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Sample records for 3d vascular network

  1. 3D microtumors in vitro supported by perfused vascular networks

    PubMed Central

    Sobrino, Agua; Phan, Duc T. T.; Datta, Rupsa; Wang, Xiaolin; Hachey, Stephanie J.; Romero-López, Mónica; Gratton, Enrico; Lee, Abraham P.; George, Steven C.; Hughes, Christopher C. W.

    2016-01-01

    There is a growing interest in developing microphysiological systems that can be used to model both normal and pathological human organs in vitro. This “organs-on-chips” approach aims to capture key structural and physiological characteristics of the target tissue. Here we describe in vitro vascularized microtumors (VMTs). This “tumor-on-a-chip” platform incorporates human tumor and stromal cells that grow in a 3D extracellular matrix and that depend for survival on nutrient delivery through living, perfused microvessels. Both colorectal and breast cancer cells grow vigorously in the platform and respond to standard-of-care therapies, showing reduced growth and/or regression. Vascular-targeting agents with different mechanisms of action can also be distinguished, and we find that drugs targeting only VEGFRs (Apatinib and Vandetanib) are not effective, whereas drugs that target VEGFRs, PDGFR and Tie2 (Linifanib and Cabozantinib) do regress the vasculature. Tumors in the VMT show strong metabolic heterogeneity when imaged using NADH Fluorescent Lifetime Imaging Microscopy and, compared to their surrounding stroma, many show a higher free/bound NADH ratio consistent with their known preference for aerobic glycolysis. The VMT platform provides a unique model for studying vascularized solid tumors in vitro. PMID:27549930

  2. 3D microtumors in vitro supported by perfused vascular networks.

    PubMed

    Sobrino, Agua; Phan, Duc T T; Datta, Rupsa; Wang, Xiaolin; Hachey, Stephanie J; Romero-López, Mónica; Gratton, Enrico; Lee, Abraham P; George, Steven C; Hughes, Christopher C W

    2016-08-23

    There is a growing interest in developing microphysiological systems that can be used to model both normal and pathological human organs in vitro. This "organs-on-chips" approach aims to capture key structural and physiological characteristics of the target tissue. Here we describe in vitro vascularized microtumors (VMTs). This "tumor-on-a-chip" platform incorporates human tumor and stromal cells that grow in a 3D extracellular matrix and that depend for survival on nutrient delivery through living, perfused microvessels. Both colorectal and breast cancer cells grow vigorously in the platform and respond to standard-of-care therapies, showing reduced growth and/or regression. Vascular-targeting agents with different mechanisms of action can also be distinguished, and we find that drugs targeting only VEGFRs (Apatinib and Vandetanib) are not effective, whereas drugs that target VEGFRs, PDGFR and Tie2 (Linifanib and Cabozantinib) do regress the vasculature. Tumors in the VMT show strong metabolic heterogeneity when imaged using NADH Fluorescent Lifetime Imaging Microscopy and, compared to their surrounding stroma, many show a higher free/bound NADH ratio consistent with their known preference for aerobic glycolysis. The VMT platform provides a unique model for studying vascularized solid tumors in vitro.

  3. Generation of Multi-Scale Vascular Network System within 3D Hydrogel using 3D Bio-Printing Technology.

    PubMed

    Lee, Vivian K; Lanzi, Alison M; Haygan, Ngo; Yoo, Seung-Schik; Vincent, Peter A; Dai, Guohao

    2014-09-01

    Although 3D bio-printing technology has great potential in creating complex tissues with multiple cell types and matrices, maintaining the viability of thick tissue construct for tissue growth and maturation after the printing is challenging due to lack of vascular perfusion. Perfused capillary network can be a solution for this issue; however, construction of a complete capillary network at single cell level using the existing technology is nearly impossible due to limitations in time and spatial resolution of the dispensing technology. To address the vascularization issue, we developed a 3D printing method to construct larger (lumen size of ~1mm) fluidic vascular channels and to create adjacent capillary network through a natural maturation process, thus providing a feasible solution to connect the capillary network to the large perfused vascular channels. In our model, microvascular bed was formed in between two large fluidic vessels, and then connected to the vessels by angiogenic sprouting from the large channel edge. Our bio-printing technology has a great potential in engineering vascularized thick tissues and vascular niches, as the vascular channels are simultaneously created while cells and matrices are printed around the channels in desired 3D patterns.

  4. Rapid casting of patterned vascular networks for perfusable engineered 3D tissues

    PubMed Central

    Miller, Jordan S.; Stevens, Kelly R.; Yang, Michael T.; Baker, Brendon M.; Nguyen, Duc-Huy T.; Cohen, Daniel M.; Toro, Esteban; Chen, Alice A.; Galie, Peter A.; Yu, Xiang; Chaturvedi, Ritika; Bhatia, Sangeeta N.; Chen, Christopher S.

    2012-01-01

    In the absence of perfusable vascular networks, three-dimensional (3D) engineered tissues densely populated with cells quickly develop a necrotic core [1]. Yet the lack of a general approach to rapidly construct such networks remains a major challenge for 3D tissue culture [2–4]. Here, we 3D printed rigid filament networks of carbohydrate glass, and used them as a cytocompatible sacrificial template in engineered tissues containing living cells to generate cylindrical networks which could be lined with endothelial cells and perfused with blood under high-pressure pulsatile flow. Because this simple vascular casting approach allows independent control of network geometry, endothelialization, and extravascular tissue, it is compatible with a wide variety of cell types, synthetic and natural extracellular matrices (ECMs), and crosslinking strategies. We also demonstrated that the perfused vascular channels sustained the metabolic function of primary rat hepatocytes in engineered tissue constructs that otherwise exhibited suppressed function in their core. PMID:22751181

  5. Morphogenesis of 3D vascular networks is regulated by tensile forces

    PubMed Central

    Rosenfeld, Dekel; Landau, Shira; Shandalov, Yulia; Raindel, Noa; Freiman, Alina; Shor, Erez; Blinder, Yaron; Vandenburgh, Herman H.; Mooney, David J.; Levenberg, Shulamit

    2016-01-01

    Understanding the forces controlling vascular network properties and morphology can enhance in vitro tissue vascularization and graft integration prospects. This work assessed the effect of uniaxial cell-induced and externally applied tensile forces on the morphology of vascular networks formed within fibroblast and endothelial cell-embedded 3D polymeric constructs. Force intensity correlated with network quality, as verified by inhibition of force and of angiogenesis-related regulators. Tensile forces during vessel formation resulted in parallel vessel orientation under static stretching and diagonal orientation under cyclic stretching, supported by angiogenic factors secreted in response to each stretch protocol. Implantation of scaffolds bearing network orientations matching those of host abdominal muscle tissue improved graft integration and the mechanical properties of the implantation site, a critical factor in repair of defects in this area. This study demonstrates the regulatory role of forces in angiogenesis and their capacities in vessel structure manipulation, which can be exploited to improve scaffolds for tissue repair. PMID:26951667

  6. 3D Printed Vascular Networks Enhance Viability in High-Volume Perfusion Bioreactor.

    PubMed

    Ball, Owen; Nguyen, Bao-Ngoc B; Placone, Jesse K; Fisher, John P

    2016-12-01

    There is a significant clinical need for engineered bone graft substitutes that can quickly, effectively, and safely repair large segmental bone defects. One emerging field of interest involves the growth of engineered bone tissue in vitro within bioreactors, the most promising of which are perfusion bioreactors. Using bioreactor systems, tissue engineered bone constructs can be fabricated in vitro. However, these engineered constructs lack inherent vasculature and once implanted, quickly develop a necrotic core, where no nutrient exchange occurs. Here, we utilized COMSOL modeling to predict oxygen diffusion gradients throughout aggregated alginate constructs, which allowed for the computer-aided design of printable vascular networks, compatible with any large tissue engineered construct cultured in a perfusion bioreactor. We investigated the effect of 3D printed macroscale vascular networks with various porosities on the viability of human mesenchymal stem cells in vitro, using both gas-permeable, and non-gas permeable bioreactor growth chamber walls. Through the use of 3D printed vascular structures in conjunction with a tubular perfusion system bioreactor, cell viability was found to increase by as much as 50% in the core of these constructs, with in silico modeling predicting construct viability at steady state.

  7. Construction of Large-Volume Tissue Mimics with 3D Functional Vascular Networks

    PubMed Central

    Kang, Tae-Yun; Hong, Jung Min; Jung, Jin Woo; Kang, Hyun-Wook; Cho, Dong-Woo

    2016-01-01

    We used indirect stereolithography (SL) to form inner-layered fluidic networks in a porous scaffold by introducing a hydrogel barrier on the luminal surface, then seeded the networks separately with human umbilical vein endothelial cells and human lung fibroblasts to form a tissue mimic containing vascular networks. The artificial vascular networks provided channels for oxygen transport, thus reducing the hypoxic volume and preventing cell death. The endothelium of the vascular networks significantly retarded the occlusion of channels during whole-blood circulation. The tissue mimics have the potential to be used as an in vitro platform to examine the physiologic and pathologic phenomena through vascular architecture. PMID:27228079

  8. Engineering interconnected 3D vascular networks in hydrogels using molded sodium alginate lattice as the sacrificial template.

    PubMed

    Wang, Xue-Ying; Jin, Zi-He; Gan, Bo-Wen; Lv, Song-Wei; Xie, Min; Huang, Wei-Hua

    2014-08-07

    Engineering 3D perfusable vascular networks in vitro and reproducing the physiological environment of blood vessels is very challenging for tissue engineering and investigation of blood vessel function. Here, we engineer interconnected 3D microfluidic vascular networks in hydrogels using molded sodium alginate lattice as sacrificial templates. The sacrificial templates are rapidly replicated in polydimethylsiloxane (PDMS) microfluidic chips via Ca⁺²-crosslinking and then fully encapsulated in hydrogels. Interconnected channels with well controlled size and morphology are obtained by dissolving the monolayer or multilayer templates with EDTA solution. The human umbilical vein endothelial cells (HUVECs) are cultured on the channel linings and proliferated to form vascular lumens. The strong cell adhesion capability and adaptive response to shear stress demonstrate the excellent cytocompatibility of both the template and template-sacrificing process. Furthermore, the barrier function of the endothelial layer is characterized and the results show that a confluent endothelial monolayer is fully developed. Taken together, we develop a facile and rapid approach to engineer a vascular model that could be potentially used in physiological studies of vascular functions and vascular tissue engineering.

