Group interactions were found for eating and shape concerns, drive for thinness, body dissatisfaction, depressiveness and low self-esteem. Follow-up t -tests indicated a significant symptom reduction of a generally high magnitude in the intervention group. No significant changes concerning body checking and the estimations of one's own "real", "felt" and "ideal" body dimensions were found. The strong symptom reduction in the cognitive-affective component of body image disturbance indicates that an exposure-based cognitive-behavioral body image intervention is a promising treatment module for overweight females with BED, but future research with a larger sample size is needed to quantify possible changes in all components of body image.

A comparative analysis of alternative approaches for quantifying nonlinear dynamics in cardiovascular system.

PubMed

Chen, Yun; Yang, Hui

2013-01-01

Heart rate variability (HRV) analysis has emerged as an important research topic to evaluate autonomic cardiac function. However, traditional time and frequency-domain analysis characterizes and quantify only linear and stationary phenomena. In the present investigation, we made a comparative analysis of three alternative approaches (i.e., wavelet multifractal analysis, Lyapunov exponents and multiscale entropy analysis) for quantifying nonlinear dynamics in heart rate time series. Note that these extracted nonlinear features provide information about nonlinear scaling behaviors and the complexity of cardiac systems. To evaluate the performance, we used 24-hour HRV recordings from 54 healthy subjects and 29 heart failure patients, available in PhysioNet. Three nonlinear methods are evaluated not only individually but also in combination using three classification algorithms, i.e., linear discriminate analysis, quadratic discriminate analysis and k-nearest neighbors. Experimental results show that three nonlinear methods capture nonlinear dynamics from different perspectives and the combined feature set achieves the best performance, i.e., sensitivity 97.7% and specificity 91.5%. Collectively, nonlinear HRV features are shown to have the promise to identify the disorders in autonomic cardiovascular function.

Morphologic Features of Magnetic Resonance Imaging as a Surrogate of Capsular Contracture in Breast Cancer Patients With Implant-based Reconstructions.

PubMed

Tyagi, Neelam; Sutton, Elizabeth; Hunt, Margie; Zhang, Jing; Oh, Jung Hun; Apte, Aditya; Mechalakos, James; Wilgucki, Molly; Gelb, Emily; Mehrara, Babak; Matros, Evan; Ho, Alice

2017-02-01

Capsular contracture (CC) is a serious complication in patients receiving implant-based reconstruction for breast cancer. Currently, no objective methods are available for assessing CC. The goal of the present study was to identify image-based surrogates of CC using magnetic resonance imaging (MRI). We analyzed a retrospective data set of 50 patients who had undergone both a diagnostic MRI scan and a plastic surgeon's evaluation of the CC score (Baker's score) within a 6-month period after mastectomy and reconstructive surgery. The MRI scans were assessed for morphologic shape features of the implant and histogram features of the pectoralis muscle. The shape features, such as roundness, eccentricity, solidity, extent, and ratio length for the implant, were compared with the Baker score. For the pectoralis muscle, the muscle width and median, skewness, and kurtosis of the intensity were compared with the Baker score. Univariate analysis (UVA) using a Wilcoxon rank-sum test and multivariate analysis with the least absolute shrinkage and selection operator logistic regression was performed to determine significant differences in these features between the patient groups categorized according to their Baker's scores. UVA showed statistically significant differences between grade 1 and grade ≥2 for morphologic shape features and histogram features, except for volume and skewness. Only eccentricity, ratio length, and volume were borderline significant in differentiating grade ≤2 and grade ≥3. Features with P<.1 on UVA were used in the multivariate least absolute shrinkage and selection operator logistic regression analysis. Multivariate analysis showed a good level of predictive power for grade 1 versus grade ≥2 CC (area under the receiver operating characteristic curve 0.78, sensitivity 0.78, and specificity 0.82) and for grade ≤2 versus grade ≥3 CC (area under the receiver operating characteristic curve 0.75, sensitivity 0.75, and specificity 0.79). The morphologic shape features described on MR images were associated with the severity of CC. MRI has the potential to further improve the diagnostic ability of the Baker score in breast cancer patients who undergo implant reconstruction. Copyright © 2016 Elsevier Inc. All rights reserved.

Contributions of the stochastic shape wake model to predictions of aerodynamic loads and power under single wake conditions

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

Doubrawa, P.; Barthelmie, R. J.; Wang, H.

The contribution of wake meandering and shape asymmetry to load and power estimates is quantified by comparing aeroelastic simulations initialized with different inflow conditions: an axisymmetric base wake, an unsteady stochastic shape wake, and a large-eddy simulation with rotating actuator-line turbine representation. Time series of blade-root and tower base bending moments are analyzed. We find that meandering has a large contribution to the fluctuation of the loads. Moreover, considering the wake edge intermittence via the stochastic shape model improves the simulation of load and power fluctuations and of the fatigue damage equivalent loads. Furthermore, these results indicate that the stochasticmore » shape wake simulator is a valuable addition to simplified wake models when seeking to obtain higher-fidelity computationally inexpensive predictions of loads and power.« less

Uncertainty-enabled design of electromagnetic reflectors with integrated shape control

NASA Astrophysics Data System (ADS)

Haque, Samiul; Kindrat, Laszlo P.; Zhang, Li; Mikheev, Vikenty; Kim, Daewa; Liu, Sijing; Chung, Jooyeon; Kuian, Mykhailo; Massad, Jordan E.; Smith, Ralph C.

2018-03-01

We implemented a computationally efficient model for a corner-supported, thin, rectangular, orthotropic polyvinylidene fluoride (PVDF) laminate membrane, actuated by a two-dimensional array of segmented electrodes. The laminate can be used as shape-controlled electromagnetic reflector and the model estimates the reflector's shape given an array of control voltages. In this paper, we describe a model to determine the shape of the laminate for a given distribution of control voltages. Then, we investigate the surface shape error and its sensitivity to the model parameters. Subsequently, we analyze the simulated deflection of the actuated bimorph using a Zernike polynomial decomposition. Finally, we provide a probabilistic description of reflector performance using statistical methods to quantify uncertainty. We make design recommendations for nominal parameter values and their tolerances based on optimization under uncertainty using multiple methods.

Contributions of the stochastic shape wake model to predictions of aerodynamic loads and power under single wake conditions

DOE PAGES

Doubrawa, P.; Barthelmie, R. J.; Wang, H.; ...

2016-10-03

The contribution of wake meandering and shape asymmetry to load and power estimates is quantified by comparing aeroelastic simulations initialized with different inflow conditions: an axisymmetric base wake, an unsteady stochastic shape wake, and a large-eddy simulation with rotating actuator-line turbine representation. Time series of blade-root and tower base bending moments are analyzed. We find that meandering has a large contribution to the fluctuation of the loads. Moreover, considering the wake edge intermittence via the stochastic shape model improves the simulation of load and power fluctuations and of the fatigue damage equivalent loads. Furthermore, these results indicate that the stochasticmore » shape wake simulator is a valuable addition to simplified wake models when seeking to obtain higher-fidelity computationally inexpensive predictions of loads and power.« less

Effects of surface characteristics on the plantar shape of feet and subjects' perceived sensations.

PubMed

Witana, Channa P; Goonetilleke, Ravindra S; Xiong, Shuping; Au, Emily Y L

2009-03-01

Orthotics and other types of shoe inserts are primarily designed to reduce injury and improve comfort. The interaction between the plantar surface of the foot and the load-bearing surface contributes to foot and surface deformations and hence to perceived comfort, discomfort or pain. The plantar shapes of 16 participants' feet were captured when standing on three support surfaces that had different cushioning properties in the mid-foot region. Foot shape deformations were quantified using 3D laser scans. A questionnaire was used to evaluate the participant's perceptions of perceived shape and perceived feeling. The results showed that the structure in the mid-foot could change shape, independent of the rear-foot and forefoot regions. Participants were capable of identifying the shape changes with distinct preferences towards certain shapes. The cushioning properties of the mid-foot materials also have a direct influence on perceived feelings. This research has strong implications for the design and material selection of orthotics, insoles and footwear.

Determination of gold nanoparticle shape from absorption spectroscopy and ellipsometry

NASA Astrophysics Data System (ADS)

Battie, Yann; Izquierdo-Lorenzo, Irene; Resano-Garcia, Amandine; Naciri, Aotmane En; Akil, Suzanna; Adam, Pierre Michel; Jradi, Safi

2017-11-01

A new methodology is developed to determine the shape distribution of gold nanoparticles (NPs) from optical spectroscopic measurements. Indeed, the morphology of Au colloids is deduced by fitting their absorption spectra with an effective medium theory which takes into account the nanoparticle shape distribution. The same procedure is applied to ellipsometric measurements recorded on photoresist films which contain Au NPs. Three spaces (L2, r2, P2) are introduced to interpret the NPs shape distribution. In the P2 space, the sphericity, the prolacity and the oblacity estimators are proposed to quantify the shape of NPs. The r2 space enables the determination of the NP aspect ratio distribution. The distributions determined from optical spectroscopy were found to be in very good agreement with the shape distributions obtained by transmission electron microscopy. We found that fitting absorption or ellipsometric spectra with an adequate effective medium theory, provides a robust tool for measuring the shape and concentration of metallic NPs.

Do Rats Use Shape to Solve "Shape Discriminations"?

ERIC Educational Resources Information Center

Minini, Loredana; Jeffery, Kathryn J.

2006-01-01

Visual discrimination tasks are increasingly used to explore the neurobiology of vision in rodents, but it remains unclear how the animals solve these tasks: Do they process shapes holistically, or by using low-level features such as luminance and angle acuity? In the present study we found that when discriminating triangles from squares, rats did…

Sample Stimulus Control Shaping and Restricted Stimulus Control in Capuchin Monkeys: A Methodological Note

ERIC Educational Resources Information Center

Brino, Ana Leda F., Barros, Romariz S., Galvao, Ol; Garotti, M.; Da Cruz, Ilara R. N.; Santos, Jose R.; Dube, William V.; McIlvane, William J.

2011-01-01

This paper reports use of sample stimulus control shaping procedures to teach arbitrary matching-to-sample to 2 capuchin monkeys ("Cebus apella"). The procedures started with identity matching-to-sample. During shaping, stimulus features of the sample were altered gradually, rendering samples and comparisons increasingly physically dissimilar. The…

A New Shape Description Method Using Angular Radial Transform

NASA Astrophysics Data System (ADS)

Lee, Jong-Min; Kim, Whoi-Yul

Shape is one of the primary low-level image features in content-based image retrieval. In this paper we propose a new shape description method that consists of a rotationally invariant angular radial transform descriptor (IARTD). The IARTD is a feature vector that combines the magnitude and aligned phases of the angular radial transform (ART) coefficients. A phase correction scheme is employed to produce the aligned phase so that the IARTD is invariant to rotation. The distance between two IARTDs is defined by combining differences in the magnitudes and aligned phases. In an experiment using the MPEG-7 shape dataset, the proposed method outperforms existing methods; the average BEP of the proposed method is 57.69%, while the average BEPs of the invariant Zernike moments descriptor and the traditional ART are 41.64% and 36.51%, respectively.

Estimating Shape and Micro-Motion Parameter of Rotationally Symmetric Space Objects from the Infrared Signature

PubMed Central

Wu, Yabei; Lu, Huanzhang; Zhao, Fei; Zhang, Zhiyong

2016-01-01

Shape serves as an important additional feature for space target classification, which is complementary to those made available. Since different shapes lead to different projection functions, the projection property can be regarded as one kind of shape feature. In this work, the problem of estimating the projection function from the infrared signature of the object is addressed. We show that the projection function of any rotationally symmetric object can be approximately represented as a linear combination of some base functions. Based on this fact, the signal model of the emissivity-area product sequence is constructed, which is a particular mathematical function of the linear coefficients and micro-motion parameters. Then, the least square estimator is proposed to estimate the projection function and micro-motion parameters jointly. Experiments validate the effectiveness of the proposed method. PMID:27763500

Generation of Fullspan Leading-Edge 3D Ice Shapes for Swept-Wing Aerodynamic Testing

NASA Technical Reports Server (NTRS)

Camello, Stephanie C.; Lee, Sam; Lum, Christopher; Bragg, Michael B.

2016-01-01

The deleterious effect of ice accretion on aircraft is often assessed through dry-air flight and wind tunnel testing with artificial ice shapes. This paper describes a method to create fullspan swept-wing artificial ice shapes from partial span ice segments acquired in the NASA Glenn Icing Reserch Tunnel for aerodynamic wind-tunnel testing. Full-scale ice accretion segments were laser scanned from the Inboard, Midspan, and Outboard wing station models of the 65% scale Common Research Model (CRM65) aircraft configuration. These were interpolated and extrapolated using a weighted averaging method to generate fullspan ice shapes from the root to the tip of the CRM65 wing. The results showed that this interpolation method was able to preserve many of the highly three dimensional features typically found on swept-wing ice accretions. The interpolated fullspan ice shapes were then scaled to fit the leading edge of a 8.9% scale version of the CRM65 wing for aerodynamic wind-tunnel testing. Reduced fidelity versions of the fullspan ice shapes were also created where most of the local three-dimensional features were removed. The fullspan artificial ice shapes and the reduced fidelity versions were manufactured using stereolithography.

Linearly Additive Shape and Color Signals in Monkey Inferotemporal Cortex

PubMed Central

McMahon, David B. T.; Olson, Carl R.