  9. Simultaneous submicrometric 3D imaging of the micro-vascular network and the neuronal system in a mouse spinal cord.

    PubMed

    Fratini, Michela; Bukreeva, Inna; Campi, Gaetano; Brun, Francesco; Tromba, Giuliana; Modregger, Peter; Bucci, Domenico; Battaglia, Giuseppe; Spanò, Raffaele; Mastrogiacomo, Maddalena; Requardt, Herwig; Giove, Federico; Bravin, Alberto; Cedola, Alessia

    2015-02-17

    Faults in vascular (VN) and neuronal networks of spinal cord are responsible for serious neurodegenerative pathologies. Because of inadequate investigation tools, the lacking knowledge of the complete fine structure of VN and neuronal system represents a crucial problem. Conventional 2D imaging yields incomplete spatial coverage leading to possible data misinterpretation, whereas standard 3D computed tomography imaging achieves insufficient resolution and contrast. We show that X-ray high-resolution phase-contrast tomography allows the simultaneous visualization of three-dimensional VN and neuronal systems of ex-vivo mouse spinal cord at scales spanning from millimeters to hundreds of nanometers, with nor contrast agent nor sectioning and neither destructive sample-preparation. We image both the 3D distribution of micro-capillary network and the micrometric nerve fibers, axon-bundles and neuron soma. Our approach is very suitable for pre-clinical investigation of neurodegenerative pathologies and spinal-cord-injuries, in particular to resolve the entangled relationship between VN and neuronal system.

  10. Simultaneous submicrometric 3D imaging of the micro-vascular network and the neuronal system in a mouse spinal cord

    PubMed Central

    Fratini, Michela; Bukreeva, Inna; Campi, Gaetano; Brun, Francesco; Tromba, Giuliana; Modregger, Peter; Bucci, Domenico; Battaglia, Giuseppe; Spanò, Raffaele; Mastrogiacomo, Maddalena; Requardt, Herwig; Giove, Federico; Bravin, Alberto; Cedola, Alessia

    2015-01-01

    Faults in vascular (VN) and neuronal networks of spinal cord are responsible for serious neurodegenerative pathologies. Because of inadequate investigation tools, the lacking knowledge of the complete fine structure of VN and neuronal system represents a crucial problem. Conventional 2D imaging yields incomplete spatial coverage leading to possible data misinterpretation, whereas standard 3D computed tomography imaging achieves insufficient resolution and contrast. We show that X-ray high-resolution phase-contrast tomography allows the simultaneous visualization of three-dimensional VN and neuronal systems of ex-vivo mouse spinal cord at scales spanning from millimeters to hundreds of nanometers, with nor contrast agent nor sectioning and neither destructive sample-preparation. We image both the 3D distribution of micro-capillary network and the micrometric nerve fibers, axon-bundles and neuron soma. Our approach is very suitable for pre-clinical investigation of neurodegenerative pathologies and spinal-cord-injuries, in particular to resolve the entangled relationship between VN and neuronal system. PMID:25686728

  11. Simultaneous submicrometric 3D imaging of the micro-vascular network and the neuronal system in a mouse spinal cord

    NASA Astrophysics Data System (ADS)

    Fratini, Michela; Bukreeva, Inna; Campi, Gaetano; Brun, Francesco; Tromba, Giuliana; Modregger, Peter; Bucci, Domenico; Battaglia, Giuseppe; Spanò, Raffaele; Mastrogiacomo, Maddalena; Requardt, Herwig; Giove, Federico; Bravin, Alberto; Cedola, Alessia

    2015-02-01

    Faults in vascular (VN) and neuronal networks of spinal cord are responsible for serious neurodegenerative pathologies. Because of inadequate investigation tools, the lacking knowledge of the complete fine structure of VN and neuronal system represents a crucial problem. Conventional 2D imaging yields incomplete spatial coverage leading to possible data misinterpretation, whereas standard 3D computed tomography imaging achieves insufficient resolution and contrast. We show that X-ray high-resolution phase-contrast tomography allows the simultaneous visualization of three-dimensional VN and neuronal systems of ex-vivo mouse spinal cord at scales spanning from millimeters to hundreds of nanometers, with nor contrast agent nor sectioning and neither destructive sample-preparation. We image both the 3D distribution of micro-capillary network and the micrometric nerve fibers, axon-bundles and neuron soma. Our approach is very suitable for pre-clinical investigation of neurodegenerative pathologies and spinal-cord-injuries, in particular to resolve the entangled relationship between VN and neuronal system.

  12. Microfluidic vascular channels in gels using commercial 3D printers

    NASA Astrophysics Data System (ADS)

    Selvaganapathy, P. Ravi; Attalla, Rana

    2016-03-01

    This paper details the development of a three dimensional (3D) printing system with a modified microfluidic printhead used for the generation of complex vascular tissue scaffolds. The print-head features an integrated coaxial nozzle that allows the fabrication of hollow, calcium-polymerized alginate tubes that can easily be patterned using 3Dbioprinting techniques. This microfluidic design allows the incorporation of a wide range of scaffold materials as well as biological constituents such as cells, growth factors, and ECM material. With this setup, gel constructs with embedded arrays of hollow channels can be created and used as a potential substitute for blood vessel networks.

  13. Deep multi-scale location-aware 3D convolutional neural networks for automated detection of lacunes of presumed vascular origin.

    PubMed

    Ghafoorian, Mohsen; Karssemeijer, Nico; Heskes, Tom; Bergkamp, Mayra; Wissink, Joost; Obels, Jiri; Keizer, Karlijn; Leeuw, Frank-Erik de; Ginneken, Bram van; Marchiori, Elena; Platel, Bram

    2017-01-01

    Lacunes of presumed vascular origin (lacunes) are associated with an increased risk of stroke, gait impairment, and dementia and are a primary imaging feature of the small vessel disease. Quantification of lacunes may be of great importance to elucidate the mechanisms behind neuro-degenerative disorders and is recommended as part of study standards for small vessel disease research. However, due to the different appearance of lacunes in various brain regions and the existence of other similar-looking structures, such as perivascular spaces, manual annotation is a difficult, elaborative and subjective task, which can potentially be greatly improved by reliable and consistent computer-aided detection (CAD) routines. In this paper, we propose an automated two-stage method using deep convolutional neural networks (CNN). We show that this method has good performance and can considerably benefit readers. We first use a fully convolutional neural network to detect initial candidates. In the second step, we employ a 3D CNN as a false positive reduction tool. As the location information is important to the analysis of candidate structures, we further equip the network with contextual information using multi-scale analysis and integration of explicit location features. We trained, validated and tested our networks on a large dataset of 1075 cases obtained from two different studies. Subsequently, we conducted an observer study with four trained observers and compared our method with them using a free-response operating characteristic analysis. Shown on a test set of 111 cases, the resulting CAD system exhibits performance similar to the trained human observers and achieves a sensitivity of 0.974 with 0.13 false positives per slice. A feasibility study also showed that a trained human observer would considerably benefit once aided by the CAD system.

  14. 3-D vascular skeleton extraction and decomposition.

    PubMed

    Chowriappa, Ashirwad; Seo, Yong; Salunke, Sarthak; Mokin, Maxim; Kan, Peter; Scott, Peter

    2014-01-01

    We introduce a novel vascular skeleton extraction and decomposition technique for computer-assisted diagnosis and analysis. We start by addressing the problem of vascular decomposition as a cluster optimization problem and present a methodology for weighted convex approximations. Decomposed vessel structures are then grouped using the vessel skeleton, extracted using a Laplace-based operator. The method is validated using presegmented sections of vasculature archived for 98 aneurysms in 112 patients. We test first for vascular decomposition and next for vessel skeleton extraction. The proposed method produced promising results with an estimated 80.5% of the vessel sections correctly decomposed and 92.9% of the vessel sections having the correct number of skeletal branches, identified by a clinical radiological expert. Next, the method was validated on longitudinal study data from n = 4 subjects, where vascular skeleton extraction and decomposition was performed. Volumetric and surface area comparisons were made between expert segmented sections and the proposed approach on sections containing aneurysms. Results suggest that the method is able to detect changes in aneurysm volumes and surface areas close to that segmented by an expert.

  15. Microfluidic techniques for development of 3D vascularized tissue.

    PubMed

    Hasan, Anwarul; Paul, Arghya; Vrana, Nihal E; Zhao, Xin; Memic, Adnan; Hwang, Yu-Shik; Dokmeci, Mehmet R; Khademhosseini, Ali

    2014-08-01

    Development of a vascularized tissue is one of the key challenges for the successful clinical application of tissue engineered constructs. Despite the significant efforts over the last few decades, establishing a gold standard to develop three dimensional (3D) vascularized tissues has still remained far from reality. Recent advances in the application of microfluidic platforms to the field of tissue engineering have greatly accelerated the progress toward the development of viable vascularized tissue constructs. Numerous techniques have emerged to induce the formation of vascular structure within tissues which can be broadly classified into two distinct categories, namely (1) prevascularization-based techniques and (2) vasculogenesis and angiogenesis-based techniques. This review presents an overview of the recent advancements in the vascularization techniques using both approaches for generating 3D vascular structure on microfluidic platforms.

  16. Microfluidic Techniques for Development of 3D Vascularized Tissue

    PubMed Central

    Hasan, Anwarul; Paul, Arghya; Vrana, Nihal Engin; Zhao, Xin; Memic, Adnan; Hwang, Yu-Shik; Dokmeci, Mehmet R.; Khademhosseini, Ali

    2014-01-01

    Development of a vascularized tissue is one of the key challenges for the successful clinical application of tissue engineered constructs. Despite the significant efforts over the last few decades, establishing a gold standard to develop three dimensional (3D) vascularized tissues has still remained far from reality. Recent advances in the application of microfluidic platforms to the field of tissue engineering have greatly accelerated the progress toward the development of viable vascularized tissue constructs. Numerous techniques have emerged to induce the formation of vascular structure within tissues which can be broadly classified into two distinct categories, namely (1) prevascularization-based techniques and (2) vasculogenesis and angiogenesis-based techniques. This review presents an overview of the recent advancements in the vascularization techniques using both approaches for generating 3D vascular structure on microfluidic platforms. PMID:24906345

  17. Engineering design of artificial vascular junctions for 3D printing.

    PubMed

    Han, Xiaoxiao; Bibb, Richard; Harris, Russell

    2016-06-20

    Vascular vessels, including arteries, veins and capillaries, are being printed using additive manufacturing technologies, also known as 3D printing. This paper demonstrates that it is important to follow the vascular design by nature as close as possible when 3D printing artificial vascular branches. In previous work, the authors developed an algorithm of computational geometry for constructing smooth junctions for 3D printing. In this work, computational fluid dynamics (CFDs) is used to compare the wall shear stress and blood velocity field for the junctions of different designs. The CFD model can reproduce the expected wall shear stress at locations remote from the junction. For large vessels such as veins, it is shown that ensuring the smoothness of the junction and using smaller joining angles as observed in nature is very important to avoid high wall shear stress and recirculation. The issue is however less significant for capillaries. Large joining angles make no difference to the hemodynamic behavior, which is also consistent with the fact that most capillary junctions have large joining angles. The combination of the CFD analysis and the junction construction method form a complete design method for artificial vascular vessels that can be 3D printed using additive manufacturing technologies.

  18. Automated 3D vascular segmentation in CT hepatic venography

    NASA Astrophysics Data System (ADS)

    Fetita, Catalin; Lucidarme, Olivier; Preteux, Francoise

    2005-08-01

    In the framework of preoperative evaluation of the hepatic venous anatomy in living-donor liver transplantation or oncologic rejections, this paper proposes an automated approach for the 3D segmentation of the liver vascular structure from 3D CT hepatic venography data. The developed segmentation approach takes into account the specificities of anatomical structures in terms of spatial location, connectivity and morphometric properties. It implements basic and advanced morphological operators (closing, geodesic dilation, gray-level reconstruction, sup-constrained connection cost) in mono- and multi-resolution filtering schemes in order to achieve an automated 3D reconstruction of the opacified hepatic vessels. A thorough investigation of the venous anatomy including morphometric parameter estimation is then possible via computer-vision 3D rendering, interaction and navigation capabilities.

  19. 3D Reconstruction of Coronary Artery Vascular Smooth Muscle Cells

    PubMed Central

    Luo, Tong; Chen, Huan; Kassab, Ghassan S.

    2016-01-01

    Aims The 3D geometry of individual vascular smooth muscle cells (VSMCs), which are essential for understanding the mechanical function of blood vessels, are currently not available. This paper introduces a new 3D segmentation algorithm to determine VSMC morphology and orientation. Methods and Results A total of 112 VSMCs from six porcine coronary arteries were used in the analysis. A 3D semi-automatic segmentation method was developed to reconstruct individual VSMCs from cell clumps as well as to extract the 3D geometry of VSMCs. A new edge blocking model was introduced to recognize cell boundary while an edge growing was developed for optimal interpolation and edge verification. The proposed methods were designed based on Region of Interest (ROI) selected by user and interactive responses of limited key edges. Enhanced cell boundary features were used to construct the cell’s initial boundary for further edge growing. A unified framework of morphological parameters (dimensions and orientations) was proposed for the 3D volume data. Virtual phantom was designed to validate the tilt angle measurements, while other parameters extracted from 3D segmentations were compared with manual measurements to assess the accuracy of the algorithm. The length, width and thickness of VSMCs were 62.9±14.9μm, 4.6±0.6μm and 6.2±1.8μm (mean±SD). In longitudinal-circumferential plane of blood vessel, VSMCs align off the circumferential direction with two mean angles of -19.4±9.3° and 10.9±4.7°, while an out-of-plane angle (i.e., radial tilt angle) was found to be 8±7.6° with median as 5.7°. Conclusions A 3D segmentation algorithm was developed to reconstruct individual VSMCs of blood vessel walls based on optical image stacks. The results were validated by a virtual phantom and manual measurement. The obtained 3D geometries can be utilized in mathematical models and leads a better understanding of vascular mechanical properties and function. PMID:26882342

  20. A Novel Human Tissue-Engineered 3-D Functional Vascularized Cardiac Muscle Construct

    PubMed Central

    Valarmathi, Mani T.; Fuseler, John W.; Davis, Jeffrey M.; Price, Robert L.

    2017-01-01

    Organ tissue engineering, including cardiovascular tissues, has been an area of intense investigation. The major challenge to these approaches has been the inability to vascularize and perfuse the in vitro engineered tissue constructs. Attempts to provide oxygen and nutrients to the cells contained in the biomaterial constructs have had varying degrees of success. The aim of this current study is to develop a three-dimensional (3-D) model of vascularized cardiac tissue to examine the concurrent temporal and spatial regulation of cardiomyogenesis in the context of postnatal de novo vasculogenesis during stem cell cardiac regeneration. In order to achieve the above aim, we have developed an in vitro 3-D functional vascularized cardiac muscle construct using human induced pluripotent stem cell-derived embryonic cardiac myocytes (hiPSC-ECMs) and human mesenchymal stem cells (hMSCs). First, to generate the prevascularized scaffold, human cardiac microvascular endothelial cells (hCMVECs) and hMSCs were co-cultured onto a 3-D collagen cell carrier (CCC) for 7 days under vasculogenic culture conditions. In this milieu, hCMVECs/hMSCs underwent maturation, differentiation, and morphogenesis characteristic of microvessels, and formed extensive plexuses of vascular networks. Next, the hiPSC-ECMs and hMSCs were co-cultured onto this generated prevascularized CCCs for further 7 or 14 days in myogenic culture conditions. Finally, the vascular and cardiac phenotypic inductions were analyzed at the morphological, immunological, biochemical, molecular, and functional levels. Expression and functional analyses of the differentiated cells revealed neo-angiogenesis and neo-cardiomyogenesis. Thus, our unique 3-D co-culture system provided us the apt in vitro functional vascularized 3-D cardiac patch that can be utilized for cellular cardiomyoplasty. PMID:28194397

  1. A Novel Human Tissue-Engineered 3-D Functional Vascularized Cardiac Muscle Construct.

    PubMed

    Valarmathi, Mani T; Fuseler, John W; Davis, Jeffrey M; Price, Robert L

    2017-01-01

    Organ tissue engineering, including cardiovascular tissues, has been an area of intense investigation. The major challenge to these approaches has been the inability to vascularize and perfuse the in vitro engineered tissue constructs. Attempts to provide oxygen and nutrients to the cells contained in the biomaterial constructs have had varying degrees of success. The aim of this current study is to develop a three-dimensional (3-D) model of vascularized cardiac tissue to examine the concurrent temporal and spatial regulation of cardiomyogenesis in the context of postnatal de novo vasculogenesis during stem cell cardiac regeneration. In order to achieve the above aim, we have developed an in vitro 3-D functional vascularized cardiac muscle construct using human induced pluripotent stem cell-derived embryonic cardiac myocytes (hiPSC-ECMs) and human mesenchymal stem cells (hMSCs). First, to generate the prevascularized scaffold, human cardiac microvascular endothelial cells (hCMVECs) and hMSCs were co-cultured onto a 3-D collagen cell carrier (CCC) for 7 days under vasculogenic culture conditions. In this milieu, hCMVECs/hMSCs underwent maturation, differentiation, and morphogenesis characteristic of microvessels, and formed extensive plexuses of vascular networks. Next, the hiPSC-ECMs and hMSCs were co-cultured onto this generated prevascularized CCCs for further 7 or 14 days in myogenic culture conditions. Finally, the vascular and cardiac phenotypic inductions were analyzed at the morphological, immunological, biochemical, molecular, and functional levels. Expression and functional analyses of the differentiated cells revealed neo-angiogenesis and neo-cardiomyogenesis. Thus, our unique 3-D co-culture system provided us the apt in vitro functional vascularized 3-D cardiac patch that can be utilized for cellular cardiomyoplasty.

  2. Engineering 3D Cellularized Collagen Gels for Vascular Tissue Regeneration.

    PubMed

    Meghezi, Sébastien; Seifu, Dawit G; Bono, Nina; Unsworth, Larry; Mequanint, Kibret; Mantovani, Diego

    2015-06-16

    Synthetic materials are known to initiate clinical complications such as inflammation, stenosis, and infections when implanted as vascular substitutes. Collagen has been extensively used for a wide range of biomedical applications and is considered a valid alternative to synthetic materials due to its inherent biocompatibility (i.e., low antigenicity, inflammation, and cytotoxic responses). However, the limited mechanical properties and the related low hand-ability of collagen gels have hampered their use as scaffold materials for vascular tissue engineering. Therefore, the rationale behind this work was first to engineer cellularized collagen gels into a tubular-shaped geometry and second to enhance smooth muscle cells driven reorganization of collagen matrix to obtain tissues stiff enough to be handled. The strategy described here is based on the direct assembling of collagen and smooth muscle cells (construct) in a 3D cylindrical geometry with the use of a molding technique. This process requires a maturation period, during which the constructs are cultured in a bioreactor under static conditions (without applied external dynamic mechanical constraints) for 1 or 2 weeks. The "static bioreactor" provides a monitored and controlled sterile environment (pH, temperature, gas exchange, nutrient supply and waste removal) to the constructs. During culture period, thickness measurements were performed to evaluate the cells-driven remodeling of the collagen matrix, and glucose consumption and lactate production rates were measured to monitor the cells metabolic activity. Finally, mechanical and viscoelastic properties were assessed for the resulting tubular constructs. To this end, specific protocols and a focused know-how (manipulation, gripping, working in hydrated environment, and so on) were developed to characterize the engineered tissues.

  3. 3D printed biomimetic vascular phantoms for assessment of hyperspectral imaging systems

    NASA Astrophysics Data System (ADS)

    Wang, Jianting; Ghassemi, Pejhman; Melchiorri, Anthony; Ramella-Roman, Jessica; Mathews, Scott A.; Coburn, James; Sorg, Brian; Chen, Yu; Pfefer, Joshua

    2015-03-01

    The emerging technique of three-dimensional (3D) printing provides a revolutionary way to fabricate objects with biologically realistic geometries. Previously we have performed optical and morphological characterization of basic 3D printed tissue-simulating phantoms and found them suitable for use in evaluating biophotonic imaging systems. In this study we assess the potential for printing phantoms with irregular, image-defined vascular networks that can be used to provide clinically-relevant insights into device performance. A previously acquired fundus camera image of the human retina was segmented, embedded into a 3D matrix, edited to incorporate the tubular shape of vessels and converted into a digital format suitable for printing. A polymer with biologically realistic optical properties was identified by spectrophotometer measurements of several commercially available samples. Phantoms were printed with the retinal vascular network reproduced as ~1.0 mm diameter channels at a range of depths up to ~3 mm. The morphology of the printed vessels was verified by volumetric imaging with μ-CT. Channels were filled with hemoglobin solutions at controlled oxygenation levels, and the phantoms were imaged by a near-infrared hyperspectral reflectance imaging system. The effect of vessel depth on hemoglobin saturation estimates was studied. Additionally, a phantom incorporating the vascular network at two depths was printed and filled with hemoglobin solution at two different saturation levels. Overall, results indicated that 3D printed phantoms are useful for assessing biophotonic system performance and have the potential to form the basis of clinically-relevant standardized test methods for assessment of medical imaging modalities.