2009-01-01

How does the brain represent a red circle? One possibility is that there is a specialized and possibly time-consuming process whereby the attributes of shape and color, carried by separate populations of neurons in low-order visual cortex, are bound together into a unitary neural representation. Another possibility is that neurons in high-order visual cortex are selective, by virtue of their bottom-up input from low-order visual areas, for particular conjunctions of shape and color. A third possibility is that they simply sum shape and color signals linearly. We tested these ideas by measuring the responses of inferotemporal cortex neurons to sets of stimuli in which two attributes—shape and color—varied independently. We find that a few neurons exhibit conjunction selectivity but that in most neurons the influences of shape and color sum linearly. Contrary to the idea of conjunction coding, few neurons respond selectively to a particular combination of shape and color. Contrary to the idea that binding requires time, conjunction signals, when present, occur as early as feature signals. We argue that neither conjunction selectivity nor a specialized feature binding process is necessary for the effective representation of shape–color combinations. PMID:19144745

Barlenses and X-shaped features compared: two manifestations of boxy/peanut bulges

NASA Astrophysics Data System (ADS)

Laurikainen, E.; Salo, H.

2017-02-01

Aims: We study the morphological characteristics of boxy/peanut-shaped bulges. In particular, we are interested to determine whether most of the flux associated with bulges in galaxies with masses similar to those of the Milky Way at redshift z 0 might belong to the vertically thick inner part of the bar, in a similar manner as in the Milky Way itself. At high galaxy inclinations, these structures are observed as boxy/peanut/X-shaped features, and when the view is near to face-on, they are observed as barlenses. We also study the possibility that bulges in some fraction of unbarred galaxies might form in a similar manner as the bulges in barred galaxies. Methods: We used the Spitzer Survey of Stellar Structure in Galaxies (S4G) and the Near-IR S0 galaxy Survey (NIRS0S) to compile complete samples of galaxies with barlenses (N = 85) and X-shaped features (N = 88). A sample of unbarred galaxies (N = 41) is also selected. For all 214 galaxies unsharp mask images were created, used to recognize the X-shaped features and to measure their linear sizes. To detect possible boxy isophotes (using the B4-parameter), we also performed an isophotal analysis for the barlens galaxies. We use recently published N-body simulations: the models that exhibit boxy/peanut/X/barlens morphologies are viewed from isotropically chosen directions that cover the full range of galaxy inclinations in the sky. The synthetic images were analyzed in a similar manner as the observations. Results: This is the first time that the observed properties of barlenses and X-shaped features are directly compared across a wide range of galaxy inclinations. A comparison with the simulation models shows that the differences in their apparent sizes, a/rbar ≳ 0.5 for barlenses and a/rbar ≲ 0.5 for X-shapes, can be explained by projection effects. Observations at various inclinations are consistent with intrinsic abl ≈ aX ≈ 0.5rbar: here intrinsic size means the face-on semimajor axis length for bars and barlenses, and the semilength of the X-shape when the bar is viewed exactly edge-on. While X-shapes are quite common at intermediate galaxy inclinations (for I = 40°-60° their frequency is about half that of barlenses), they are seldom observed at smaller inclinations. This is consistent with our simulation models, which have a small compact classical bulge that produces a steep inner rotation slope, whereas bulgeless shallow rotation curve models predict that X-shapes should be visible even in a face-on geometry. The steep rotation curve models are also consistent with the observed trend that B4 is positive at low inclination and with negative values for I ≳ 40°-60°; this implies boxy isophotes. In total, only about one quarter of the barlenses (with I ≤ 60°) show boxy isophotes. Conclusions: Our analyses are consistent with the idea that barlenses and X-shaped features are physically the same phenomenon. However, the observed nearly round face-on barlens morphology is expected only when at least a few percent of the disk mass is located in a central component, within a region much smaller than the size of the barlens itself. Barlenses contribute to secular evolution of galaxies, and might even act as a transition phase between barred and unbarred galaxies. We also discuss that the wide range of stellar population ages obtained for the photometric bulges in the literature are consistent with our interpretation.

SU-E-I-85: Exploring the 18F-Fluorodeoxyglucose PET Characteristics in Staging of Esophageal Squamous Cell Carcinoma

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

Ma, C; Yin, Y

2014-06-01

Purpose: The aim of this study was to explore the characteristics derived from 18F-fluorodeoxyglucose (18F-FDG) PET image and assess its capacity in staging of esophageal squamous cell carcinoma (ESCC). Methods: 26 patients with newly diagnosed ESCC who underwent 18F-FDG PET scan were included in this study. Different image-derived indices including the standardized uptake value (SUV), gross tumor length, texture features and shape feature were considered. Taken the histopathologic examination as the gold standard, the extracted capacities of indices in staging of ESCC were assessed by Kruskal-Wallis test and Mann-Whitney test. Specificity and sensitivity for each of the studied parameters weremore » derived using receiver-operating characteristic curves. Results: 18F-FDG SUVmax and SUVmean showed statistically significant capability in AJCC and TNM stages. Texture features such as ENT and CORR were significant factors for N stages(p=0.040, p=0.029). Both FDG PET Longitudinal length and shape feature Eccentricity (EC) (p≤0.010) provided powerful stratification in the primary ESCC AJCC and TNM stages than SUV and texture features. Receiver-operating-characteristic curve analysis showed that tumor textural analysis can capability M stages with higher sensitivity than SUV measurement but lower in T and N stages. Conclusion: The 18F-FDG image-derived characteristics of SUV, textural features and shape feature allow for good stratification AJCC and TNM stage in ESCC patients.« less

Calibrated Seismic Imaging of Eddy-Dominated Warm-Water Transport Across the Bellingshausen Sea, Southern Ocean

NASA Astrophysics Data System (ADS)

Gunn, K. L.; White, N. J.; Larter, R. D.; Caulfield, C. P.

2018-04-01

Seismic reflection images of thermohaline circulation from the Bellingshausen Sea, adjacent to the West Antarctica Peninsula, were acquired during February 2015. This survey shows that bright reflectivity occurs throughout the upper 300 m. By calibrating these seismic images with coeval hydrographic measurements, intrusion of warm water features onto the continental shelf at Marguerite and Belgica Troughs is identified and characterized. These features have distinctive lens-shaped patterns of reflectivity with lengths of 0.75-11.00 km and thicknesses of 100-150 m, suggesting that they are small mesoscale to submesoscale eddies. Abundant eddies are observed along a transect that crosses Belgica Trough. Near Alexander Island Drift, a large, of order (O)102 km3, bowl-like feature, that may represent an anticyclonic Taylor column, is imaged on a pair of orthogonal images. A modified iterative procedure is used to convert seismic imagery into maps of temperature that enable the number and size of eddies being transported onto the shelf to be quantified. Finally, analysis of prestack shot records suggests that these eddies are advecting southward at speeds of O>(0.1>) m s-1, consistent with limited legacy hydrographic measurements. Concentration of observed eddies south of the Southern Antarctic Circumpolar Current Front implies they represent both a dominant, and a long-lived, mechanism of warm-water transport, especially across Belgica Trough. Our observations suggest that previous estimates of eddy frequency may have been underestimated by up to 1 order of magnitude, which has significant implications for calculations of ice mass loss on the shelf of the West Antarctic Peninsula.

Tip Characterization Method using Multi-feature Characterizer for CD-AFM

PubMed Central

Orji, Ndubuisi G.; Itoh, Hiroshi; Wang, Chumei; Dixson, Ronald G.; Walecki, Peter S.; Schmidt, Sebastian W.; Irmer, Bernd

2016-01-01

In atomic force microscopy (AFM) metrology, the tip is a key source of uncertainty. Images taken with an AFM show a change in feature width and shape that depends on tip geometry. This geometric dilation is more pronounced when measuring features with high aspect ratios, and makes it difficult to obtain absolute dimensions. In order to accurately measure nanoscale features using an AFM, the tip dimensions should be known with a high degree of precision. We evaluate a new AFM tip characterizer, and apply it to critical dimension AFM (CD-AFM) tips used for high aspect ratio features. The characterizer is made up of comb-shaped lines and spaces, and includes a series of gratings that could be used as an integrated nanoscale length reference. We also demonstrate a simulation method that could be used to specify what range of tip sizes and shapes the characterizer can measure. Our experiments show that for non re-entrant features, the results obtained with this characterizer are consistent to 1 nm with the results obtained by using widely accepted but slower methods that are common practice in CD-AFM metrology. A validation of the integrated length standard using displacement interferometry indicates a uniformity of better than 0.75%, suggesting that the sample could be used as highly accurate and SI traceable lateral scale for the whole evaluation process. PMID:26720439

Brain functional network connectivity based on a visual task: visual information processing-related brain regions are significantly activated in the task state.

PubMed

Yang, Yan-Li; Deng, Hong-Xia; Xing, Gui-Yang; Xia, Xiao-Luan; Li, Hai-Fang

2015-02-01

It is not clear whether the method used in functional brain-network related research can be applied to explore the feature binding mechanism of visual perception. In this study, we investigated feature binding of color and shape in visual perception. Functional magnetic resonance imaging data were collected from 38 healthy volunteers at rest and while performing a visual perception task to construct brain networks active during resting and task states. Results showed that brain regions involved in visual information processing were obviously activated during the task. The components were partitioned using a greedy algorithm, indicating the visual network existed during the resting state. Z-values in the vision-related brain regions were calculated, confirming the dynamic balance of the brain network. Connectivity between brain regions was determined, and the result showed that occipital and lingual gyri were stable brain regions in the visual system network, the parietal lobe played a very important role in the binding process of color features and shape features, and the fusiform and inferior temporal gyri were crucial for processing color and shape information. Experimental findings indicate that understanding visual feature binding and cognitive processes will help establish computational models of vision, improve image recognition technology, and provide a new theoretical mechanism for feature binding in visual perception.

Classification of Alzheimer's disease patients with hippocampal shape wrapper-based feature selection and support vector machine

NASA Astrophysics Data System (ADS)

Young, Jonathan; Ridgway, Gerard; Leung, Kelvin; Ourselin, Sebastien

2012-02-01

It is well known that hippocampal atrophy is a marker of the onset of Alzheimer's disease (AD) and as a result hippocampal volumetry has been used in a number of studies to provide early diagnosis of AD and predict conversion of mild cognitive impairment patients to AD. However, rates of atrophy are not uniform across the hippocampus making shape analysis a potentially more accurate biomarker. This study studies the hippocampi from 226 healthy controls, 148 AD patients and 330 MCI patients obtained from T1 weighted structural MRI images from the ADNI database. The hippocampi are anatomically segmented using the MAPS multi-atlas segmentation method, and the resulting binary images are then processed with SPHARM software to decompose their shapes as a weighted sum of spherical harmonic basis functions. The resulting parameterizations are then used as feature vectors in Support Vector Machine (SVM) classification. A wrapper based feature selection method was used as this considers the utility of features in discriminating classes in combination, fully exploiting the multivariate nature of the data and optimizing the selected set of features for the type of classifier that is used. The leave-one-out cross validated accuracy obtained on training data is 88.6% for classifying AD vs controls and 74% for classifying MCI-converters vs MCI-stable with very compact feature sets, showing that this is a highly promising method. There is currently a considerable fall in accuracy on unseen data indicating that the feature selection is sensitive to the data used, however feature ensemble methods may overcome this.

Efficacy of texture, shape, and intensity features for robust posterior-fossa tumor segmentation in MRI

NASA Astrophysics Data System (ADS)

Ahmed, S.; Iftekharuddin, K. M.; Ogg, R. J.; Laningham, F. H.

2009-02-01

Our previous works suggest that fractal-based texture features are very useful for detection, segmentation and classification of posterior-fossa (PF) pediatric brain tumor in multimodality MRI. In this work, we investigate and compare efficacy of our texture features such as fractal and multifractional Brownian motion (mBm), and intensity along with another useful level-set based shape feature in PF tumor segmentation. We study feature selection and ranking using Kullback -Leibler Divergence (KLD) and subsequent tumor segmentation; all in an integrated Expectation Maximization (EM) framework. We study the efficacy of all four features in both multimodality as well as disparate MRI modalities such as T1, T2 and FLAIR. Both KLD feature plots and information theoretic entropy measure suggest that mBm feature offers the maximum separation between tumor and non-tumor tissues in T1 and FLAIR MRI modalities. The same metrics show that intensity feature offers the maximum separation between tumor and non-tumor tissue in T2 MRI modality. The efficacies of these features are further validated in segmenting PF tumor using both single modality and multimodality MRI for six pediatric patients with over 520 real MR images.

Laboratory arc furnace features interchangeable hearths

NASA Technical Reports Server (NTRS)

Armstrong, J. L.; Kruger, O. L.

1967-01-01

Laboratory arc furnace using rapidly interchangeable hearths gains considerable versatility in casting so that buttons or special shaped castings can be produced. It features a sight glass for observation.

Forming H-shaped and barrel-shaped nebulae with interacting jets

NASA Astrophysics Data System (ADS)

Akashi, Muhammad; Bear, Ealeal; Soker, Noam

2018-04-01

We conduct three-dimensional hydrodynamical simulations of two opposite jets with large opening angles launched from a binary stellar system into a previously ejected shell and show that the interaction can form barrel-like and H-like shapes in the descendant nebula. Such features are observed in planetary nebulae (PNe) and supernova remnants. Under our assumption, the dense shell is formed by a short instability phase of the giant star as it interacts with a stellar companion, and the jets are then launched by the companion as it accretes mass through an accretion disc from the giant star. We find that the H-shaped and barrel-shaped morphological features that the jets form evolve with time, and that there are complicated flow patterns, such as vortices, instabilities, and caps moving ahead along the symmetry axis. We compare our numerical results with images of 12 PNe, and show that jet-shell interaction that we simulate can account for the barrel-like or H-like morphologies that are observed in these PNe.

Visual feature integration and focused attention: response competition from multiple distractor features.