  4. Direct 3D bioprinting of perfusable vascular constructs using a blend bioink

    PubMed Central

    Jia, Weitao; Gungor-Ozkerim, P. Selcan; Zhang, Yu Shrike; Yue, Kan; Zhu, Kai; Liu, Wanjun; Pi, Qingment; Byambaa, Batzaya; Dokmeci, Mehmet Remzi; Shin, Su Ryon; Khademhosseini, Ali

    2017-01-01

    Despite the significant technological advancement in tissue engineering, challenges still exist towards the development of complex and fully functional tissue constructs that mimic their natural counterparts. To address these challenges, bioprinting has emerged as an enabling technology to create highly organized three-dimensional (3D) vascular networks within engineered tissue constructs to promote the transport of oxygen, nutrients, and waste products, which can hardly be realized using conventional microfabrication techniques. Here, we report the development of a versatile 3D bioprinting strategy that employs biomimetic biomaterials and an advanced extrusion system to deposit perfusable vascular structures with highly ordered arrangements in a single-step process. In particular, a specially designed cell-responsive bioink consisting of gelatin methacryloyl (GelMA), sodium alginate, and 4-arm poly(-ethylene glycol)-tetra-acrylate (PEGTA) was used in combination with a multilayered coaxial extrusion system to achieve direct 3D bioprinting. This blend bioink could be first ionically crosslinked by calcium ions followed by covalent photocrosslinking of GelMA and PEGTA to form stable constructs. The rheological properties of the bioink and the mechanical strengths of the resulting constructs were tuned by the introduction of PEGTA, which facilitated the precise deposition of complex multilayered 3D perfusable hollow tubes. This blend bioink also displayed favorable biological characteristics that supported the spreading and proliferation of encapsulated endothelial and stem cells in the bioprinted constructs, leading to the formation of biologically relevant, highly organized, perfusable vessels. These characteristics make this novel 3D bioprinting technique superior to conventional microfabrication or sacrificial templating approaches for fabrication of the perfusable vasculature. We envision that our advanced bioprinting technology and bioink formulation may also

  5. 3D fast wavelet network model-assisted 3D face recognition

    NASA Astrophysics Data System (ADS)

    Said, Salwa; Jemai, Olfa; Zaied, Mourad; Ben Amar, Chokri

    2015-12-01

    In last years, the emergence of 3D shape in face recognition is due to its robustness to pose and illumination changes. These attractive benefits are not all the challenges to achieve satisfactory recognition rate. Other challenges such as facial expressions and computing time of matching algorithms remain to be explored. In this context, we propose our 3D face recognition approach using 3D wavelet networks. Our approach contains two stages: learning stage and recognition stage. For the training we propose a novel algorithm based on 3D fast wavelet transform. From 3D coordinates of the face (x,y,z), we proceed to voxelization to get a 3D volume which will be decomposed by 3D fast wavelet transform and modeled after that with a wavelet network, then their associated weights are considered as vector features to represent each training face . For the recognition stage, an unknown identity face is projected on all the training WN to obtain a new vector features after every projection. A similarity score is computed between the old and the obtained vector features. To show the efficiency of our approach, experimental results were performed on all the FRGC v.2 benchmark.

  6. 3-D Ultrasound Vascularity Assessment for Breast Cancer Diagnosis

    DTIC Science & Technology

    1999-09-01

    34truth" data in classifying a given case as benign or malignant. Discrimination thresholds are determined using a linear Baysian classifier for the two...somewhat intuitive. The diagonal line represents a Baysian discrimination line, equally weighing the cost of false-positive and false-negative...threshold is lowered to produce a sensitivity of 100%. Using a 3D linear Baysian discrimination scheme (which produces a threshold plane), the average

  7. Heterogeneous force network in 3D cellularized collagen networks.

    PubMed

    Liang, Long; Jones, Christopher; Chen, Shaohua; Sun, Bo; Jiao, Yang

    2016-10-25

    Collagen networks play an important role in coordinating and regulating collective cellular dynamics via a number of signaling pathways. Here, we investigate the transmission of forces generated by contractile cells in 3D collagen-I networks. Specifically, the graph (bond-node) representations of collagen networks with collagen concentrations of 1, 2 and 4 mg ml(-1) are derived from confocal microscopy data and used to model the network microstructure. Cell contraction is modeled by applying correlated displacements at specific nodes of the network, representing the focal adhesion sites. A nonlinear elastic model is employed to characterize the mechanical behavior of individual fiber bundles including strain hardening during stretching and buckling under compression. A force-based relaxation method is employed to obtain equilibrium network configurations under cell contraction. We find that for all collagen concentrations, the majority of the forces are carried by a small number of heterogeneous force chains emitted from the contracting cells, which is qualitatively consistent with our experimental observations. The force chains consist of fiber segments that either possess a high degree of alignment before cell contraction or are aligned due to fiber reorientation induced by cell contraction. The decay of the forces along the force chains is significantly slower than the decay of radially averaged forces in the system, suggesting that the fibreous nature of biopolymer network structure can support long-range force transmission. The force chains emerge even at very small cell contractions, and the number of force chains increases with increasing cell contraction. At large cell contractions, the fibers close to the cell surface are in the nonlinear regime, and the nonlinear region is localized in a small neighborhood of the cell. In addition, the number of force chains increases with increasing collagen concentration, due to the larger number of focal adhesion sites

  8. Heterogeneous force network in 3D cellularized collagen networks

    NASA Astrophysics Data System (ADS)

    Liang, Long; Jones, Christopher; Chen, Shaohua; Sun, Bo; Jiao, Yang

    2016-12-01

    Collagen networks play an important role in coordinating and regulating collective cellular dynamics via a number of signaling pathways. Here, we investigate the transmission of forces generated by contractile cells in 3D collagen-I networks. Specifically, the graph (bond-node) representations of collagen networks with collagen concentrations of 1, 2 and 4 mg ml-1 are derived from confocal microscopy data and used to model the network microstructure. Cell contraction is modeled by applying correlated displacements at specific nodes of the network, representing the focal adhesion sites. A nonlinear elastic model is employed to characterize the mechanical behavior of individual fiber bundles including strain hardening during stretching and buckling under compression. A force-based relaxation method is employed to obtain equilibrium network configurations under cell contraction. We find that for all collagen concentrations, the majority of the forces are carried by a small number of heterogeneous force chains emitted from the contracting cells, which is qualitatively consistent with our experimental observations. The force chains consist of fiber segments that either possess a high degree of alignment before cell contraction or are aligned due to fiber reorientation induced by cell contraction. The decay of the forces along the force chains is significantly slower than the decay of radially averaged forces in the system, suggesting that the fibreous nature of biopolymer network structure can support long-range force transmission. The force chains emerge even at very small cell contractions, and the number of force chains increases with increasing cell contraction. At large cell contractions, the fibers close to the cell surface are in the nonlinear regime, and the nonlinear region is localized in a small neighborhood of the cell. In addition, the number of force chains increases with increasing collagen concentration, due to the larger number of focal adhesion sites

  9. Filament-length-controlled elasticity in 3D fiber networks.

    PubMed

    Broedersz, C P; Sheinman, M; Mackintosh, F C

    2012-02-17

    We present a model for disordered 3D fiber networks to study their linear and nonlinear elasticity. In contrast to previous 2D models, these 3D networks with binary crosslinks are underconstrained with respect to fiber stretching elasticity, suggesting that bending may dominate their response. We find that such networks exhibit a bending-dominated elastic regime controlled by fiber length, as well as a crossover to a stretch-dominated regime for long fibers. Finally, by extending the model to the nonlinear regime, we show that these networks become intrinsically nonlinear with a vanishing linear response regime in the limit of flexible or long filaments.

  10. Shape-based 3D vascular tree extraction for perforator flaps

    NASA Astrophysics Data System (ADS)

    Wen, Quan; Gao, Jean

    2005-04-01

    Perforator flaps have been increasingly used in the past few years for trauma and reconstructive surgical cases. With the thinned perforated flaps, greater survivability and decrease in donor site morbidity have been reported. Knowledge of the 3D vascular tree will provide insight information about the dissection region, vascular territory, and fascia levels. This paper presents a scheme of shape-based 3D vascular tree reconstruction of perforator flaps for plastic surgery planning, which overcomes the deficiencies of current existing shape-based interpolation methods by applying rotation and 3D repairing. The scheme has the ability to restore the broken parts of the perforator vascular tree by using a probability-based adaptive connection point search (PACPS) algorithm with minimum human intervention. The experimental results evaluated by both synthetic and 39 harvested cadaver perforator flaps show the promise and potential of proposed scheme for plastic surgery planning.

  11. Creating perfused functional vascular channels using 3D bio-printing technology.

    PubMed

    Lee, Vivian K; Kim, Diana Y; Ngo, Haygan; Lee, Young; Seo, Lan; Yoo, Seung-Schik; Vincent, Peter A; Dai, Guohao

    2014-09-01

    We developed a methodology using 3D bio-printing technology to create a functional in vitro vascular channel with perfused open lumen using only cells and biological matrices. The fabricated vasculature has a tight, confluent endothelium lining, presenting barrier function for both plasma protein and high-molecular weight dextran molecule. The fluidic vascular channel is capable of supporting the viability of tissue up to 5 mm in distance at 5 million cells/mL density under the physiological flow condition. In static-cultured vascular channels, active angiogenic sprouting from the vessel surface was observed whereas physiological flow strongly suppressed this process. Gene expression analysis was reported in this study to show the potential of this vessel model in vascular biology research. The methods have great potential in vascularized tissue fabrication using 3D bio-printing technology as the vascular channel is simultaneously created while cells and matrix are printed around the channel in desired 3D patterns. It can also serve as a unique experimental tool for investigating fundamental mechanisms of vascular remodeling with extracellular matrix and maturation process under 3D flow condition.

  12. Flow optimization in vascular networks.

    PubMed

    Cascaval, Radu C; D'Apice, Ciro; D'Arienzo, Maria Pia; Manzo, Rosanna

    2017-06-01

    The development of mathematical models for studying phenomena observed in vascular networks is very useful for its potential applications in medicine and physiology. Detailed 3D studies of flow in the arterial system based on the Navier-Stokes equations require high computational power, hence reduced models are often used, both for the constitutive laws and the spatial domain. In order to capture the major features of the phenomena under study, such as variations in arterial pressure and flow velocity, the resulting PDE models on networks require appropriate junction and boundary conditions. Instead of considering an entire network, we simulate portions of the latter and use inflow and outflow conditions which realistically mimic the behavior of the network that has not been included in the spatial domain. The resulting PDEs are solved numerically using a discontinuous Galerkin scheme for the spatial and Adam-Bashforth method for the temporal discretization. The aim is to study the effect of truncation to the flow in the root edge of a fractal network, the effect of adding or subtracting an edge to a given network, and optimal control strategies on a network in the event of a blockage or unblockage of an edge or of an entire subtree.

  13. Locally adaptive 2D-3D registration using vascular structure model for liver catheterization.

    PubMed

    Kim, Jihye; Lee, Jeongjin; Chung, Jin Wook; Shin, Yeong-Gil

    2016-03-01

    Two-dimensional-three-dimensional (2D-3D) registration between intra-operative 2D digital subtraction angiography (DSA) and pre-operative 3D computed tomography angiography (CTA) can be used for roadmapping purposes. However, through the projection of 3D vessels, incorrect intersections and overlaps between vessels are produced because of the complex vascular structure, which makes it difficult to obtain the correct solution of 2D-3D registration. To overcome these problems, we propose a registration method that selects a suitable part of a 3D vascular structure for a given DSA image and finds the optimized solution to the partial 3D structure. The proposed algorithm can reduce the registration errors because it restricts the range of the 3D vascular structure for the registration by using only the relevant 3D vessels with the given DSA. To search for the appropriate 3D partial structure, we first construct a tree model of the 3D vascular structure and divide it into several subtrees in accordance with the connectivity. Then, the best matched subtree with the given DSA image is selected using the results from the coarse registration between each subtree and the vessels in the DSA image. Finally, a fine registration is conducted to minimize the difference between the selected subtree and the vessels of the DSA image. In experimental results obtained using 10 clinical datasets, the average distance errors in the case of the proposed method were 2.34±1.94mm. The proposed algorithm converges faster and produces more correct results than the conventional method in evaluations on patient datasets.