PubMed

Lavie, N

1997-05-01

Predictions from Treisman's feature integration theory of attention were tested in a variant of the response-competition paradigm. Subjects made choice responses to particular color-shape conjunctions (e.g., a purple cross vs. a green circle) while withholding their responses to the opposite conjunctions (i.e., a purple circle vs. a green cross). The results showed that compatibility effects were based on both distractor color and shape. For unattended distractors in preknown irrelevant positions, compatibility effects were equivalent for conjunctive distractors (e.g., a purple cross and a blue triangle) and for disjunctive distractors (e.g., a purple triangle and a blue cross). Manipulation of attention to the distractors positions resulted in larger compatibility effects from conjoined features. These results accord with Treisman's claim that correct conjunction information is unavailable under conditions of inattention, and they provide new information on response-competition effects from multiple features.

Testosterone-mediated sex differences in the face shape during adolescence: subjective impressions and objective features.

PubMed

Marečková, Klára; Weinbrand, Zohar; Chakravarty, M Mallar; Lawrence, Claire; Aleong, Rosanne; Leonard, Gabriel; Perron, Michel; Pike, G Bruce; Richer, Louis; Veillette, Suzanne; Pausova, Zdenka; Paus, Tomáš

2011-11-01

Sex identification of a face is essential for social cognition. Still, perceptual cues indicating the sex of a face, and mechanisms underlying their development, remain poorly understood. Previously, our group described objective age- and sex-related differences in faces of healthy male and female adolescents (12-18 years of age), as derived from magnetic resonance images (MRIs) of the adolescents' heads. In this study, we presented these adolescent faces to 60 female raters to determine which facial features most reliably predicted subjective sex identification. Identification accuracy correlated highly with specific MRI-derived facial features (e.g. broader forehead, chin, jaw, and nose). Facial features that most reliably cued male identity were associated with plasma levels of testosterone (above and beyond age). Perceptible sex differences in face shape are thus associated with specific facial features whose emergence may be, in part, driven by testosterone. Copyright © 2011 Elsevier Inc. All rights reserved.

Quantification of hand synovitis in rheumatoid arthritis: Arterial mask subtraction reinforced with mutual information can improve accuracy of pixel-by-pixel time-intensity curve shape analysis in dynamic MRI.

PubMed

Kobayashi, Yuto; Kamishima, Tamotsu; Sugimori, Hiroyuki; Ichikawa, Shota; Noguchi, Atsushi; Kono, Michihito; Iiyama, Toshitake; Sutherland, Kenneth; Atsumi, Tatsuya

2018-03-01

Synovitis, which is a hallmark of rheumatoid arthritis (RA), needs to be precisely quantified to determine the treatment plan. Time-intensity curve (TIC) shape analysis is an objective assessment method for characterizing the pixels as artery, inflamed synovium, or other tissues using dynamic contrast-enhanced MRI (DCE-MRI). To assess the feasibility of our original arterial mask subtraction method (AMSM) with mutual information (MI) for quantification of synovitis in RA. Prospective study. Ten RA patients (nine women and one man; mean age, 56.8 years; range, 38-67 years). 3T/DCE-MRI. After optimization of TIC shape analysis to the hand region, a combination of TIC shape analysis and AMSM was applied to synovial quantification. The MI between pre- and postcontrast images was utilized to determine the arterial mask phase objectively, which was compared with human subjective selection. The volume of objectively measured synovitis by software was compared with that of manual outlining by an experienced radiologist. Simple TIC shape analysis and TIC shape analysis combined with AMSM were compared in slices without synovitis according to subjective evaluation. Pearson's correlation coefficient, paired t-test and intraclass correlation coefficient (ICC). TIC shape analysis was successfully optimized in the hand region with a correlation coefficient of 0.725 (P < 0.01) with the results of manual assessment regarded as ground truth. Objective selection utilizing MI had substantial agreement (ICC = 0.734) with subjective selection. Correlation of synovial volumetry in combination with TIC shape analysis and AMSM with manual assessment was excellent (r = 0.922, P < 0.01). In addition, negative predictive ability in slices without synovitis pixels was significantly increased (P < 0.01). The combination of TIC shape analysis and image subtraction reinforced with MI can accurately quantify synovitis of RA in the hand by eliminating arterial pixels. 2 Technical Efficacy: Stage 2 J. Magn. Reson. Imaging 2018. © 2018 International Society for Magnetic Resonance in Medicine.

Assessing breathing motion by shape matching of lung and diaphragm surfaces

NASA Astrophysics Data System (ADS)

Urschler, Martin; Bischof, Horst

2005-04-01

Studying complex thorax breating motion is an important research topic for accurate fusion of functional and anatomical data, radiotherapy planning or reduction of breathing motion artifacts. We investigate segmented CT lung, airway and diaphragm surfaces at several different breathing states between Functional Residual and Total Lung Capacity. In general, it is hard to robustly derive corresponding shape features like curvature maxima from lung and diaphragm surfaces since diaphragm and rib cage muscles tend to deform the elastic lung tissue such that e.g. ridges might disappear. A novel registration method based on the shape context approach for shape matching is presented where we extend shape context to 3D surfaces. The shape context approach was reported as a promising method for matching 2D shapes without relying on extracted shape features. We use the point correspondences for a non-rigid thin-plate-spline registration to get deformation fields that describe the movement of lung and diaphragm. Our validation consists of experiments on phantom and real sheep thorax data sets. Phantom experiments make use of shapes that are manipulated with known transformations that simulate breathing behaviour. Real thorax data experiments use a data set showing lungs and diaphragm at 5 distinct breathing states, where we compare subsets of the data sets and qualitatively and quantitatively asses the registration performance by using manually identified corresponding landmarks.

Object-based Encoding in Visual Working Memory: Evidence from Memory-driven Attentional Capture.

PubMed

Gao, Zaifeng; Yu, Shixian; Zhu, Chengfeng; Shui, Rende; Weng, Xuchu; Li, Peng; Shen, Mowei

2016-03-09

Visual working memory (VWM) adopts a specific manner of object-based encoding (OBE) to extract perceptual information: Whenever one feature-dimension is selected for entry into VWM, the others are also extracted. Currently most studies revealing OBE probed an 'irrelevant-change distracting effect', where changes of irrelevant-features dramatically affected the performance of the target feature. However, the existence of irrelevant-feature change may affect participants' processing manner, leading to a false-positive result. The current study conducted a strict examination of OBE in VWM, by probing whether irrelevant-features guided the deployment of attention in visual search. The participants memorized an object's colour yet ignored shape and concurrently performed a visual-search task. They searched for a target line among distractor lines, each embedded within a different object. One object in the search display could match the shape, colour, or both dimensions of the memory item, but this object never contained the target line. Relative to a neutral baseline, where there was no match between the memory and search displays, search time was significantly prolonged in all match conditions, regardless of whether the memory item was displayed for 100 or 1000 ms. These results suggest that task-irrelevant shape was extracted into VWM, supporting OBE in VWM.

Comparison of organs' shapes with geometric and Zernike 3D moments.

PubMed

Broggio, D; Moignier, A; Ben Brahim, K; Gardumi, A; Grandgirard, N; Pierrat, N; Chea, M; Derreumaux, S; Desbrée, A; Boisserie, G; Aubert, B; Mazeron, J-J; Franck, D

2013-09-01

The morphological similarity of organs is studied with feature vectors based on geometric and Zernike 3D moments. It is particularly investigated if outliers and average models can be identified. For this purpose, the relative proximity to the mean feature vector is defined, principal coordinate and clustering analyses are also performed. To study the consistency and usefulness of this approach, 17 livers and 76 hearts voxel models from several sources are considered. In the liver case, models with similar morphological feature are identified. For the limited amount of studied cases, the liver of the ICRP male voxel model is identified as a better surrogate than the female one. For hearts, the clustering analysis shows that three heart shapes represent about 80% of the morphological variations. The relative proximity and clustering analysis rather consistently identify outliers and average models. For the two cases, identification of outliers and surrogate of average models is rather robust. However, deeper classification of morphological feature is subject to caution and can only be performed after cross analysis of at least two kinds of feature vectors. Finally, the Zernike moments contain all the information needed to re-construct the studied objects and thus appear as a promising tool to derive statistical organ shapes. Copyright © 2013 Elsevier Ireland Ltd. All rights reserved.

Characterization of Atmospheric Turbulence as a Function of Altitude

NASA Technical Reports Server (NTRS)

Prasad, Suparnamaaya; Ivanco, Marie L.; Ivanco, Thomas G.; Ancel, Ersin

2017-01-01

A novel radical shape change approach (Aerodynamically Actuated Radical Shape Change concept) was developed at NASA Langley Research Center. The radical shape change enables cruise at a lowered altitude of 15-25,000 feet and yields substantial performance and environmental benefits. This lowered altitude has however raised concerns in the community due to past experience with decreased ride quality in this altitude range. This paper describes the analysis performed by the team to address this concern. First, the team assessed and quantified turbulence occurrence as a function of altitude. Secondly, the team analyzed the effects of turbulence gust loads on the proposed concept when compared to conventional aircraft.

A Parametric Model of Shoulder Articulation for Virtual Assessment of Space Suit Fit

NASA Technical Reports Server (NTRS)

Kim, K. Han; Young, Karen S.; Bernal, Yaritza; Boppana, Abhishektha; Vu, Linh Q.; Benson, Elizabeth A.; Jarvis, Sarah; Rajulu, Sudhakar L.

2016-01-01

Suboptimal suit fit is a known risk factor for crewmember shoulder injury. Suit fit assessment is however prohibitively time consuming and cannot be generalized across wide variations of body shapes and poses. In this work, we have developed a new design tool based on the statistical analysis of body shape scans. This tool is aimed at predicting the skin deformation and shape variations for any body size and shoulder pose for a target population. This new process, when incorporated with CAD software, will enable virtual suit fit assessments, predictively quantifying the contact volume, and clearance between the suit and body surface at reduced time and cost.

Edge Length and Surface Area of a Blank: Experimental Assessment of Measures, Size Predictions and Utility

PubMed Central

Dogandžić, Tamara; Braun, David R.; McPherron, Shannon P.

2015-01-01

Blank size and form represent one of the main sources of variation in lithic assemblages. They reflect economic properties of blanks and factors such as efficiency and use life. These properties require reliable measures of size, namely edge length and surface area. These measures, however, are not easily captured with calipers. Most attempts to quantify these features employ estimates; however, the efficacy of these estimations for measuring critical features such as blank surface area and edge length has never been properly evaluated. In addition, these parameters are even more difficult to acquire for retouched implements as their original size and hence indication of their previous utility have been lost. It has been suggested, in controlled experimental conditions, that two platform variables, platform thickness and exterior platform angle, are crucial in determining blank size and shape meaning that knappers can control the interaction between size and efficiency by selecting specific core angles and controlling where fracture is initiated. The robustness of these models has rarely been tested and confirmed in context other than controlled experiments. In this paper, we evaluate which currently employed caliper measurement methods result in the highest accuracy of size estimations of blanks, and we evaluate how platform variables can be used to indirectly infer aspects of size on retouched artifacts. Furthermore, we investigate measures of different platform management strategies that control the shape and size of artifacts. To investigate these questions, we created an experimental lithic assemblage, we digitized images to calculate 2D surface area and edge length, which are used as a point of comparison for the caliper measurements and additional analyses. The analysis of aspects of size determinations and the utility of blanks contributes to our understanding of the technological strategies of prehistoric knappers and what economic decisions they made during process of blank production. PMID:26332773

High-Speed Surface Reconstruction of Flying Birds Using Structured Light

NASA Astrophysics Data System (ADS)

Deetjen, Marc; Lentink, David

2017-11-01

Birds fly effectively through complex environments, and in order to understand the strategies that enable them to do so, we need to determine the shape and movement of their wings. Previous studies show that even small perturbations in wing shape have dramatic aerodynamic effects, but these shape changes have not been quantified automatically at high temporal and spatial resolutions. Hence, we developed a custom 3D surface mapping method which uses a high-speed camera to view a grid of stripes projected onto a flying bird. Because the light is binary rather than grayscale, and each frame is separately analyzed, this method can function at any frame rate with sufficient light. The method is automated, non-invasive, and able to measure a volume by simultaneously reconstructing from multiple views. We use this technique to reconstruct the 3D shape of the surface of a parrotlet during flapping flight at 3200 fps. We then analyze key dynamic parameters such as wing twist and angle of attack, and compute aerodynamic parameters such as lift and drag. While this novel system is designed to quantify bird wing shape and motion, it is adaptable for tracking other objects such as quickly deforming fish, especially those which are difficult to reconstruct using other 3D tracking methods. The presenter needs to leave by 3 pm on the final day of the conference (11/21) in order to make his flight. Please account for this in the scheduling if possible by scheduling the presentation earlier in the day or a different day.

Orthogonal decomposition of left ventricular remodeling in myocardial infarction.

PubMed

Zhang, Xingyu; Medrano-Gracia, Pau; Ambale-Venkatesh, Bharath; Bluemke, David A; Cowan, Brett R; Finn, J Paul; Kadish, Alan H; Lee, Daniel C; Lima, Joao A C; Young, Alistair A; Suinesiaputra, Avan

2017-03-01

Left ventricular size and shape are important for quantifying cardiac remodeling in response to cardiovascular disease. Geometric remodeling indices have been shown to have prognostic value in predicting adverse events in the clinical literature, but these often describe interrelated shape changes. We developed a novel method for deriving orthogonal remodeling components directly from any (moderately independent) set of clinical remodeling indices. Six clinical remodeling indices (end-diastolic volume index, sphericity, relative wall thickness, ejection fraction, apical conicity, and longitudinal shortening) were evaluated using cardiac magnetic resonance images of 300 patients with myocardial infarction, and 1991 asymptomatic subjects, obtained from the Cardiac Atlas Project. Partial least squares (PLS) regression of left ventricular shape models resulted in remodeling components that were optimally associated with each remodeling index. A Gram-Schmidt orthogonalization process, by which remodeling components were successively removed from the shape space in the order of shape variance explained, resulted in a set of orthonormal remodeling components. Remodeling scores could then be calculated that quantify the amount of each remodeling component present in each case. A one-factor PLS regression led to more decoupling between scores from the different remodeling components across the entire cohort, and zero correlation between clinical indices and subsequent scores. The PLS orthogonal remodeling components had similar power to describe differences between myocardial infarction patients and asymptomatic subjects as principal component analysis, but were better associated with well-understood clinical indices of cardiac remodeling. The data and analyses are available from www.cardiacatlas.org. © The Author 2017. Published by Oxford University Press.

Mixture quantification using PLS in plastic scintillation measurements.

PubMed

Bagán, H; Tarancón, A; Rauret, G; García, J F

2011-06-01

This article reports the capability of plastic scintillation (PS) combined with multivariate calibration (Partial least squares; PLS) to detect and quantify alpha and beta emitters in mixtures. While several attempts have been made with this purpose in mind using liquid scintillation (LS), no attempt was done using PS that has the great advantage of not producing mixed waste after the measurements are performed. Following this objective, ternary mixtures of alpha and beta emitters ((241)Am, (137)Cs and (90)Sr/(90)Y) have been quantified. Procedure optimisation has evaluated the use of the net spectra or the sample spectra, the inclusion of different spectra obtained at different values of the Pulse Shape Analysis parameter and the application of the PLS1 or PLS2 algorithms. The conclusions show that the use of PS+PLS2 applied to the sample spectra, without the use of any pulse shape discrimination, allows quantification of the activities with relative errors less than 10% in most of the cases. This procedure not only allows quantification of mixtures but also reduces measurement time (no blanks are required) and the application of this procedure does not require detectors that include the pulse shape analysis parameter. Copyright © 2011 Elsevier Ltd. All rights reserved.

Shape based segmentation of MRIs of the bones in the knee using phase and intensity information

NASA Astrophysics Data System (ADS)

Fripp, Jurgen; Bourgeat, Pierrick; Crozier, Stuart; Ourselin, Sébastien

2007-03-01

The segmentation of the bones from MR images is useful for performing subsequent segmentation and quantitative measurements of cartilage tissue. In this paper, we present a shape based segmentation scheme for the bones that uses texture features derived from the phase and intensity information in the complex MR image. The phase can provide additional information about the tissue interfaces, but due to the phase unwrapping problem, this information is usually discarded. By using a Gabor filter bank on the complex MR image, texture features (including phase) can be extracted without requiring phase unwrapping. These texture features are then analyzed using a support vector machine classifier to obtain probability tissue matches. The segmentation of the bone is fully automatic and performed using a 3D active shape model based approach driven using gradient and texture information. The 3D active shape model is automatically initialized using a robust affine registration. The approach is validated using a database of 18 FLASH MR images that are manually segmented, with an average segmentation overlap (Dice similarity coefficient) of 0.92 compared to 0.9 obtained using the classifier only.

Hakumyi Crater from LAMO

NASA Image and Video Library

2017-07-20

This close-up view of Hakumyi crater, as seen by NASA's Dawn spacecraft, provides insight into the origin of the small crater and lobe-shaped flow next to its southern rim. The sharp edges of these features indicate they are relatively recent with respect to the more subdued Hakumyi, which is 43 miles (70 kilometers) wide. The lobate flow ends in a tongue-shaped deposit. A more discrete feature slightly west (left) of the large lobe-shaped flow suggests an ancient or partially developed lobe. These kinds of flow features, which typically are found at high latitudes on Ceres, are expressions of what is termed "mass wasting," meaning the downslope movement of material. This process is initiated by slumping or detachment of material from crater rims. Here the process seems to have been triggered by small craters whose remnant shapes can be discerned at the top of each flow. Dawn took this image from its low-altitude mapping orbit, or LAMO, at a distance of about 240 miles (385 kilometers) above the surface. The center coordinates of this image are 52 degrees North latitude and 26 degrees east longitude. https://photojournal.jpl.nasa.gov/catalog/PIA21414

Shape memory-based actuators and release mechanisms therefrom

NASA Technical Reports Server (NTRS)

Vaidyanathan, Rajan (Inventor); Snyder, Daniel W. (Inventor); Schoenwald, David K. (Inventor); Lam, Nhin S. (Inventor); Watson, Daniel S. (Inventor); Krishnan, Vinu B. (Inventor); Noebe, Ronald D. (Inventor)

2012-01-01

SM-based actuators (110) and release mechanisms (100) therefrom and systems (500) including one or more release mechanisms (100). The actuators (110) comprise a SM member (118) and a deformable member (140) mechanically coupled to the SM member (118) which deforms upon a shape change of the SM member triggered by a phase transition of the SM member. A retaining element (160) is mechanically coupled to the deformable member (140), wherein the retaining element (160) moves upon the shape change. Release mechanism (100) include an actuator, a rotatable mechanism (120) including at least one restraining feature (178) for restraining rotational movement of the retaining element (160) before the shape change, and at least one spring (315) that provides at least one locked spring-loaded position when the retaining element is in the restraining feature and at least one released position that is reached when the retaining element is in a position beyond the restraining feature (178). The rotatable mechanism (120) includes at least one load-bearing protrusion (310). A hitch (400) is for mechanically coupling to the load, wherein the hitch is supported on the load bearing protrusion (310) when the rotatable mechanism is in the locked spring-loaded position.

3D shape recovery from image focus using Gabor features

NASA Astrophysics Data System (ADS)

Mahmood, Fahad; Mahmood, Jawad; Zeb, Ayesha; Iqbal, Javaid

2018-04-01

Recovering an accurate and precise depth map from a set of acquired 2-D image dataset of the target object each having different focus information is an ultimate goal of 3-D shape recovery. Focus measure algorithm plays an important role in this architecture as it converts the corresponding color value information into focus information which will be then utilized for recovering depth map. This article introduces Gabor features as focus measure approach for recovering depth map from a set of 2-D images. Frequency and orientation representation of Gabor filter features is similar to human visual system and normally applied for texture representation. Due to its little computational complexity, sharp focus measure curve, robust to random noise sources and accuracy, it is considered as superior alternative to most of recently proposed 3-D shape recovery approaches. This algorithm is deeply investigated on real image sequences and synthetic image dataset. The efficiency of the proposed scheme is also compared with the state of art 3-D shape recovery approaches. Finally, by means of two global statistical measures, root mean square error and correlation, we claim that this approach, in spite of simplicity, generates accurate results.

Damage methodology approach on a composite panel based on a combination of Fringe Projection and 2D Digital Image Correlation

NASA Astrophysics Data System (ADS)

Felipe-Sesé, Luis; Díaz, Francisco A.

2018-02-01

The recent improvement in accessibility to high speed digital cameras has enabled three dimensional (3D) vibration measurements employing full-field optical techniques. Moreover, there is a need to develop a cost-effective and non-destructive testing method to quantify the severity of damages arising from impacts and thus, enhance the service life. This effect is more interesting in composite structures since possible internal damage has low external manifestation. Those possible damages have been previously studied experimentally by using vibration testing. Namely, those analyses were focused on variations in the modal frequencies or, more recently, mode shapes variations employing punctual accelerometers or vibrometers. In this paper it is presented an alternative method to investigate the severity of damage on a composite structure and how the damage affects to its integrity through the analysis of the full field modal behaviour. In this case, instead of punctual measurements, displacement maps are analysed by employing a combination of FP + 2D-DIC during vibration experiments in an industrial component. In addition, to analyse possible mode shape changes, differences between damaged and undamaged specimens are studied by employing a recent methodology based on Adaptive Image Decomposition (AGMD) procedure. It will be demonstrated that AGMD Image decomposition procedure, which decompose the displacement field into shape descriptors, is capable to detect and quantify the differences between mode shapes. As an application example, the proposed approach has been evaluated on two large industrial components (car bonnets) made of short-fibre reinforced composite. Specifically, the evolution of normalized AGMD shape descriptors has been evaluated for three different components with different damage levels. Results demonstrate the potential of the presented approach making it possible to measure the severity of a structural damage by evaluating the mode shape based in the analysis of its shape descriptors.

A morphometric analysis of maxillary molar crowns of Middle-Late Pleistocene hominins.

PubMed

Bailey, Shara E

2004-09-01

This study explores the significance of shape differences in the maxillary first molar crowns of Neandertals and anatomically modern humans. It uses morphometric analysis to quantify these differences and to investigate how the orientation of major cusps, relative cusp base areas and occlusal polygon area influence crown shape. The aims of this study were to 1) quantify these data to test whether the tooth shapes of Neandertals and anatomically modern humans differ significantly and 2) to explore if either of the shapes is derived relative to earlier fossil hominins. Data were collected from digital occlusal photographs using image-processing software. Cusp angles, relative cusp base areas and occlusal polygon areas were measured on Neandertals (n=15), contemporary modern humans (n=62), Upper Paleolithic humans (n=6), early anatomically modern humans (n=3) and Homo erectus (n=3). Univariate and multivariate statistical tests were used to evaluate the differences between contemporary modern humans and Neandertals, while the much sparser data sets from the other fossil samples were included primarily for comparison. Statistically significant differences reflecting overall crown shape and internal placement of the crown apices were found. Neandertals are distinguished from contemporary humans by possessing maxillary first molars that 1) are markedly skewed; 2) possess a narrower distal segment of the occlusal polygon compared to the mesial segment; 3) possess a significantly smaller metacone and a significantly larger hypocone; and 4) possess a significantly smaller relative occlusal polygon area reflecting internally placed cusps. Differences in relative cusp base areas of the hypocone and metacone may contribute to the shape differences observed in Neandertals. However, early anatomically modern humans possessing a pattern of relative cusp base areas similar to Neandertals lack their unusual shape. That the morphology observed in non-Neandertal fossil hominins is more anatomically modern human-like than Neandertal-like, suggests that this distinctive morphology may be derived in Neandertals.

Inhibitory Competition between Shape Properties in Figure-Ground Perception

ERIC Educational Resources Information Center

Peterson, Mary A.; Skow, Emily

2008-01-01

Theories of figure-ground perception entail inhibitory competition between either low-level units (edge or feature units) or high-level shape properties. Extant computational models instantiate the 1st type of theory. The authors investigated a prediction of the 2nd type of theory: that shape properties suggested on the ground side of an edge are…

Perception Shapes Experience: The Influence of Actual and Perceived Classroom Environment Dimensions on Girls' Motivations for Science

ERIC Educational Resources Information Center

Spearman, Juliette; Watt, Helen M. G.

2013-01-01

The classroom environment influences students' academic outcomes, but it is often students' perceptions that shape their classroom experiences. Our study examined the extent to which observed classroom environment features shaped perceptions of the classroom, and explained levels of, and changes in, girls' motivation in junior secondary school…

Explaining the morphology of supernova remnant (SNR) 1987A with the jittering jets explosion mechanism

NASA Astrophysics Data System (ADS)

Bear, Ealeal; Soker, Noam

2018-07-01

We find that the remnant of supernova (SN) 1987A shares some morphological features with four supernova remnants (SNRs) that have signatures of shaping by jets, and from that we strengthen the claim that jets played a crucial role in the explosion of SN 1987A. Some of the morphological features appear also in planetary nebulae (PNe) where jets are observed. The clumpy ejecta brings us to support the claim that the jittering jets explosion mechanism can account for the structure of the remnant of SN 1987A, i.e. SNR 1987A. We conduct a preliminary attempt to quantify the fluctuations in the angular momentum of the mass that is accreted on to the newly born neutron star via an accretion disc or belt. The accretion disc/belt launches jets that explode core collapse supernovae (CCSNe). The relaxation time of the accretion disc/belt is comparable to the duration of a typicalfigu jet-launching episode in the jittering jets explosion mechanism, and hence the disc/belt has no time to relax. We suggest that this might explain the two unequal opposite jets that later lead to the unequal sides of the elongated structures in some SNRs of CCSNe. We reiterate our earlier call for a paradigm shift from a neutrino-driven explosion to a jet-driven explosion of CCSNe.

Adventitious sounds identification and extraction using temporal-spectral dominance-based features.

PubMed

Jin, Feng; Krishnan, Sridhar Sri; Sattar, Farook

2011-11-01

Respiratory sound (RS) signals carry significant information about the underlying functioning of the pulmonary system by the presence of adventitious sounds (ASs). Although many studies have addressed the problem of pathological RS classification, only a limited number of scientific works have focused on the analysis of the evolution of symptom-related signal components in joint time-frequency (TF) plane. This paper proposes a new signal identification and extraction method for various ASs based on instantaneous frequency (IF) analysis. The presented TF decomposition method produces a noise-resistant high definition TF representation of RS signals as compared to the conventional linear TF analysis methods, yet preserving the low computational complexity as compared to those quadratic TF analysis methods. The discarded phase information in conventional spectrogram has been adopted for the estimation of IF and group delay, and a temporal-spectral dominance spectrogram has subsequently been constructed by investigating the TF spreads of the computed time-corrected IF components. The proposed dominance measure enables the extraction of signal components correspond to ASs from noisy RS signal at high noise level. A new set of TF features has also been proposed to quantify the shapes of the obtained TF contours, and therefore strongly, enhances the identification of multicomponents signals such as polyphonic wheezes. An overall accuracy of 92.4±2.9% for the classification of real RS recordings shows the promising performance of the presented method.