  14. Modeling Computer Communication Networks in a Realistic 3D Environment

    DTIC Science & Technology

    2010-03-01

    visualization in OPNET . . . . . . . . . . . . 13 6. Sample NetViz visualization . . . . . . . . . . . . . . . . . . . 15 7. Realistic 3D terrains...scenario in OPNET . . . 19 10. OPNET 3DNV only displays connectivity . . . . . . . . . . . . 29 11. The digitally connected battlefield...confirmation tool 12 OPNET Optimized Network Evaluation Tool . . . . . . . . . . . . 13 NetViz Network Visualization

  15. Vascular Structure Identification in Intraoperative 3D Contrast-Enhanced Ultrasound Data

    PubMed Central

    Ilunga-Mbuyamba, Elisee; Avina-Cervantes, Juan Gabriel; Lindner, Dirk; Cruz-Aceves, Ivan; Arlt, Felix; Chalopin, Claire

    2016-01-01

    In this paper, a method of vascular structure identification in intraoperative 3D Contrast-Enhanced Ultrasound (CEUS) data is presented. Ultrasound imaging is commonly used in brain tumor surgery to investigate in real time the current status of cerebral structures. The use of an ultrasound contrast agent enables to highlight tumor tissue, but also surrounding blood vessels. However, these structures can be used as landmarks to estimate and correct the brain shift. This work proposes an alternative method for extracting small vascular segments close to the tumor as landmark. The patient image dataset involved in brain tumor operations includes preoperative contrast T1MR (cT1MR) data and 3D intraoperative contrast enhanced ultrasound data acquired before (3D-iCEUSstart) and after (3D-iCEUSend) tumor resection. Based on rigid registration techniques, a preselected vascular segment in cT1MR is searched in 3D-iCEUSstart and 3D-iCEUSend data. The method was validated by using three similarity measures (Normalized Gradient Field, Normalized Mutual Information and Normalized Cross Correlation). Tests were performed on data obtained from ten patients overcoming a brain tumor operation and it succeeded in nine cases. Despite the small size of the vascular structures, the artifacts in the ultrasound images and the brain tissue deformations, blood vessels were successfully identified. PMID:27070610

  16. Construction of programmable interconnected 3D microfluidic networks

    NASA Astrophysics Data System (ADS)

    Hunziker, Patrick R.; Wolf, Marc P.; Wang, Xueya; Zhang, Bei; Marsch, Stephan; Salieb-Beugelaar, Georgette B.

    2015-02-01

    Microfluidic systems represent a key-enabling platform for novel diagnostic tools for use at the point-of-care in clinical contexts as well as for evolving single cell diagnostics. The design of 3D microfluidic systems is an active field of development, but construction of true interconnected 3D microfluidic networks is still a challenge, in particular when the goal is rapid prototyping, accurate design and flexibility. We report a novel approach for the construction of programmable 3D microfluidic systems consisting of modular 3D template casting of interconnected threads to allow user-programmable flow paths and examine its structural characteristics and its modular function. To overcome problems with thread template casting reported in the literature, low-surface-energy polymer threads were used, that allow solvent-free production. Connected circular channels with excellent roundness and low diameter variability were created. Variable channel termination allowed programming a flow path on-the-fly, thus rendering the resulting 3D microfluidic systems highly customizable even after production. Thus, construction of programmable/reprogrammable fully 3D microfluidic systems by template casting of a network of interconnecting threads is feasible, leads to high-quality and highly reproducible, complex 3D geometries.

  17. Flow effects of blood constitutive equations in 3D models of vascular anomalies

    NASA Astrophysics Data System (ADS)

    Neofytou, Panagiotis; Tsangaris, Sokrates

    2006-06-01

    The effects of different blood rheological models are investigated numerically utilizing two three- dimensional (3D) models of vascular anomalies, namely a stenosis and an abdominal aortic aneurysm model. The employed CFD code incorporates the SIMPLE scheme in conjunction with the finite-volume method with collocated arrangement of variables. The approximation of the convection terms is carried out using the QUICK differencing scheme, whereas the code enables also multi-block computations, which are useful in order to cope with the two-block grid structure of the current computational domain. Three non-Newtonian models are employed, namely the Casson, Power-Law and Quemada models, which have been introduced in the past for modelling the rheological behaviour of blood and cover both the viscous as well as the two-phase character of blood. In view of the haemodynamical mechanisms related to abnormalities in the vascular network and the role of the wall shear stress in initiating and further developing of arterial diseases, the present study focuses on the 3D flow field and in particular on the distribution as well as on both low and high values of the wall shear stress in the vicinity of the anomaly. Finally, a comparison is made between the effects of each rheological model on the aforementioned parameters. Results show marked differences between simulating blood as Newtonian and non-Newtonian fluid and furthermore the Power-Law model exhibits different behaviour in all cases compared to the other models whereas Quemada and Casson models exhibit similar behaviour in the case of the stenosis but different behaviour in the case of the aneurysm.

  18. 3D quantitative phase imaging of neural networks using WDT

    NASA Astrophysics Data System (ADS)

    Kim, Taewoo; Liu, S. C.; Iyer, Raj; Gillette, Martha U.; Popescu, Gabriel

    2015-03-01

    White-light diffraction tomography (WDT) is a recently developed 3D imaging technique based on a quantitative phase imaging system called spatial light interference microscopy (SLIM). The technique has achieved a sub-micron resolution in all three directions with high sensitivity granted by the low-coherence of a white-light source. Demonstrations of the technique on single cell imaging have been presented previously; however, imaging on any larger sample, including a cluster of cells, has not been demonstrated using the technique. Neurons in an animal body form a highly complex and spatially organized 3D structure, which can be characterized by neuronal networks or circuits. Currently, the most common method of studying the 3D structure of neuron networks is by using a confocal fluorescence microscope, which requires fluorescence tagging with either transient membrane dyes or after fixation of the cells. Therefore, studies on neurons are often limited to samples that are chemically treated and/or dead. WDT presents a solution for imaging live neuron networks with a high spatial and temporal resolution, because it is a 3D imaging method that is label-free and non-invasive. Using this method, a mouse or rat hippocampal neuron culture and a mouse dorsal root ganglion (DRG) neuron culture have been imaged in order to see the extension of processes between the cells in 3D. Furthermore, the tomogram is compared with a confocal fluorescence image in order to investigate the 3D structure at synapses.

  19. In vitro development of zebrafish vascular networks.

    PubMed

    Ibrahim, Muhammad; Richardson, Michael K

    2017-02-09

    A major limitation to culturing tissues and organs is the lack of a functional vascular network in vitro. The zebrafish possess many useful properties which makes it a promising model for such studies. Unfortunately, methods of culturing endothelial cells from this species are not well characterised. Here, we tried two methods (embryoid body culture and organ explants from transgenic zebrafish kdrl:GFP embryos) to develop in vitro vascular networks. In the kdrl:GFP line, endothelial cells expresses green fluorescent protein, which allows to track the vascular development in live cultures. We found that embryoid bodies showed significantly longer and wider branches of connected endothelial cells when grown in a microfluidic system than in static culture. Similarly, sprouting of kdrl:GFP(+) cells from the tissue explants was observed in a 3D hydrogel matrix. This study is a step towards the development of zebrafish vascular networks in vitro.

  20. Defining vascular signatures of malignant hepatic masses: role of MDCT with 3D rendering.

    PubMed

    Ahmed, Sameer; Johnson, Pamela T; Fishman, Elliot K

    2013-08-01

    Malignant hepatic masses, both primary and metastatic lesions, have characteristic CT appearances and enhancement patterns. Owing to advances in CT resolution, high-quality vascular maps can be generated with 3D rendering tools to aid hepatic mass evaluation. These renderings enable identification of neovascularity, which is critical for distinguishing malignant from benign lesions, and facilitate identification of small hyperenhancing malignant hepatic tumors. In this review, CT features of malignant hepatic masses are discussed in conjunction with a demonstration of the role for 3D vascular mapping.

  1. 3D Network Analysis for Indoor Space Applications

    NASA Astrophysics Data System (ADS)

    Tsiliakou, E.; Dimopoulou, E.

    2016-10-01

    Indoor space differs from outdoor environments, since it is characterized by a higher level of structural complexity, geometry, as well as topological relations. Indoor space can be considered as the most important component in a building's conceptual modelling, on which applications such as indoor navigation, routing or analysis are performed. Therefore, the conceptual meaning of sub spaces or the activities taking place in physical building boundaries (e.g. walls), require the comprehension of the building's indoor hierarchical structure. The scope of this paper is to perform 3D network analysis in a building's interior and is structured as follows: In Section 1 the definition of indoor space is provided and indoor navigation requirements are analysed. Section 2 describes the processes of indoor space modeling, as well as routing applications. In Section 3, a case study is examined involving a 3D building model generated in CityEngine (exterior shell) and ArcScene (interior parts), in which the use of commercially available software tools (ArcGIS, ESRI), in terms of indoor routing and 3D network analysis, are explored. The fundamentals of performing 3D analysis with the ArcGIS Network Analyst extension were tested. Finally a geoprocessing model was presented, which was specifically designed to be used to interactively find the best route in ArcScene. The paper ends with discussion and concluding remarks on Section 4.

  2. Constructing 3D microtubule networks using holographic optical trapping

    PubMed Central

    Bergman, J.; Osunbayo, O.; Vershinin, M.

    2015-01-01

    Developing abilities to assemble nanoscale structures is a major scientific and engineering challenge. We report a technique which allows precise positioning and manipulation of individual rigid filaments, enabling construction of custom-designed 3D filament networks. This approach uses holographic optical trapping (HOT) for nano-positioning and microtubules (MTs) as network building blocks. MTs are desirable engineering components due to their high aspect ratio, rigidity, and their ability to serve as substrate for directed nano-transport, reflecting their roles in the eukaryotic cytoskeleton. The 3D architecture of MT cytoskeleton is a significant component of its function, however experimental tools to study the roles of this geometric complexity in a controlled environment have been lacking. We demonstrate the broad capabilities of our system by building a self-supporting 3D MT-based nanostructure and by conducting a MT-based transport experiment on a dynamically adjustable 3D MT intersection. Our methodology not only will advance studies of cytoskeletal networks (and associated processes such as MT-based transport) but will also likely find use in engineering nanostructures and devices. PMID:26657337

  3. Robust method for extracting the pulmonary vascular trees from 3D MDCT images

    NASA Astrophysics Data System (ADS)

    Taeprasartsit, Pinyo; Higgins, William E.