Explaining the morphology of supernova remnant (SNR) 1987A with the jittering jets explosion mechanism

NASA Astrophysics Data System (ADS)

Bear, Ealeal; Soker, Noam

2018-04-01

We find that the remnant of supernova (SN) 1987A shares some morphological features with four supernova remnants (SNRs) that have signatures of shaping by jets, and from that we strengthen the claim that jets played a crucial role in the explosion of SN 1987A. Some of the morphological features appear also in planetary nebulae (PNe) where jets are observed. The clumpy ejecta bring us to support the claim that the jittering jets explosion mechanism can account for the structure of the remnant of SN 1987A, i.e., SNR 1987A. We conduct a preliminary attempt to quantify the fluctuations in the angular momentum of the mass that is accreted on to the newly born neutron star via an accretion disk or belt. The accretion disk/belt launches the jets that explode core collapse supernovae (CCSNe). The relaxation time of the accretion disk/belt is comparable to the duration of a typical jet-launching episode in the jittering jets explosion mechanism, and hence the disk/belt has no time to relax. We suggest that this might explain two unequal opposite jets that later lead to unequal sides of the elongated structures in some SNRs of CCSNe. We reiterate our earlier call for a paradigm shift from neutrino-driven explosion to a jet-driven explosion of CCSNe.

The influence of oceanographic features on the foraging behavior of the olive ridley sea turtle Lepidochelys olivacea along the Guiana coast

NASA Astrophysics Data System (ADS)

Chambault, Philippine; de Thoisy, Benoît; Heerah, Karine; Conchon, Anna; Barrioz, Sébastien; Dos Reis, Virginie; Berzins, Rachel; Kelle, Laurent; Picard, Baptiste; Roquet, Fabien; Le Maho, Yvon; Chevallier, Damien

2016-03-01

The circulation in the Western Equatorial Atlantic is characterized by a highly dynamic mesoscale activity that shapes the Guiana continental shelf. Olive ridley sea turtles (Lepidochelys olivacea) nesting in French Guiana cross this turbulent environment during their post-nesting migration. We studied how oceanographic and biological conditions drove the foraging behavior of 18 adult females, using satellite telemetry, remote sensing data (sea surface temperature, sea surface height, current velocity and euphotic depth), simulations of micronekton biomass (pelagic organisms) and in situ records (water temperature and salinity). The occurrence of foraging events throughout migration was located using Residence Time analysis, while an innovative proxy of the hunting time within a dive was used to identify and quantify foraging events during dives. Olive ridleys migrated northwestwards using the Guiana current and remained on the continental shelf at the edge of eddies formed by the North Brazil retroflection, an area characterized by low turbulence and high micronekton biomass. They performed mainly pelagic dives, hunting for an average 77% of their time. Hunting time within a dive increased with shallower euphotic depth and with lower water temperatures, and mean hunting depth increased with deeper thermocline. This is the first study to quantify foraging activity within dives in olive ridleys, and reveals the crucial role played by the thermocline on the foraging behavior of this carnivorous species. This study also provides novel and detailed data describing how turtles actively use oceanographic structures during post-nesting migration.

Mechanical signals at the base of a rat vibrissa: the effect of intrinsic vibrissa curvature and implications for tactile exploration

PubMed Central

Quist, Brian W.

2012-01-01

Rats actively tap and sweep their large mystacial vibrissae (whiskers) against objects to tactually explore their surroundings. When a vibrissa makes contact with an object, it bends, and this bending generates forces and bending moments at the vibrissa base. Researchers have only recently begun to quantify these mechanical variables. The present study quantifies the forces and bending moments at the vibrissa base with a quasi-static model of vibrissa deflection. The model was validated with experiments on real vibrissae. Initial simulations demonstrated that almost all vibrissa-object collisions during natural behavior will occur with the concave side of the vibrissa facing the object, and we therefore paid particular attention to the role of the vibrissa's intrinsic curvature in shaping the forces at the base. Both simulations and experiments showed that vibrissae with larger intrinsic curvatures will generate larger axial forces. Simulations also demonstrated that the range of forces and moments at the vibrissal base vary over approximately three orders of magnitude, depending on the location along the vibrissa at which object contact is made. Both simulations and experiments demonstrated that collisions in which the concave side of the vibrissa faces the object generate longer-duration contacts and larger net forces than collisions with the convex side. These results suggest that the orientation of the vibrissa's intrinsic curvature on the mystacial pad may increase forces during object contact and provide increased sensitivity to detailed surface features. PMID:22298834

Quantifying Ciliary Dynamics during Assembly Reveals Step-wise Waveform Maturation in Airway Cells.

PubMed

Oltean, Alina; Schaffer, Andrew J; Bayly, Philip V; Brody, Steven L

2018-05-31

Motile cilia are essential for clearance of particulates and pathogens from airways. For effective transport, ciliary motor proteins and axonemal structures interact to generate the rhythmic, propulsive bending, but the mechanisms that produce a dynamic waveform remain incompletely understood. Biomechanical measures of human cilia motion and their relationships to cilia assembly are needed to illuminate the biophysics of normal cilia function, and to quantify dysfunction in ciliopathies. To these ends, we analyzed cilia motion from high-speed video microscopy of ciliated cells sampled from human lung airways compared to primary-culture cells that undergo ciliogenesis in vitro. Quantitative assessment of waveform parameters showed variations in waveform shape between individual cilia; however, general trends in waveform parameters emerged, associated with progression of cilia length and stage of differentiation. When cilia emerged from cultured cells, beat frequency was initially elevated, then fell and remained stable as cilia lengthened. In contrast, the average bending amplitude and the ability to generate force gradually increased and eventually approached values observed in ex vivo samples. Dynein arm motor proteins DNAH5, DNAH9, DNAH11, and DNAH6 were localized within specific regions of the axoneme in the ex vivo cells; however distinct stages of in vitro waveform development identified by biomechanical features were associated with the progressive movement of dyneins to the appropriate proximal or distal sections of the cilium. These observations suggest that the step-wise variation in waveform development during ciliogenesis is dependent on cilia length and potentially outer dynein arm assembly.

The Geomorphology of Comet Churymov-Gerasimenko As Revealed By Rosetta/Osiris: Implicationsfor Past Collisional Evolution

NASA Astrophysics Data System (ADS)

Marchi, S.; A'Hearn, M. F.; Barbieri, C.; Barucci, M. A.; Besse, S.; Cremonese, G.; Ip, W. H.; Keller, H. U.; Koschny, D.; Kuhrt, E.; Lamy, P. L.; Marzari, F.; Massironi, M.; Pajola, M.; Rickman, H.; Rodrigo, R.; Sierks, H.; Snodgrass, C.; Thomas, N.; Vincent, J. B.

2014-12-01

In this paper we present the major geomorphological features of comet Churymov-Gerasimenko (C-G), with emphasis on those that may have formed through collisional processes. The C-G nucleus has been imaged with the Rosetta/OSIRIS camera system at varying spatial resolution. At the moment of this writing the maximum spatial resolution achieved is ~20 meter per pixel, and it will improve to reach the unprecedented centimeter-scale in November 2014. This resolution should allow us to identify and characterize pits, lineaments and blocks that could be the result of collisional evolution. Indeed, C-G has spent some 1000 years on orbits crossing the main asteroid belt, and a much longer time in the outer solar system. Collisions may have, therefore, shaped the morphology of the nucleus in various ways. Previously imaged Jupiter Family Comets (e.g., Tempel 1) show significant numbers of pits and lineaments, some of which could be due to collisions. Additional proposed formation mechanisms are related to cometary activity processes, such as volatile outgassing.In addition to small scale features, the overall shape of C-G could also provide insights into the role of collisional processes. A striking feature is that C-G's shape is that of a contact binary. Similar shapes have been observed on rocky asteroids (e.g., Itokawa) and are generally interpreted as an indication of their rubble pile nature. A possibility is that C-G underwent similar processes, and therefore it may be constituted by reaccumulated fragments ejected from a larger precursor. An alternative view is that the current shape is the result of inhomogeneous outgassing activity, which may have dug a ~1-km deep trench responsible for the apparent contact binary shape.The role of the various proposed formation mechanisms (collisional vs outgassing) for both small scale and global features will be investigated and their implications for the evolution of C-G will be discussed.

Mapping morphological shape as a high-dimensional functional curve

PubMed Central

Fu, Guifang; Huang, Mian; Bo, Wenhao; Hao, Han; Wu, Rongling

2018-01-01

Abstract Detecting how genes regulate biological shape has become a multidisciplinary research interest because of its wide application in many disciplines. Despite its fundamental importance, the challenges of accurately extracting information from an image, statistically modeling the high-dimensional shape and meticulously locating shape quantitative trait loci (QTL) affect the progress of this research. In this article, we propose a novel integrated framework that incorporates shape analysis, statistical curve modeling and genetic mapping to detect significant QTLs regulating variation of biological shape traits. After quantifying morphological shape via a radius centroid contour approach, each shape, as a phenotype, was characterized as a high-dimensional curve, varying as angle θ runs clockwise with the first point starting from angle zero. We then modeled the dynamic trajectories of three mean curves and variation patterns as functions of θ. Our framework led to the detection of a few significant QTLs regulating the variation of leaf shape collected from a natural population of poplar, Populus szechuanica var tibetica. This population, distributed at altitudes 2000–4500 m above sea level, is an evolutionarily important plant species. This is the first work in the quantitative genetic shape mapping area that emphasizes a sense of ‘function’ instead of decomposing the shape into a few discrete principal components, as the majority of shape studies do. PMID:28062411

Corrected Integral Shape Averaging Applied to Obstructive Sleep Apnea Detection from the Electrocardiogram

NASA Astrophysics Data System (ADS)

Boudaoud, S.; Rix, H.; Meste, O.; Heneghan, C.; O'Brien, C.

2007-12-01

We present a technique called corrected integral shape averaging (CISA) for quantifying shape and shape differences in a set of signals. CISA can be used to account for signal differences which are purely due to affine time warping (jitter and dilation/compression), and hence provide access to intrinsic shape fluctuations. CISA can also be used to define a distance between shapes which has useful mathematical properties; a mean shape signal for a set of signals can be defined, which minimizes the sum of squared shape distances of the set from the mean. The CISA procedure also allows joint estimation of the affine time parameters. Numerical simulations are presented to support the algorithm for obtaining the CISA mean and parameters. Since CISA provides a well-defined shape distance, it can be used in shape clustering applications based on distance measures such as[InlineEquation not available: see fulltext.]-means. We present an application in which CISA shape clustering is applied to P-waves extracted from the electrocardiogram of subjects suffering from sleep apnea. The resulting shape clustering distinguishes ECG segments recorded during apnea from those recorded during normal breathing with a sensitivity of[InlineEquation not available: see fulltext.] and specificity of[InlineEquation not available: see fulltext.].

Soft-lithography fabrication of microfluidic features using thiol-ene formulations.

PubMed

Ashley, John F; Cramer, Neil B; Davis, Robert H; Bowman, Christopher N

2011-08-21

In this work, a novel thiol-ene based photopolymerizable resin formulation was shown to exhibit highly desirable characteristics, such as low cure time and the ability to overcome oxygen inhibition, for the photolithographic fabrication of microfluidic devices. The feature fidelity, as well as various aspects of the feature shape and quality, were assessed as functions of various resin attributes, particularly the exposure conditions, initiator concentration and inhibitor to initiator ratio. An optical technique was utilized to evaluate the feature fidelity as well as the feature shape and quality. These results were used to optimize the thiol-ene resin formulation to produce high fidelity, high aspect ratio features without significant reductions in feature quality. For structures with aspect ratios below 2, little difference (<3%) in feature quality was observed between thiol-ene and acrylate based formulations. However, at higher aspect ratios, the thiol-ene resin exhibited significantly improved feature quality. At an aspect ratio of 8, raised feature quality for the thiol-ene resin was dramatically better than that achieved by using the acrylate resin. The use of the thiol-ene based resin enabled fabrication of a pinched-flow microfluidic device that has complex channel geometry, small (50 μm) channel dimensions, and high aspect ratio (14) features. This journal is © The Royal Society of Chemistry 2011

Quantify environmental effects in shaping the genetic diversification pattern of Oncomelania hupensis and its implications in surveillance of human susceptibility to Schistosomiasis

NASA Astrophysics Data System (ADS)

Liang, L.; Liao, J. S.; Gong, P.

2012-12-01

The transmission and distribution of schistomiasis, one of the most serious infectious diseases in East and Southeast Asia, tied closely to its unique intermediate snail host Oncomelania hupensis. The coevolved relationships of O. hupensis populations with its parasite Schistosoma japonisum are important in understanding the mechanism of disease spread. The genetic diversification pattern within population is supposed to influence the amount of parasite loads, and the susceptibility of snails determined the chance for human or mammals to get infected. Meanwhile, intervening environmental features had been long suggested to affect snail population dynamics and evolutionary trajectories of species. However, no comprehensive study referring to the above topics has been carried out on O.hupensis populations before. In this study, we reanalyzed published data in mainland China to evaluate whether human infection rate and genetic diversification patterns are related under natural environment. Besides that, we used an array of remotely sensed image derived environmental variables to quantify the amount of variation in population genetic structure that could be explained by those factors by landscape genetic analysis. We found that human schistosomiasis infection rate is positively correlated with intra-population genetic diversification and inter-population genetic exchange, which is contradictory with the Red Queen hypothesis. The patterns of genetic diversification are better revealed when non-Euclidean, environmentally determined distance measures or features are used in large heterogeneous landscape. The impact of stream connectivity on the snail inter-population genetic distances does not so evident unless taking wetlands into calculation, and thus control activities planned solely along river systems may be suboptimal. Climate features have a stronger impact on genetic structure of snails than topology, and precipitation seasonality dominates the highest proportion of explanation in genetic diversification. Different types of genes respond different to landscape effects, and it is suspected to be related with their evolution rate. Our study raises an important opportunity for public health decision making by combining geo-informatics and bio-informatics technology. Since the schistomiasis disease persistence, establishment, and intervention optimization are dependent on the genetic diversification pattern of O.hupensis populations, and that pattern is strongly environmentally determined, then certain key environmental features or landscape distances have the potential to inform public health decisions such as where to focus surveillance efforts, or disrupt the connection to stop the gene exchange. This is especially useful for Yangze River basin region under both extensive anthropogenic activities and climate change.

Empirical Investigations of the Opportunity Limits of Automatic Residential Electric Load Shaping

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

Cruickshank, Robert F.; Henze, Gregor P.; Balaji, Rajagopalan

Residential electric load shaping is often modeled as infrequent, utility-initiated, short-duration deferral of peak demand through direct load control. In contrast, modeled herein is the potential for frequent, transactive, intraday, consumer-configurable load shaping for storage-capable thermostatically controlled electric loads (TCLs), including refrigerators, freezers, and hot water heaters. Unique to this study are 28 months of 15-minute-interval observations of usage in 101 homes in the Pacific Northwest United States that specify exact start, duration, and usage patterns of approximately 25 submetered loads per home. The magnitudes of the load shift from voluntarily-participating TCL appliances are aggregated to form hourly upper andmore » lower load-shaping limits for the coordination of electrical generation, transmission, distribution, storage, and demand. Empirical data are statistically analyzed to define metrics that help quantify load-shaping opportunities.« less

Empirical Investigations of the Opportunity Limits of Automatic Residential Electric Load Shaping: Preprint

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

Cruickshank, Robert F.; Henze, Gregor P.; Balaji, Rajagopalan

Residential electric load shaping is often modeled as infrequent, utility-initiated, short-duration deferral of peak demand through direct load control. In contrast, modeled herein is the potential for frequent, transactive, intraday, consumer-configurable load shaping for storage-capable thermostatically controlled electric loads (TCLs), including refrigerators, freezers, and hot water heaters. Unique to this study are 28 months of 15-minute-interval observations of usage in 101 homes in the Pacific Northwest United States that specify exact start, duration, and usage patterns of approximately 25 submetered loads per home. The magnitudes of the load shift from voluntarily-participating TCL appliances are aggregated to form hourly upper andmore » lower load-shaping limits for the coordination of electrical generation, transmission, distribution, storage, and demand. Empirical data are statistically analyzed to define metrics that help quantify load-shaping opportunities.« less

Global point signature for shape analysis of carpal bones

NASA Astrophysics Data System (ADS)

Chaudhari, Abhijit J.; Leahy, Richard M.; Wise, Barton L.; Lane, Nancy E.; Badawi, Ramsey D.; Joshi, Anand A.

2014-02-01

We present a method based on spectral theory for the shape analysis of carpal bones of the human wrist. We represent the cortical surface of the carpal bone in a coordinate system based on the eigensystem of the two-dimensional Helmholtz equation. We employ a metric—global point signature (GPS)—that exploits the scale and isometric invariance of eigenfunctions to quantify overall bone shape. We use a fast finite-element-method to compute the GPS metric. We capitalize upon the properties of GPS representation—such as stability, a standard Euclidean (ℓ2) metric definition, and invariance to scaling, translation and rotation—to perform shape analysis of the carpal bones of ten women and ten men from a publicly-available database. We demonstrate the utility of the proposed GPS representation to provide a means for comparing shapes of the carpal bones across populations.

Recovery behaviour of shape memory polyurethane based laminates after thermoforming

NASA Astrophysics Data System (ADS)

Wu, Shuiliang; Xu, Wensen; Prasath Balamurugan, G.; Thompson, Michael R.; Nielsen, Kent E.; Brandys, Frank A.

2017-11-01

Shape memory polymers (SMPs) can be used to produce a new class of decorative films capable of improved formability and shape recovery in polymer laminates, which are increasingly being used for automotive, aerospace, construction and commercial applications. As a relatively new field there is little knowledge on the shape recovery behaviour of laminates with a SMP film and few methods of quantify that behaviour. The influences of different variables that affect the recovery behaviour of thermoplastic shape memory polyurethanes based laminates including ambient temperature (45 °C and 65 °C), material modulus, and adhesive strength were investigated after thermoforming, through both experimental and modelling methods. The empirical model assisted in identifying the contributions of the adhesive to transfer stresses, which dampened the recovery of the laminate with lower shear strength adhesives. Increasing ambient temperature and the film modulus increased both the final angle recovery ratios and recovery rates.

Shape reanalysis and sensitivities utilizing preconditioned iterative boundary solvers

NASA Technical Reports Server (NTRS)

Guru Prasad, K.; Kane, J. H.

1992-01-01

The computational advantages associated with the utilization of preconditined iterative equation solvers are quantified for the reanalysis of perturbed shapes using continuum structural boundary element analysis (BEA). Both single- and multi-zone three-dimensional problems are examined. Significant reductions in computer time are obtained by making use of previously computed solution vectors and preconditioners in subsequent analyses. The effectiveness of this technique is demonstrated for the computation of shape response sensitivities required in shape optimization. Computer times and accuracies achieved using the preconditioned iterative solvers are compared with those obtained via direct solvers and implicit differentiation of the boundary integral equations. It is concluded that this approach employing preconditioned iterative equation solvers in reanalysis and sensitivity analysis can be competitive with if not superior to those involving direct solvers.

Quantifying heterogeneity of lesion uptake in dynamic contrast enhanced MRI for breast cancer diagnosis

NASA Astrophysics Data System (ADS)

Karahaliou, A.; Vassiou, K.; Skiadopoulos, S.; Kanavou, T.; Yiakoumelos, A.; Costaridou, L.

2009-07-01

The current study investigates whether texture features extracted from lesion kinetics feature maps can be used for breast cancer diagnosis. Fifty five women with 57 breast lesions (27 benign, 30 malignant) were subjected to dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI) on 1.5T system. A linear-slope model was fitted pixel-wise to a representative lesion slice time series and fitted parameters were used to create three kinetic maps (wash out, time to peak enhancement and peak enhancement). 28 grey level co-occurrence matrices features were extracted from each lesion kinetic map. The ability of texture features per map in discriminating malignant from benign lesions was investigated using a Probabilistic Neural Network classifier. Additional classification was performed by combining classification outputs of most discriminating feature subsets from the three maps, via majority voting. The combined scheme outperformed classification based on individual maps achieving area under Receiver Operating Characteristics curve 0.960±0.029. Results suggest that heterogeneity of breast lesion kinetics, as quantified by texture analysis, may contribute to computer assisted tissue characterization in DCE-MRI.

A new feature extraction method and classification of early stage Parkinsonian rats with and without DBS treatment.

PubMed

Iravani, B; Towhidkhah, F; Roghani, M

2014-12-01

Parkinson Disease (PD) is one of the most common neural disorders worldwide. Different treatments such as medication and deep brain stimulation (DBS) have been proposed to minimize and control Parkinson's symptoms. DBS has been recognized as an effective approach to decrease most movement disorders of PD. In this study, a new method is proposed for feature extraction and separation of treated and untreated Parkinsonan rats. For this purpose, unilateral intrastriatal 6-hydroxydopamine (6-OHDA, 12.5 μg/5 μl of saline-ascorbate)-lesioned rats were treated with DBS. We performed a behavioral experiment and video tracked traveled trajectories of rats. Then, we investigated the effect of deep brain stimulation of subthalamus nucleus on their behavioral movements. Time, frequency and chaotic features of traveled trajectories were extracted. These features provide the ability to quantify the behavioral movements of Parkinsonian rats. The results showed that the traveled trajectories of untreated were more convoluted with the different time/frequency response. Compared to the traditional features used before to quantify the animals' behavior, the new features improved classification accuracy up to 80 % for untreated and treated rats.

Alignment of Iron Nanoparticles in a Magnetic Field Due to Shape Anisotropy

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

Radhakrishnan, Balasubramaniam; Nicholson, Don M; Eisenbach, Markus

2015-07-09

During high magnetic field processing there is evidence for alignment of non-spherical metallic particles above the Curie temperature in alloys with negligible magneto-crystalline anisotropy. The main driving force for alignment is the magnetic shape anisotropy. Current understanding of the phenomenon is not adequate to quantify the effect of particle size, aspect ratio, temperature and the magnetic field on particle alignment. We demonstrate a Monte Carlo approach coupled with size scaling to show the conditions under which alignment is possible.

Optimal approaches for inline sampling of organisms in ballast water: L-shaped vs. Straight sample probes

NASA Astrophysics Data System (ADS)

Wier, Timothy P.; Moser, Cameron S.; Grant, Jonathan F.; Riley, Scott C.; Robbins-Wamsley, Stephanie H.; First, Matthew R.; Drake, Lisa A.

2017-10-01

Both L-shaped ("L") and straight ("Straight") sample probes have been used to collect water samples from a main ballast line in land-based or shipboard verification testing of ballast water management systems (BWMS). A series of experiments was conducted to quantify and compare the sampling efficiencies of L and Straight sample probes. The findings from this research-that both L and Straight probes sample organisms with similar efficiencies-permit increased flexibility for positioning sample probes aboard ships.

An Universal and Easy-to-Use Model for the Pressure of Arbitrary-Shape 3D Multifunctional Integumentary Cardiac Membranes.

PubMed

Su, Yewang; Liu, Zhuangjian; Xu, Lizhi

2016-04-20

Recently developed concepts for 3D, organ-mounted electronics for cardiac applications require a universal and easy-to-use mechanical model to calculate the average pressure associated with operation of the device, which is crucial for evaluation of design efficacy and optimization. This work proposes a simple, accurate, easy-to-use, and universal model to quantify the average pressure for arbitrary-shape organs. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

The Boer-Mulders Transverse Momentum Distribution in the Pion and its Evolution in Lattice QCD

NASA Astrophysics Data System (ADS)

Engelhardt, M.; Musch, B.; Hägler, P.; Schäfer, A.; Negele, J.

2015-02-01

Starting from a definition of transverse momentum-dependent parton distributions (TMDs) in terms of hadronic matrix elements of a quark bilocal operator containing a staple-shaped gauge link, selected TMD observables can be evaluated within Lattice QCD. A TMD ratio describing the Boer-Mulders effect in the pion is investigated, with a particular emphasis on its evolution as a function of a Collins-Soper-type parameter which quantifies the proximity of the staple-shaped gauge links to the light cone.

Q-space analysis of light scattering by ice crystals

NASA Astrophysics Data System (ADS)

Heinson, Yuli W.; Maughan, Justin B.; Ding, Jiachen; Chakrabarti, Amitabha; Yang, Ping; Sorensen, Christopher M.

2016-12-01

Q-space analysis is applied to extensive simulations of the single-scattering properties of ice crystals with various habits/shapes over a range of sizes. The analysis uncovers features common to all the shapes: a forward scattering regime with intensity quantitatively related to the Rayleigh scattering by the particle and the internal coupling parameter, followed by a Guinier regime dependent upon the particle size, a complex power law regime with incipient two dimensional diffraction effects, and, in some cases, an enhanced backscattering regime. The effects of significant absorption on the scattering profile are also studied. The overall features found for the ice crystals are similar to features in scattering from same sized spheres.

Mesial temporal lobe epilepsy lateralization using SPHARM-based features of hippocampus and SVM

NASA Astrophysics Data System (ADS)

Esmaeilzadeh, Mohammad; Soltanian-Zadeh, Hamid; Jafari-Khouzani, Kourosh

2012-02-01

This paper improves the Lateralization (identification of the epileptogenic hippocampus) accuracy in Mesial Temporal Lobe Epilepsy (mTLE). In patients with this kind of epilepsy, usually one of the brain's hippocampi is the focus of the epileptic seizures, and resection of the seizure focus is the ultimate treatment to control or reduce the seizures. Moreover, the epileptogenic hippocampus is prone to shrinkage and deformation; therefore, shape analysis of the hippocampus is advantageous in the preoperative assessment for the Lateralization. The method utilized for shape analysis is the Spherical Harmonics (SPHARM). In this method, the shape of interest is decomposed using a set of bases functions and the obtained coefficients of expansion are the features describing the shape. To perform shape comparison and analysis, some pre- and post-processing steps such as "alignment of different subjects' hippocampi" and the "reduction of feature-space dimension" are required. To this end, first order ellipsoid is used for alignment. For dimension reduction, we propose to keep only the SPHARM coefficients with maximum conformity to the hippocampus shape. Then, using these coefficients of normal and epileptic subjects along with 3D invariants, specific lateralization indices are proposed. Consequently, the 1536 SPHARM coefficients of each subject are summarized into 3 indices, where for each index the negative (positive) value shows that the left (right) hippocampus is deformed (diseased). Employing these indices, the best achieved lateralization accuracy for clustering and classification algorithms are 85% and 92%, respectively. This is a significant improvement compared to the conventional volumetric method.

Support vector machine-based facial-expression recognition method combining shape and appearance

NASA Astrophysics Data System (ADS)

Han, Eun Jung; Kang, Byung Jun; Park, Kang Ryoung; Lee, Sangyoun

2010-11-01

Facial expression recognition can be widely used for various applications, such as emotion-based human-machine interaction, intelligent robot interfaces, face recognition robust to expression variation, etc. Previous studies have been classified as either shape- or appearance-based recognition. The shape-based method has the disadvantage that the individual variance of facial feature points exists irrespective of similar expressions, which can cause a reduction of the recognition accuracy. The appearance-based method has a limitation in that the textural information of the face is very sensitive to variations in illumination. To overcome these problems, a new facial-expression recognition method is proposed, which combines both shape and appearance information, based on the support vector machine (SVM). This research is novel in the following three ways as compared to previous works. First, the facial feature points are automatically detected by using an active appearance model. From these, the shape-based recognition is performed by using the ratios between the facial feature points based on the facial-action coding system. Second, the SVM, which is trained to recognize the same and different expression classes, is proposed to combine two matching scores obtained from the shape- and appearance-based recognitions. Finally, a single SVM is trained to discriminate four different expressions, such as neutral, a smile, anger, and a scream. By determining the expression of the input facial image whose SVM output is at a minimum, the accuracy of the expression recognition is much enhanced. The experimental results showed that the recognition accuracy of the proposed method was better than previous researches and other fusion methods.