    2011-03-01

    Segmentation of pulmonary blood vessels from three-dimensional (3D) multi-detector CT (MDCT) images is important for pulmonary applications. This work presents a method for extracting the vascular trees of the pulmonary arteries and veins, applicable to both contrast-enhanced and unenhanced 3D MDCT image data. The method finds 2D elliptical cross-sections and evaluates agreement of these cross-sections in consecutive slices to find likely cross-sections. It next employs morphological multiscale analysis to separate vessels from adjoining airway walls. The method then tracks the center of the likely cross-sections to connect them to the pulmonary vessels in the mediastinum and forms connected vascular trees spanning both lungs. A ground-truth study indicates that the method was able to detect on the order of 98% of the vessel branches having diameter >= 3.0 mm. The extracted vascular trees can be utilized for the guidance of safe bronchoscopic biopsy.

  4. Digital 3D reconstructions using histological serial sections of lung tissue including the alveolar capillary network.

    PubMed

    Grothausmann, Roman; Knudsen, Lars; Ochs, Matthias; Mühlfeld, Christian

    2017-02-01

    Grothausmann R, Knudsen L, Ochs M, Mühlfeld C. Digital 3D reconstructions using histological serial sections of lung tissue including the alveolar capillary network. Am J Physiol Lung Cell Mol Physiol 312: L243-L257, 2017. First published December 2, 2016; doi:10.1152/ajplung.00326.2016-The alveolar capillary network (ACN) provides an enormously large surface area that is necessary for pulmonary gas exchange. Changes of the ACN during normal or pathological development or in pulmonary diseases are of great functional impact and warrant further analysis. Due to the complexity of the three-dimensional (3D) architecture of the ACN, 2D approaches are limited in providing a comprehensive impression of the characteristics of the normal ACN or the nature of its alterations. Stereological methods offer a quantitative way to assess the ACN in 3D in terms of capillary volume, surface area, or number but lack a 3D visualization to interpret the data. Hence, the necessity to visualize the ACN in 3D and to correlate this with data from the same set of data arises. Such an approach requires a large sample volume combined with a high resolution. Here, we present a technically simple and cost-efficient approach to create 3D representations of lung tissue ranging from bronchioles over alveolar ducts and alveoli up to the ACN from more than 1 mm sample extent to a resolution of less than 1 μm. The method is based on automated image acquisition of serially sectioned epoxy resin-embedded lung tissue fixed by vascular perfusion and subsequent automated digital reconstruction and analysis of the 3D data. This efficient method may help to better understand mechanisms of vascular development and pathology of the lung.

  5. Voxel-coding method for quantification of vascular structure from 3D images

    NASA Astrophysics Data System (ADS)

    Soltanian-Zadeh, Hamid; Shahrokni, Ali; Zoroofi, Reza A.

    2001-05-01

    This paper presents an image processing method for information extraction from 3D images of vasculature. It automates the study of vascular structures by extracting quantitative information such as skeleton, length, diameter, and vessel-to- tissue ratio for different vessels as well as their branches. Furthermore, it generates 3D visualization of vessels based on desired anatomical characteristics such as vessel diameter or 3D connectivity. Steps of the proposed approach are as follows. (1) Preprocessing, in which intensity adjustment, optimal thresholding, and median filtering are done. (2) 3D thinning, in which medial axis and skeleton of the vessels are found. (3) Branch labeling, in which different branches are identified and each voxel is assigned to the corresponding branch. (4) Quantitation, in which length of each branch is estimated, based on the number of voxels assigned to it, and its diameter is calculated using the medial axis direction. (5) Visualization, in which vascular structure is shown in 3D, using color coding and surface rendering methods. We have tested and evaluated the proposed algorithms using simulated images of multi-branch vessels and real confocal microscopic images of the vessels in rat brains. Experimental results illustrate performance of the methods and usefulness of the results for medical image analysis applications.

  6. Engineering of functional, perfusable 3D microvascular networks on a chip.

    PubMed

    Kim, Sudong; Lee, Hyunjae; Chung, Minhwan; Jeon, Noo Li

    2013-04-21

    Generating perfusable 3D microvessels in vitro is an important goal for tissue engineering, as well as for reliable modelling of blood vessel function. To date, in vitro blood vessel models have not been able to accurately reproduce the dynamics and responses of endothelial cells to grow perfusable and functional 3D vascular networks. Here we describe a microfluidic-based platform whereby we model natural cellular programs found during normal development and angiogenesis to form perfusable networks of intact 3D microvessels as well as tumor vasculatures based on the spatially controlled co-culture of endothelial cells with stromal fibroblasts, pericytes or cancer cells. The microvessels possess the characteristic morphological and biochemical markers of in vivo blood vessels, and exhibit strong barrier function and long-term stability. An open, unobstructed microvasculature allows the delivery of nutrients, chemical compounds, biomolecules and cell suspensions, as well as flow-induced mechanical stimuli into the luminal space of the endothelium, and exhibits faithful responses to physiological shear stress as demonstrated by cytoskeleton rearrangement and increased nitric oxide synthesis. This simple and versatile platform provides a wide range of applications in vascular physiology studies as well as in developing vascularized organ-on-a-chip and human disease models for pharmaceutical screening.

  7. 3-D flame temperature field reconstruction with multiobjective neural network

    NASA Astrophysics Data System (ADS)

    Wan, Xiong; Gao, Yiqing; Wang, Yuanmei

    2003-02-01

    A novel 3-D temperature field reconstruction method is proposed in this paper, which is based on multiwavelength thermometry and Hopfield neural network computed tomography. A mathematical model of multi-wavelength thermometry is founded, and a neural network algorithm based on multiobjective optimization is developed. Through computer simulation and comparison with the algebraic reconstruction technique (ART) and the filter back-projection algorithm (FBP), the reconstruction result of the new method is discussed in detail. The study shows that the new method always gives the best reconstruction results. At last, temperature distribution of a section of four peaks candle flame is reconstructed with this novel method.

  8. Hydrogels for Engineering of Perfusable Vascular Networks.

    PubMed

    Liu, Juan; Zheng, Huaiyuan; Poh, Patrina S P; Machens, Hans-Günther; Schilling, Arndt F

    2015-07-14

    Hydrogels are commonly used biomaterials for tissue engineering. With their high-water content, good biocompatibility and biodegradability they resemble the natural extracellular environment and have been widely used as scaffolds for 3D cell culture and studies of cell biology. The possible size of such hydrogel constructs with embedded cells is limited by the cellular demand for oxygen and nutrients. For the fabrication of large and complex tissue constructs, vascular structures become necessary within the hydrogels to supply the encapsulated cells. In this review, we discuss the types of hydrogels that are currently used for the fabrication of constructs with embedded vascular networks, the key properties of hydrogels needed for this purpose and current techniques to engineer perfusable vascular structures into these hydrogels. We then discuss directions for future research aimed at engineering of vascularized tissue for implantation.

  9. Hydrogels for Engineering of Perfusable Vascular Networks

    PubMed Central

    Liu, Juan; Zheng, Huaiyuan; Poh, Patrina S. P.; Machens, Hans-Günther; Schilling, Arndt F.

    2015-01-01

    Hydrogels are commonly used biomaterials for tissue engineering. With their high-water content, good biocompatibility and biodegradability they resemble the natural extracellular environment and have been widely used as scaffolds for 3D cell culture and studies of cell biology. The possible size of such hydrogel constructs with embedded cells is limited by the cellular demand for oxygen and nutrients. For the fabrication of large and complex tissue constructs, vascular structures become necessary within the hydrogels to supply the encapsulated cells. In this review, we discuss the types of hydrogels that are currently used for the fabrication of constructs with embedded vascular networks, the key properties of hydrogels needed for this purpose and current techniques to engineer perfusable vascular structures into these hydrogels. We then discuss directions for future research aimed at engineering of vascularized tissue for implantation. PMID:26184185

  10. 3D actin network centerline extraction with multiple active contours.

    PubMed

    Xu, Ting; Vavylonis, Dimitrios; Huang, Xiaolei

    2014-02-01

    Fluorescence microscopy is frequently used to study two and three dimensional network structures formed by cytoskeletal polymer fibers such as actin filaments and actin cables. While these cytoskeletal structures are often dilute enough to allow imaging of individual filaments or bundles of them, quantitative analysis of these images is challenging. To facilitate quantitative, reproducible and objective analysis of the image data, we propose a semi-automated method to extract actin networks and retrieve their topology in 3D. Our method uses multiple Stretching Open Active Contours (SOACs) that are automatically initialized at image intensity ridges and then evolve along the centerlines of filaments in the network. SOACs can merge, stop at junctions, and reconfigure with others to allow smooth crossing at junctions of filaments. The proposed approach is generally applicable to images of curvilinear networks with low SNR. We demonstrate its potential by extracting the centerlines of synthetic meshwork images, actin networks in 2D Total Internal Reflection Fluorescence Microscopy images, and 3D actin cable meshworks of live fission yeast cells imaged by spinning disk confocal microscopy. Quantitative evaluation of the method using synthetic images shows that for images with SNR above 5.0, the average vertex error measured by the distance between our result and ground truth is 1 voxel, and the average Hausdorff distance is below 10 voxels.

  11. Large optical 3D MEMS switches in access networks

    NASA Astrophysics Data System (ADS)

    Madamopoulos, Nicholas; Kaman, Volkan; Yuan, Shifu; Jerphagnon, Olivier; Helkey, Roger; Bowers, John E.

    2007-09-01

    Interest is high among residential customers and businesses for advanced, broadband services such as fast Internet access, electronic commerce, video-on-demand, digital broadcasting, teleconferencing and telemedicine. In order to satisfy such growing demand of end-customers, access technologies such as fiber-to-the-home/building (FTTH/B) are increasingly being deployed. Carriers can reduce maintenance costs, minimize technology obsolescence and introduce new services easily by reducing active elements in the fiber access network. However, having a passive optical network (PON) also introduces operational and maintenance challenges. Increased diagnostic monitoring capability of the network becomes a necessity as more and more fibers are provisioned to deliver services to the end-customers. This paper demonstrates the clear advantages that large 3D optical MEMS switches offer in solving these access network problems. The advantages in preventative maintenance, remote monitoring, test and diagnostic capability are highlighted. The low optical insertion loss for all switch optical connections of the switch enables the monitoring, grooming and serving of a large number of PON lines and customers. Furthermore, the 3D MEMS switch is transparent to optical wavelengths and data formats, thus making it easy to incorporate future upgrades, such higher bit rates or DWDM overlay to a PON.

  12. Biologically Inspired Smart Release System Based on 3D Bioprinted Perfused Scaffold for Vascularized Tissue Regeneration

    PubMed Central

    Cui, Haitao; Zhu, Wei; Holmes, Benjamin

    2016-01-01

    A critical challenge to the development of large‐scale artificial tissue grafts for defect reconstruction is vascularization of the tissue construct. As an emerging tissue/organ manufacturing technique, 3D bioprinting offers great precision in controlling the internal architecture of a scaffold with preferable mechanical strength and printing complicated microstructures comparable to native tissue. However, current bioprinting techniques still exhibit difficulty in achieving biomimetic nano resolution and cooperating with bioactive spatiotemporal signals. In this study, a comprehensive design of engineered vascularized bone construct is presented for the first time by integrating biomimetic 3D bioprinted fluid perfused microstructure with biologically inspired smart release nanocoating, which is regarded as an aspiring concept combining engineering, biological, and material science. In this biologically inspired design, angiogenesis and osteogenesis are successively induced through a matrix metalloprotease 2 regulative mechanism by delivering dual growth factors with sequential release in spatiotemporal coordination. Availability of this system is evaluated in dynamic culture condition, which is similar to fluid surrounding in vivo, as an alternative animal model study. Results, particularly from co‐cultured dynamically samples demonstrate excellent bioactivity and vascularized bone forming potential of nanocoating modified 3D bioprinted scaffolds for human bone marrow mesenchymal stem cells and human umbilical vein endothelial cells. PMID:27818910

  13. Biologically Inspired Smart Release System Based on 3D Bioprinted Perfused Scaffold for Vascularized Tissue Regeneration.

    PubMed

    Cui, Haitao; Zhu, Wei; Holmes, Benjamin; Zhang, Lijie Grace

    2016-08-01

    A critical challenge to the development of large-scale artificial tissue grafts for defect reconstruction is vascularization of the tissue construct. As an emerging tissue/organ manufacturing technique, 3D bioprinting offers great precision in controlling the internal architecture of a scaffold with preferable mechanical strength and printing complicated microstructures comparable to native tissue. However, current bioprinting techniques still exhibit difficulty in achieving biomimetic nano resolution and cooperating with bioactive spatiotemporal signals. In this study, a comprehensive design of engineered vascularized bone construct is presented for the first time by integrating biomimetic 3D bioprinted fluid perfused microstructure with biologically inspired smart release nanocoating, which is regarded as an aspiring concept combining engineering, biological, and material science. In this biologically inspired design, angiogenesis and osteogenesis are successively induced through a matrix metalloprotease 2 regulative mechanism by delivering dual growth factors with sequential release in spatiotemporal coordination. Availability of this system is evaluated in dynamic culture condition, which is similar to fluid surrounding in vivo, as an alternative animal model study. Results, particularly from co-cultured dynamically samples demonstrate excellent bioactivity and vascularized bone forming potential of nanocoating modified 3D bioprinted scaffolds for human bone marrow mesenchymal stem cells and human umbilical vein endothelial cells.

  14. Early pregnancy placental bed and fetal vascular volume measurements using 3-D virtual reality.

    PubMed

    Reus, Averil D; Klop-van der Aa, Josine; Rifouna, Maria S; Koning, Anton H J; Exalto, Niek; van der Spek, Peter J; Steegers, Eric A P

    2014-08-01

    In this study, a new 3-D Virtual Reality (3D VR) technique for examining placental and uterine vasculature was investigated. The validity of placental bed vascular volume (PBVV) and fetal vascular volume (FVV) measurements was assessed and associations of PBVV and FVV with embryonic volume, crown-rump length, fetal birth weight and maternal parity were investigated. One hundred thirty-two patients were included in this study, and measurements were performed in 100 patients. Using V-Scope software, 100 3-D Power Doppler data sets of 100 pregnancies at 12 wk of gestation were analyzed with 3D VR in the I-Space Virtual Reality system. Volume measurements were performed with semi-automatic, pre-defined parameters. The inter-observer and intra-observer agreement was excellent with all intra-class correlation coefficients >0.93. PBVVs of multiparous women were significantly larger than the PBVVs of primiparous women (p = 0.008). In this study, no other associations were found. In conclusion, V-Scope offers a reproducible method for measuring PBVV and FVV at 12 wk of gestation, although we are unsure whether the volume measured represents the true volume of the vasculature. Maternal parity influences PBVV.

  15. In vitro vascularization of a combined system based on a 3D printing technique.

    PubMed

    Zhao, Xinru; Liu, Libiao; Wang, Jiayin; Xu, Yufan; Zhang, Weiming; Khang, Gilson; Wang, Xiaohong

    2016-10-01

    A vital challenge in complex organ manufacturing is to vascularize large combined tissues. The aim of this study is to vascularize in vitro an adipose-derived stem cell (ADSC)/fibrin/collagen incorporated three-dimensional (3D) poly(d,l-lactic-co-glycolic acid) (PLGA) scaffold (10 × 10 × 10 mm(3) ) with interconnected channels. A low-temperature 3D printing technique was employed to build the PLGA scaffold. A step-by-step cocktail procedure was designed to engage or steer the ADSCs in the PLGA channels towards both endothelial and smooth muscle cell lineages. The combined system had sufficient mechanical properties to support the cell/fibrin/collagen hydrogel inside the predefined PLGA channels. The ADSCs encapsulated in the fibrin/collagen hydrogel differentiated to endothelial and smooth muscle cell lineage, respectively, corresponding to their respective locations in the construct and formed vascular-like structures. This technique allows in vitro vascularization of the predefined PLGA channels and provides a choice for complex organ manufacture. Copyright © 2014 John Wiley & Sons, Ltd.

  16. Segmentation of vascular structures and hematopoietic cells in 3D microscopy images and quantitative analysis

    NASA Astrophysics Data System (ADS)

    Mu, Jian; Yang, Lin; Kamocka, Malgorzata M.; Zollman, Amy L.; Carlesso, Nadia; Chen, Danny Z.

    2015-03-01

    In this paper, we present image processing methods for quantitative study of how the bone marrow microenvironment changes (characterized by altered vascular structure and hematopoietic cell distribution) caused by diseases or various factors. We develop algorithms that automatically segment vascular structures and hematopoietic cells in 3-D microscopy images, perform quantitative analysis of the properties of the segmented vascular structures and cells, and examine how such properties change. In processing images, we apply local thresholding to segment vessels, and add post-processing steps to deal with imaging artifacts. We propose an improved watershed algorithm that relies on both intensity and shape information and can separate multiple overlapping cells better than common watershed methods. We then quantitatively compute various features of the vascular structures and hematopoietic cells, such as the branches and sizes of vessels and the distribution of cells. In analyzing vascular properties, we provide algorithms for pruning fake vessel segments and branches based on vessel skeletons. Our algorithms can segment vascular structures and hematopoietic cells with good quality. We use our methods to quantitatively examine the changes in the bone marrow microenvironment caused by the deletion of Notch pathway. Our quantitative analysis reveals property changes in samples with deleted Notch pathway. Our tool is useful for biologists to quantitatively measure changes in the bone marrow microenvironment, for developing possible therapeutic strategies to help the bone marrow microenvironment recovery.

  17. Analyzing Structure and Function of Vascularization in Engineered Bone Tissue by Video-Rate Intravital Microscopy and 3D Image Processing

    PubMed Central

    Pang, Yonggang; Tsigkou, Olga; Spencer, Joel A.; Lin, Charles P.; Neville, Craig

    2015-01-01

    Vascularization is a key challenge in tissue engineering. Three-dimensional structure and microcirculation are two fundamental parameters for evaluating vascularization. Microscopic techniques with cellular level resolution, fast continuous observation, and robust 3D postimage processing are essential for evaluation, but have not been applied previously because of technical difficulties. In this study, we report novel video-rate confocal microscopy and 3D postimage processing techniques to accomplish this goal. In an immune-deficient mouse model, vascularized bone tissue was successfully engineered using human bone marrow mesenchymal stem cells (hMSCs) and human umbilical vein endothelial cells (HUVECs) in a poly (d,l-lactide-co-glycolide) (PLGA) scaffold. Video-rate (30 FPS) intravital confocal microscopy was applied in vitro and in vivo to visualize the vascular structure in the engineered bone and the microcirculation of the blood cells. Postimage processing was applied to perform 3D image reconstruction, by analyzing microvascular networks and calculating blood cell viscosity. The 3D volume reconstructed images show that the hMSCs served as pericytes stabilizing the microvascular network formed by HUVECs. Using orthogonal imaging reconstruction and transparency adjustment, both the vessel structure and blood cells within the vessel lumen were visualized. Network length, network intersections, and intersection densities were successfully computed using our custom-developed software. Viscosity analysis of the blood cells provided functional evaluation of the microcirculation. These results show that by 8 weeks, the blood vessels in peripheral areas function quite similarly to the host vessels. However, the viscosity drops about fourfold where it is only 0.8 mm away from the host. In summary, we developed novel techniques combining intravital microscopy and 3D image processing to analyze the vascularization in engineered bone. These techniques have broad

  18. Microwave 3D concept for beam forming networks

    NASA Astrophysics Data System (ADS)

    Vendier, O.; Drevon, C.; Monfraix, P.

    2002-12-01

    The development of active antennas for space applications has reinforced the need for RF BFNs - Beam Forming Networks. A BFN connects m RF inputs to m RF Outputs to form N independent and simultaneous beams. The resulting matrix has m x n internal connections. Typically, this number runs into the hundreds, which make it impossible to be implemented with a classical concept. Even the technology based on multilayer printed circuit boards is limited in : frequency mainly due to the mechanical accuracy on materials and processes, integration because all the components could be bonded only on the surface of the boards. The new concept presented in this paper is compatible with BFN in the Ka band and upper frequencies. This "vertical" BFN is using the RF 3D technology; in that way the capacity of interconnection is drastically improved because all the routing moved to the surface of the module with all the components encapsulated inside the module. Main of the fundamental technology points are addressed : availability for molding very large modules up to 110 x 110 mm with the capability to keep all the advantages of the 3D technology, a 3D CPW (CoPlanar Waveguide) intercon- nection on a low dielectric constant resin, micro-connectors implemented with surface mount technology and working up to 30 GHz. A test vehicle including all those points is also presented with the first results on the reliability tests mainly based on thermal cycles in the range -55/+125°C.

  19. Framework for quantitative evaluation of 3D vessel segmentation approaches using vascular phantoms in conjunction with 3D landmark localization and registration

    NASA Astrophysics Data System (ADS)

    Wörz, Stefan; Hoegen, Philipp; Liao, Wei; Müller-Eschner, Matthias; Kauczor, Hans-Ulrich; von Tengg-Kobligk, Hendrik; Rohr, Karl

    2016-03-01

    We introduce a framework for quantitative evaluation of 3D vessel segmentation approaches using vascular phantoms. Phantoms are designed using a CAD system and created with a 3D printer, and comprise realistic shapes including branches and pathologies such as abdominal aortic aneurysms (AAA). To transfer ground truth information to the 3D image coordinate system, we use a landmark-based registration scheme utilizing fiducial markers integrated in the phantom design. For accurate 3D localization of the markers we developed a novel 3D parametric intensity model that is directly fitted to the markers in the images. We also performed a quantitative evaluation of different vessel segmentation approaches for a phantom of an AAA.