SU-D-BRA-04: Computerized Framework for Marker-Less Localization of Anatomical Feature Points in Range Images Based On Differential Geometry Features for Image-Guided Radiation Therapy

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

Soufi, M; Arimura, H; Toyofuku, F

Purpose: To propose a computerized framework for localization of anatomical feature points on the patient surface in infrared-ray based range images by using differential geometry (curvature) features. Methods: The general concept was to reconstruct the patient surface by using a mathematical modeling technique for the computation of differential geometry features that characterize the local shapes of the patient surfaces. A region of interest (ROI) was firstly extracted based on a template matching technique applied on amplitude (grayscale) images. The extracted ROI was preprocessed for reducing temporal and spatial noises by using Kalman and bilateral filters, respectively. Next, a smooth patientmore » surface was reconstructed by using a non-uniform rational basis spline (NURBS) model. Finally, differential geometry features, i.e. the shape index and curvedness features were computed for localizing the anatomical feature points. The proposed framework was trained for optimizing shape index and curvedness thresholds and tested on range images of an anthropomorphic head phantom. The range images were acquired by an infrared ray-based time-of-flight (TOF) camera. The localization accuracy was evaluated by measuring the mean of minimum Euclidean distances (MMED) between reference (ground truth) points and the feature points localized by the proposed framework. The evaluation was performed for points localized on convex regions (e.g. apex of nose) and concave regions (e.g. nasofacial sulcus). Results: The proposed framework has localized anatomical feature points on convex and concave anatomical landmarks with MMEDs of 1.91±0.50 mm and 3.70±0.92 mm, respectively. A statistically significant difference was obtained between the feature points on the convex and concave regions (P<0.001). Conclusion: Our study has shown the feasibility of differential geometry features for localization of anatomical feature points on the patient surface in range images. The proposed framework might be useful for tasks involving feature-based image registration in range-image guided radiation therapy.« less

Linear and Non-Linear Visual Feature Learning in Rat and Humans

PubMed Central

Bossens, Christophe; Op de Beeck, Hans P.

2016-01-01

The visual system processes visual input in a hierarchical manner in order to extract relevant features that can be used in tasks such as invariant object recognition. Although typically investigated in primates, recent work has shown that rats can be trained in a variety of visual object and shape recognition tasks. These studies did not pinpoint the complexity of the features used by these animals. Many tasks might be solved by using a combination of relatively simple features which tend to be correlated. Alternatively, rats might extract complex features or feature combinations which are nonlinear with respect to those simple features. In the present study, we address this question by starting from a small stimulus set for which one stimulus-response mapping involves a simple linear feature to solve the task while another mapping needs a well-defined nonlinear combination of simpler features related to shape symmetry. We verified computationally that the nonlinear task cannot be trivially solved by a simple V1-model. We show how rats are able to solve the linear feature task but are unable to acquire the nonlinear feature. In contrast, humans are able to use the nonlinear feature and are even faster in uncovering this solution as compared to the linear feature. The implications for the computational capabilities of the rat visual system are discussed. PMID:28066201

A novel method for quantifying arm motion similarity.

PubMed

Zhi Li; Hauser, Kris; Roldan, Jay Ryan; Milutinovic, Dejan; Rosen, Jacob

2015-08-01

This paper proposes a novel task-independent method for quantifying arm motion similarity that can be applied to any kinematic/dynamic variable of interest. Given two arm motions for the same task, not necessarily with the same completion time, it plots the time-normalized curves against one another and generates four real-valued features. To validate these features we apply them to quantify the relationship between healthy and paretic arm motions of chronic stroke patients. Studying both unimanual and bimanual arm motions of eight chronic stroke patients, we find that inter-arm coupling that tends to synchronize the motions of both arms in bimanual motions, has a stronger effect at task-relevant joints than at task-irrelevant joints. It also revealed that the paretic arm suppresses the shoulder flexion of the non-paretic arm, while the latter encourages the shoulder rotation of the former.

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

Mouterde, Timothée; Lehoucq, Gaëlle; Xavier, Stéphane

Nanometre-scale features with special shapes impart a broad spectrum of unique properties to the surface of insects. These properties are essential for the animal’s survival, and include the low light reflectance of moth eyes, the oil repellency of springtail carapaces and the ultra-adhesive nature of palmtree bugs. Antireflective mosquito eyes and cicada wings are also known to exhibit some antifogging and self-cleaning properties. In all cases, the combination of small feature size and optimal shape provides exceptional surface properties. In this work, we investigate the underlying antifogging mechanism in model materials designed to mimic natural systems, and explain the importancemore » of the texture’s feature size and shape. While exposure to fog strongly compromises the water-repellency of hydrophobic structures, this failure can be minimized by scaling the texture down to nanosize. Furthermore, this undesired effect even becomes non-measurable if the hydrophobic surface consists of nanocones, which generate antifogging efficiency close to unity and water departure of droplets smaller than 2 μm.« less

Antifogging abilities of model nanotextures

DOE PAGES

Mouterde, Timothée; Lehoucq, Gaëlle; Xavier, Stéphane; ...

2017-02-27

Nanometre-scale features with special shapes impart a broad spectrum of unique properties to the surface of insects. These properties are essential for the animal’s survival, and include the low light reflectance of moth eyes, the oil repellency of springtail carapaces and the ultra-adhesive nature of palmtree bugs. Antireflective mosquito eyes and cicada wings are also known to exhibit some antifogging and self-cleaning properties. In all cases, the combination of small feature size and optimal shape provides exceptional surface properties. In this work, we investigate the underlying antifogging mechanism in model materials designed to mimic natural systems, and explain the importancemore » of the texture’s feature size and shape. While exposure to fog strongly compromises the water-repellency of hydrophobic structures, this failure can be minimized by scaling the texture down to nanosize. Furthermore, this undesired effect even becomes non-measurable if the hydrophobic surface consists of nanocones, which generate antifogging efficiency close to unity and water departure of droplets smaller than 2 μm.« less

Antifogging abilities of model nanotextures

NASA Astrophysics Data System (ADS)

Mouterde, Timothée; Lehoucq, Gaëlle; Xavier, Stéphane; Checco, Antonio; Black, Charles T.; Rahman, Atikur; Midavaine, Thierry; Clanet, Christophe; Quéré, David

2017-06-01

Nanometre-scale features with special shapes impart a broad spectrum of unique properties to the surface of insects. These properties are essential for the animal’s survival, and include the low light reflectance of moth eyes, the oil repellency of springtail carapaces and the ultra-adhesive nature of palmtree bugs. Antireflective mosquito eyes and cicada wings are also known to exhibit some antifogging and self-cleaning properties. In all cases, the combination of small feature size and optimal shape provides exceptional surface properties. In this work, we investigate the underlying antifogging mechanism in model materials designed to mimic natural systems, and explain the importance of the texture’s feature size and shape. While exposure to fog strongly compromises the water-repellency of hydrophobic structures, this failure can be minimized by scaling the texture down to nanosize. This undesired effect even becomes non-measurable if the hydrophobic surface consists of nanocones, which generate antifogging efficiency close to unity and water departure of droplets smaller than 2 μm.

Generation of Well-Defined Micro/Nanoparticles via Advanced Manufacturing Techniques for Therapeutic Delivery

PubMed Central

Zhang, Peipei; Xia, Junfei; Luo, Sida

2018-01-01

Micro/nanoparticles have great potentials in biomedical applications, especially for drug delivery. Existing studies identified that major micro/nanoparticle features including size, shape, surface property and component materials play vital roles in their in vitro and in vivo applications. However, a demanding challenge is that most conventional particle synthesis techniques such as emulsion can only generate micro/nanoparticles with a very limited number of shapes (i.e., spherical or rod shapes) and have very loose control in terms of particle sizes. We reviewed the advanced manufacturing techniques for producing micro/nanoparticles with precisely defined characteristics, emphasizing the use of these well-controlled micro/nanoparticles for drug delivery applications. Additionally, to illustrate the vital roles of particle features in therapeutic delivery, we also discussed how the above-mentioned micro/nanoparticle features impact in vitro and in vivo applications. Through this review, we highlighted the unique opportunities in generating controllable particles via advanced manufacturing techniques and the great potential of using these micro/nanoparticles for therapeutic delivery. PMID:29670013

Biosynthesis of Inorganic Nanoparticles: A Fresh Look at the Control of Shape, Size and Composition

PubMed Central

Dahoumane, Si Amar; Jeffryes, Clayton; Mechouet, Mourad; Agathos, Spiros N.

2017-01-01

Several methodologies have been devised for the design of nanomaterials. The “Holy Grail” for materials scientists is the cost-effective, eco-friendly synthesis of nanomaterials with controlled sizes, shapes and compositions, as these features confer to the as-produced nanocrystals unique properties making them appropriate candidates for valuable bio-applications. The present review summarizes published data regarding the production of nanomaterials with special features via sustainable methodologies based on the utilization of natural bioresources. The richness of the latter, the diversity of the routes adopted and the tuned experimental parameters have led to the fabrication of nanomaterials belonging to different chemical families with appropriate compositions and displaying interesting sizes and shapes. It is expected that these outstanding findings will encourage researchers and attract newcomers to continue and extend the exploration of possibilities offered by nature and the design of innovative and safer methodologies towards the synthesis of unique nanomaterials, possessing desired features and exhibiting valuable properties that can be exploited in a profusion of fields. PMID:28952493

A supervised learning approach for Crohn's disease detection using higher-order image statistics and a novel shape asymmetry measure.

PubMed

Mahapatra, Dwarikanath; Schueffler, Peter; Tielbeek, Jeroen A W; Buhmann, Joachim M; Vos, Franciscus M

2013-10-01

Increasing incidence of Crohn's disease (CD) in the Western world has made its accurate diagnosis an important medical challenge. The current reference standard for diagnosis, colonoscopy, is time-consuming and invasive while magnetic resonance imaging (MRI) has emerged as the preferred noninvasive procedure over colonoscopy. Current MRI approaches assess rate of contrast enhancement and bowel wall thickness, and rely on extensive manual segmentation for accurate analysis. We propose a supervised learning method for the identification and localization of regions in abdominal magnetic resonance images that have been affected by CD. Low-level features like intensity and texture are used with shape asymmetry information to distinguish between diseased and normal regions. Particular emphasis is laid on a novel entropy-based shape asymmetry method and higher-order statistics like skewness and kurtosis. Multi-scale feature extraction renders the method robust. Experiments on real patient data show that our features achieve a high level of accuracy and perform better than two competing methods.

A genome-wide association scan in admixed Latin Americans identifies loci influencing facial and scalp hair features

PubMed Central

Adhikari, Kaustubh; Fontanil, Tania; Cal, Santiago; Mendoza-Revilla, Javier; Fuentes-Guajardo, Macarena; Chacón-Duque, Juan-Camilo; Al-Saadi, Farah; Johansson, Jeanette A.; Quinto-Sanchez, Mirsha; Acuña-Alonzo, Victor; Jaramillo, Claudia; Arias, William; Barquera Lozano, Rodrigo; Macín Pérez, Gastón; Gómez-Valdés, Jorge; Villamil-Ramírez, Hugo; Hunemeier, Tábita; Ramallo, Virginia; Silva de Cerqueira, Caio C.; Hurtado, Malena; Villegas, Valeria; Granja, Vanessa; Gallo, Carla; Poletti, Giovanni; Schuler-Faccini, Lavinia; Salzano, Francisco M.; Bortolini, Maria-Cátira; Canizales-Quinteros, Samuel; Rothhammer, Francisco; Bedoya, Gabriel; Gonzalez-José, Rolando; Headon, Denis; López-Otín, Carlos; Tobin, Desmond J.; Balding, David; Ruiz-Linares, Andrés

2016-01-01

We report a genome-wide association scan in over 6,000 Latin Americans for features of scalp hair (shape, colour, greying, balding) and facial hair (beard thickness, monobrow, eyebrow thickness). We found 18 signals of association reaching genome-wide significance (P values 5 × 10−8 to 3 × 10−119), including 10 novel associations. These include novel loci for scalp hair shape and balding, and the first reported loci for hair greying, monobrow, eyebrow and beard thickness. A newly identified locus influencing hair shape includes a Q30R substitution in the Protease Serine S1 family member 53 (PRSS53). We demonstrate that this enzyme is highly expressed in the hair follicle, especially the inner root sheath, and that the Q30R substitution affects enzyme processing and secretion. The genome regions associated with hair features are enriched for signals of selection, consistent with proposals regarding the evolution of human hair. PMID:26926045

A novel automated spike sorting algorithm with adaptable feature extraction.

PubMed

Bestel, Robert; Daus, Andreas W; Thielemann, Christiane

2012-10-15

To study the electrophysiological properties of neuronal networks, in vitro studies based on microelectrode arrays have become a viable tool for analysis. Although in constant progress, a challenging task still remains in this area: the development of an efficient spike sorting algorithm that allows an accurate signal analysis at the single-cell level. Most sorting algorithms currently available only extract a specific feature type, such as the principal components or Wavelet coefficients of the measured spike signals in order to separate different spike shapes generated by different neurons. However, due to the great variety in the obtained spike shapes, the derivation of an optimal feature set is still a very complex issue that current algorithms struggle with. To address this problem, we propose a novel algorithm that (i) extracts a variety of geometric, Wavelet and principal component-based features and (ii) automatically derives a feature subset, most suitable for sorting an individual set of spike signals. Thus, there is a new approach that evaluates the probability distribution of the obtained spike features and consequently determines the candidates most suitable for the actual spike sorting. These candidates can be formed into an individually adjusted set of spike features, allowing a separation of the various shapes present in the obtained neuronal signal by a subsequent expectation maximisation clustering algorithm. Test results with simulated data files and data obtained from chick embryonic neurons cultured on microelectrode arrays showed an excellent classification result, indicating the superior performance of the described algorithm approach. Copyright © 2012 Elsevier B.V. All rights reserved.

Branch length similarity entropy-based descriptors for shape representation

NASA Astrophysics Data System (ADS)

Kwon, Ohsung; Lee, Sang-Hee

2017-11-01

In previous studies, we showed that the branch length similarity (BLS) entropy profile could be successfully used for the shape recognition such as battle tanks, facial expressions, and butterflies. In the present study, we proposed new descriptors, roundness, symmetry, and surface roughness, for the recognition, which are more accurate and fast in the computation than the previous descriptors. The roundness represents how closely a shape resembles to a circle, the symmetry characterizes how much one shape is similar with another when the shape is moved in flip, and the surface roughness quantifies the degree of vertical deviations of a shape boundary. To evaluate the performance of the descriptors, we used the database of leaf images with 12 species. Each species consisted of 10 - 20 leaf images and the total number of images were 160. The evaluation showed that the new descriptors successfully discriminated the leaf species. We believe that the descriptors can be a useful tool in the field of pattern recognition.

Genomic regions controlling shape variation in the first upper molar of the house mouse

PubMed Central

Pantalacci, Sophie; Turner, Leslie M; Steingrimsson, Eirikur; Renaud, Sabrina

2017-01-01

Numerous loci of large effect have been shown to underlie phenotypic variation between species. However, loci with subtle effects are presumably more frequently involved in microevolutionary processes but have rarely been discovered. We explore the genetic basis of shape variation in the first upper molar of hybrid mice between Mus musculus musculus and M. m. domesticus. We performed the first genome-wide association study for molar shape and used 3D surface morphometrics to quantify subtle variation between individuals. We show that many loci of small effect underlie phenotypic variation, and identify five genomic regions associated with tooth shape; one region contained the gene microphthalmia-associated transcription factor Mitf that has previously been associated with tooth malformations. Using a panel of five mutant laboratory strains, we show the effect of the Mitf gene on tooth shape. This is the first report of a gene causing subtle but consistent variation in tooth shape resembling variation in nature. PMID:29091026

Control chart pattern recognition using RBF neural network with new training algorithm and practical features.

PubMed

Addeh, Abdoljalil; Khormali, Aminollah; Golilarz, Noorbakhsh Amiri

2018-05-04

The control chart patterns are the most commonly used statistical process control (SPC) tools to monitor process changes. When a control chart produces an out-of-control signal, this means that the process has been changed. In this study, a new method based on optimized radial basis function neural network (RBFNN) is proposed for control chart patterns (CCPs) recognition. The proposed method consists of four main modules: feature extraction, feature selection, classification and learning algorithm. In the feature extraction module, shape and statistical features are used. Recently, various shape and statistical features have been presented for the CCPs recognition. In the feature selection module, the association rules (AR) method has been employed to select the best set of the shape and statistical features. In the classifier section, RBFNN is used and finally, in RBFNN, learning algorithm has a high impact on the network performance. Therefore, a new learning algorithm based on the bees algorithm has been used in the learning module. Most studies have considered only six patterns: Normal, Cyclic, Increasing Trend, Decreasing Trend, Upward Shift and Downward Shift. Since three patterns namely Normal, Stratification, and Systematic are very similar to each other and distinguishing them is very difficult, in most studies Stratification and Systematic have not been considered. Regarding to the continuous monitoring and control over the production process and the exact type detection of the problem encountered during the production process, eight patterns have been investigated in this study. The proposed method is tested on a dataset containing 1600 samples (200 samples from each pattern) and the results showed that the proposed method has a very good performance. Copyright © 2018 ISA. Published by Elsevier Ltd. All rights reserved.

Temporal resolution for the perception of features and conjunctions.

PubMed

Bodelón, Clara; Fallah, Mazyar; Reynolds, John H

2007-01-24

The visual system decomposes stimuli into their constituent features, represented by neurons with different feature selectivities. How the signals carried by these feature-selective neurons are integrated into coherent object representations is unknown. To constrain the set of possible integrative mechanisms, we quantified the temporal resolution of perception for color, orientation, and conjunctions of these two features. We find that temporal resolution is measurably higher for each feature than for their conjunction, indicating that time is required to integrate features into a perceptual whole. This finding places temporal limits on the mechanisms that could mediate this form of perceptual integration.

Ageing and feature binding in visual working memory: The role of presentation time.

PubMed

Rhodes, Stephen; Parra, Mario A; Logie, Robert H

2016-01-01

A large body of research has clearly demonstrated that healthy ageing is accompanied by an associative memory deficit. Older adults exhibit disproportionately poor performance on memory tasks requiring the retention of associations between items (e.g., pairs of unrelated words). In contrast to this robust deficit, older adults' ability to form and temporarily hold bound representations of an object's surface features, such as colour and shape, appears to be relatively well preserved. However, the findings of one set of experiments suggest that older adults may struggle to form temporary bound representations in visual working memory when given more time to study objects. However, these findings were based on between-participant comparisons across experimental paradigms. The present study directly assesses the role of presentation time in the ability of younger and older adults to bind shape and colour in visual working memory using a within-participant design. We report new evidence that giving older adults longer to study memory objects does not differentially affect their immediate memory for feature combinations relative to individual features. This is in line with a growing body of research suggesting that there is no age-related impairment in immediate memory for colour-shape binding.

Quantifying the Hierarchical Order in Self-Aligned Carbon Nanotubes from Atomic to Micrometer Scale.

PubMed

Meshot, Eric R; Zwissler, Darwin W; Bui, Ngoc; Kuykendall, Tevye R; Wang, Cheng; Hexemer, Alexander; Wu, Kuang Jen J; Fornasiero, Francesco

2017-06-27

Fundamental understanding of structure-property relationships in hierarchically organized nanostructures is crucial for the development of new functionality, yet quantifying structure across multiple length scales is challenging. In this work, we used nondestructive X-ray scattering to quantitatively map the multiscale structure of hierarchically self-organized carbon nanotube (CNT) "forests" across 4 orders of magnitude in length scale, from 2.0 Å to 1.5 μm. Fully resolved structural features include the graphitic honeycomb lattice and interlayer walls (atomic), CNT diameter (nano), as well as the greater CNT ensemble (meso) and large corrugations (micro). Correlating orientational order across hierarchical levels revealed a cascading decrease as we probed finer structural feature sizes with enhanced sensitivity to small-scale disorder. Furthermore, we established qualitative relationships for single-, few-, and multiwall CNT forest characteristics, showing that multiscale orientational order is directly correlated with number density spanning 10 9 -10 12 cm -2 , yet order is inversely proportional to CNT diameter, number of walls, and atomic defects. Lastly, we captured and quantified ultralow-q meridional scattering features and built a phenomenological model of the large-scale CNT forest morphology, which predicted and confirmed that these features arise due to microscale corrugations along the vertical forest direction. Providing detailed structural information at multiple length scales is important for design and synthesis of CNT materials as well as other hierarchically organized nanostructures.

Modeling Intrajunction Dispersion at a Well-Mixed Tidal River Junction

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

Wolfram, Phillip J.; Fringer, Oliver B.; Monsen, Nancy E.

In this paper, the relative importance of small-scale, intrajunction flow features such as shear layers, separation zones, and secondary flows on dispersion in a well-mixed tidal river junction is explored. A fully nonlinear, nonhydrostatic, and unstructured three-dimensional (3D) model is used to resolve supertidal dispersion via scalar transport at a well-mixed tidal river junction. Mass transport simulated in the junction is compared against predictions using a simple node-channel model to quantify the effects of small-scale, 3D intrajunction flow features on mixing and dispersion. The effects of three-dimensionality are demonstrated by quantifying the difference between two-dimensional (2D) and 3D model results.more » An intermediate 3D model that does not resolve the secondary circulation or the recirculating flow at the junction is also compared to the 3D model to quantify the relative sensitivity of mixing on intrajunction flow features. Resolution of complex flow features simulated by the full 3D model is not always necessary because mixing is primarily governed by bulk flow splitting due to the confluence–diffluence cycle. Finally, results in 3D are comparable to the 2D case for many flow pathways simulated, suggesting that 2D modeling may be reasonable for nonstratified and predominantly hydrostatic flows through relatively straight junctions, but not necessarily for the full junction network.« less

Modeling Intrajunction Dispersion at a Well-Mixed Tidal River Junction

DOE PAGES

Wolfram, Phillip J.; Fringer, Oliver B.; Monsen, Nancy E.; ...

2016-08-01

In this paper, the relative importance of small-scale, intrajunction flow features such as shear layers, separation zones, and secondary flows on dispersion in a well-mixed tidal river junction is explored. A fully nonlinear, nonhydrostatic, and unstructured three-dimensional (3D) model is used to resolve supertidal dispersion via scalar transport at a well-mixed tidal river junction. Mass transport simulated in the junction is compared against predictions using a simple node-channel model to quantify the effects of small-scale, 3D intrajunction flow features on mixing and dispersion. The effects of three-dimensionality are demonstrated by quantifying the difference between two-dimensional (2D) and 3D model results.more » An intermediate 3D model that does not resolve the secondary circulation or the recirculating flow at the junction is also compared to the 3D model to quantify the relative sensitivity of mixing on intrajunction flow features. Resolution of complex flow features simulated by the full 3D model is not always necessary because mixing is primarily governed by bulk flow splitting due to the confluence–diffluence cycle. Finally, results in 3D are comparable to the 2D case for many flow pathways simulated, suggesting that 2D modeling may be reasonable for nonstratified and predominantly hydrostatic flows through relatively straight junctions, but not necessarily for the full junction network.« less

Perceptual Learning Induces Persistent Attentional Capture by Nonsalient Shapes.

PubMed

Qu, Zhe; Hillyard, Steven A; Ding, Yulong

2017-02-01

Visual attention can be attracted automatically by salient simple features, but whether and how nonsalient complex stimuli such as shapes may capture attention in humans remains unclear. Here, we present strong electrophysiological evidence that a nonsalient shape presented among similar shapes can provoke a robust and persistent capture of attention as a consequence of extensive training in visual search (VS) for that shape. Strikingly, this attentional capture that followed perceptual learning (PL) was evident even when the trained shape was task-irrelevant, was presented outside the focus of top-down spatial attention, and was undetected by the observer. Moreover, this attentional capture persisted for at least 3-5 months after training had been terminated. This involuntary capture of attention was indexed by electrophysiological recordings of the N2pc component of the event-related brain potential, which was localized to ventral extrastriate visual cortex, and was highly predictive of stimulus-specific improvement in VS ability following PL. These findings provide the first evidence that nonsalient shapes can capture visual attention automatically following PL and challenge the prominent view that detection of feature conjunctions requires top-down focal attention. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

A Modeling Approach for Burn Scar Assessment Using Natural Features and Elastic Property

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

Tsap, L V; Zhang, Y; Goldgof, D B

2004-04-02

A modeling approach is presented for quantitative burn scar assessment. Emphases are given to: (1) constructing a finite element model from natural image features with an adaptive mesh, and (2) quantifying the Young's modulus of scars using the finite element model and the regularization method. A set of natural point features is extracted from the images of burn patients. A Delaunay triangle mesh is then generated that adapts to the point features. A 3D finite element model is built on top of the mesh with the aid of range images providing the depth information. The Young's modulus of scars ismore » quantified with a simplified regularization functional, assuming that the knowledge of scar's geometry is available. The consistency between the Relative Elasticity Index and the physician's rating based on the Vancouver Scale (a relative scale used to rate burn scars) indicates that the proposed modeling approach has high potentials for image-based quantitative burn scar assessment.« less

Diagnostic and prognostic value of amyloid PET textural and shape features: comparison with classical semi-quantitative rating in 760 patients from the ADNI-2 database.

PubMed

Ben Bouallègue, Fayçal; Vauchot, Fabien; Mariano-Goulart, Denis; Payoux, Pierre

2018-02-09

We evaluated the performance of amyloid PET textural and shape features in discriminating normal and Alzheimer's disease (AD) subjects, and in predicting conversion to AD in subjects with mild cognitive impairment (MCI) or significant memory concern (SMC). Subjects from the Alzheimer's Disease Neuroimaging Initiative with available baseline 18 F-florbetapir and T1-MRI scans were included. The cross-sectional cohort consisted of 181 controls and 148 AD subjects. The longitudinal cohort consisted of 431 SMC/MCI subjects, 85 of whom converted to AD during follow-up. PET images were normalized to MNI space and post-processed using in-house software. Relative retention indices (SUVr) were computed with respect to pontine, cerebellar, and composite reference regions. Several textural and shape features were extracted then combined using a support vector machine (SVM) to build a predictive model of AD conversion. Diagnostic and prognostic performance was evaluated using ROC analysis and survival analysis with the Cox proportional hazard model. The three SUVr and all the tested features effectively discriminated AD subjects in cross-sectional analysis (all p < 0.001). In longitudinal analysis, the variables with the highest prognostic value were composite SUVr (AUC 0.86; accuracy 81%), skewness (0.87; 83%), local minima (0.85; 79%), Geary's index (0.86; 81%), gradient norm maximal argument (0.83; 82%), and the SVM model (0.91; 86%). The adjusted hazard ratio for AD conversion was 5.5 for the SVM model, compared with 4.0, 2.6, and 3.8 for cerebellar, pontine and composite SUVr (all p < 0.001), indicating that appropriate amyloid textural and shape features predict conversion to AD with at least as good accuracy as classical SUVr.