  20. Traversing and labeling interconnected vascular tree structures from 3D medical images

    NASA Astrophysics Data System (ADS)

    O'Dell, Walter G.; Govindarajan, Sindhuja Tirumalai; Salgia, Ankit; Hegde, Satyanarayan; Prabhakaran, Sreekala; Finol, Ender A.; White, R. James

    2014-03-01

    Purpose: Detailed characterization of pulmonary vascular anatomy has important applications for the diagnosis and management of a variety of vascular diseases. Prior efforts have emphasized using vessel segmentation to gather information on the number or branches, number of bifurcations, and branch length and volume, but accurate traversal of the vessel tree to identify and repair erroneous interconnections between adjacent branches and neighboring tree structures has not been carefully considered. In this study, we endeavor to develop and implement a successful approach to distinguishing and characterizing individual vascular trees from among a complex intermingling of trees. Methods: We developed strategies and parameters in which the algorithm identifies and repairs false branch inter-tree and intra-tree connections to traverse complicated vessel trees. A series of two-dimensional (2D) virtual datasets with a variety of interconnections were constructed for development, testing, and validation. To demonstrate the approach, a series of real 3D computed tomography (CT) lung datasets were obtained, including that of an anthropomorphic chest phantom; an adult human chest CT; a pediatric patient chest CT; and a micro-CT of an excised rat lung preparation. Results: Our method was correct in all 2D virtual test datasets. For each real 3D CT dataset, the resulting simulated vessel tree structures faithfully depicted the vessel tree structures that were originally extracted from the corresponding lung CT scans. Conclusion: We have developed a comprehensive strategy for traversing and labeling interconnected vascular trees and successfully implemented its application to pulmonary vessels observed using 3D CT images of the chest.

  1. A synergistic approach to the design, fabrication and evaluation of 3D printed micro and nano featured scaffolds for vascularized bone tissue repair

    PubMed Central

    Holmes, Benjamin; Bulusu, Kartik; Plesniak, Michael; Zhang, Lijie Grace

    2016-01-01

    3D bioprinting has begun to show great promise in advancing the development of functional tissue/organ replacements. However, to realize the true potential of 3D bioprinted tissues for clinical use requires the fabrication of an interconnected and effective vascular network. Solving this challenge is critical, as human tissue relies on an adequate network of blood vessels to transport oxygen, nutrients, other chemicals, biological factors and waste, in and out of the tissue. Here, we have successfully designed and printed a series of novel 3D bone scaffolds with both bone formation supporting structures and highly interconnected 3D microvascular mimicking channels, for efficient and enhanced osteogenic bone regeneration as well as vascular cell growth. Using a chemical functionalization process, we have conjugated our samples with nano hydroxyapatite (nHA), for the creation of novel micro and nano featured devices for vascularized bone growth. We evaluated our scaffolds with mechanical testing, hydrodynamic measurements and in vitro human mesenchymal stem cell (hMSC) adhesion (4 h), proliferation (1, 3 and 5 d) and osteogenic differentiation (1, 2 and 3 weeks). These tests confirmed bone-like physical properties and vascular-like flow profiles, as well as demonstrated enhanced hMSC adhesion, proliferation and osteogenic differentiation. Additional in vitro experiments with human umbilical vein endothelial cells also demonstrated improved vascular cell growth, migration and organization on micro-nano featured scaffolds. PMID:26758780

  2. A synergistic approach to the design, fabrication and evaluation of 3D printed micro and nano featured scaffolds for vascularized bone tissue repair.

    PubMed

    Holmes, Benjamin; Bulusu, Kartik; Plesniak, Michael; Zhang, Lijie Grace

    2016-02-12

    3D bioprinting has begun to show great promise in advancing the development of functional tissue/organ replacements. However, to realize the true potential of 3D bioprinted tissues for clinical use requires the fabrication of an interconnected and effective vascular network. Solving this challenge is critical, as human tissue relies on an adequate network of blood vessels to transport oxygen, nutrients, other chemicals, biological factors and waste, in and out of the tissue. Here, we have successfully designed and printed a series of novel 3D bone scaffolds with both bone formation supporting structures and highly interconnected 3D microvascular mimicking channels, for efficient and enhanced osteogenic bone regeneration as well as vascular cell growth. Using a chemical functionalization process, we have conjugated our samples with nano hydroxyapatite (nHA), for the creation of novel micro and nano featured devices for vascularized bone growth. We evaluated our scaffolds with mechanical testing, hydrodynamic measurements and in vitro human mesenchymal stem cell (hMSC) adhesion (4 h), proliferation (1, 3 and 5 d) and osteogenic differentiation (1, 2 and 3 weeks). These tests confirmed bone-like physical properties and vascular-like flow profiles, as well as demonstrated enhanced hMSC adhesion, proliferation and osteogenic differentiation. Additional in vitro experiments with human umbilical vein endothelial cells also demonstrated improved vascular cell growth, migration and organization on micro-nano featured scaffolds.

  3. A synergistic approach to the design, fabrication and evaluation of 3D printed micro and nano featured scaffolds for vascularized bone tissue repair

    NASA Astrophysics Data System (ADS)

    Holmes, Benjamin; Bulusu, Kartik; Plesniak, Michael; Zhang, Lijie Grace

    2016-02-01

    3D bioprinting has begun to show great promise in advancing the development of functional tissue/organ replacements. However, to realize the true potential of 3D bioprinted tissues for clinical use requires the fabrication of an interconnected and effective vascular network. Solving this challenge is critical, as human tissue relies on an adequate network of blood vessels to transport oxygen, nutrients, other chemicals, biological factors and waste, in and out of the tissue. Here, we have successfully designed and printed a series of novel 3D bone scaffolds with both bone formation supporting structures and highly interconnected 3D microvascular mimicking channels, for efficient and enhanced osteogenic bone regeneration as well as vascular cell growth. Using a chemical functionalization process, we have conjugated our samples with nano hydroxyapatite (nHA), for the creation of novel micro and nano featured devices for vascularized bone growth. We evaluated our scaffolds with mechanical testing, hydrodynamic measurements and in vitro human mesenchymal stem cell (hMSC) adhesion (4 h), proliferation (1, 3 and 5 d) and osteogenic differentiation (1, 2 and 3 weeks). These tests confirmed bone-like physical properties and vascular-like flow profiles, as well as demonstrated enhanced hMSC adhesion, proliferation and osteogenic differentiation. Additional in vitro experiments with human umbilical vein endothelial cells also demonstrated improved vascular cell growth, migration and organization on micro-nano featured scaffolds.

  4. Microseismic network design assessment based on 3D ray tracing

    NASA Astrophysics Data System (ADS)

    Näsholm, Sven Peter; Wuestefeld, Andreas; Lubrano-Lavadera, Paul; Lang, Dominik; Kaschwich, Tina; Oye, Volker

    2016-04-01

    There is increasing demand on the versatility of microseismic monitoring networks. In early projects, being able to locate any triggers was considered a success. These early successes led to a better understanding of how to extract value from microseismic results. Today operators, regulators, and service providers work closely together in order to find the optimum network design to meet various requirements. In the current study we demonstrate an integrated and streamlined network capability assessment approach. It is intended for use during the microseismic network design process prior to installation. The assessments are derived from 3D ray tracing between a grid of event points and the sensors. Three aspects are discussed: 1) Magnitude of completeness or detection limit; 2) Event location accuracy; and 3) Ground-motion hazard. The network capability parameters 1) and 2) are estimated at all hypothetic event locations and are presented in the form of maps given a seismic sensor coordinate scenario. In addition, the ray tracing traveltimes permit to estimate the point-spread-functions (PSFs) at the event grid points. PSFs are useful in assessing the resolution and focusing capability of the network for stacking-based event location and imaging methods. We estimate the performance for a hypothetical network case with 11 sensors. We consider the well-documented region around the San Andreas Fault Observatory at Depth (SAFOD) located north of Parkfield, California. The ray tracing is done through a detailed velocity model which covers a 26.2 by 21.2 km wide area around the SAFOD drill site with a resolution of 200 m both for the P-and S-wave velocities. Systematic network capability assessment for different sensor site scenarios prior to installation facilitates finding a final design which meets the survey objectives.

  5. 3D numerical study of tumor microenvironmental flow in response to vascular-disrupting treatments.

    PubMed

    Wu, Jie; Cai, Yan; Xu, Shixiong; Longs, Quan; Ding, Zurong; Dong, Cheng

    2012-06-01

    The effects of vascular-disrupting treatments on normalization of tumor microvasculature and its microenvironmental flow were investigated, by mathematical modeling and numerical simulation of tumor vascular-disrupting and tumor haemodynamics. Four disrupting approaches were designed according to the abnormal characteristics of tumor microvasculature compared with the normal one. The results predict that the vascular-disrupting therapies could improve tumor microenvironment, eliminate drug barrier and inhibit metastasis of tumor cells to some extent. Disrupting certain types of vessels may get better effects. In this study, the flow condition on the networks with "vascular-disrupting according to flowrate" is the best comparing with the other three groups, and disrupting vessels of lower maturity could effectively enhance fluid transport across vasculature into interstitial space.

  6. Quantitative assessment of cancer vascular architecture by skeletonization of high-resolution 3-D contrast-enhanced ultrasound images: role of liposomes and microbubbles.

    PubMed

    Molinari, F; Meiburger, K M; Giustetto, P; Rizzitelli, S; Boffa, C; Castano, M; Terreno, E

    2014-12-01

    The accurate characterization and description of the vascular network of a cancer lesion is of paramount importance in clinical practice and cancer research in order to improve diagnostic accuracy or to assess the effectiveness of a treatment. The aim of this study was to show the effectiveness of liposomes as an ultrasound contrast agent to describe the 3-D vascular architecture of a tumor. Eight C57BL/6 mice grafted with syngeneic B16-F10 murine melanoma cells were injected with a bolus of 1,2-Distearoyl-sn-glycero-3-phosphocoline (DSPC)-based non-targeted liposomes and with a bolus of microbubbles. 3-D contrast-enhanced images of the tumor lesions were acquired in three conditions: pre-contrast, after the injection of microbubbles, and after the injection of liposomes. By using a previously developed reconstruction and characterization image processing technique, we obtained the 3-D representation of the vascular architecture in these three conditions. Six descriptive parameters of these networks were also computed: the number of vascular trees (NT), the vascular density (VD), the number of branches, the 2-D curvature measure, the number of vascular flexes of the vessels, and the 3-D curvature. Results showed that all the vascular descriptors obtained by liposome-based images were statistically equal to those obtained by using microbubbles, except the VD which was found to be lower for liposome images. All the six descriptors computed in pre-contrast conditions had values that were statistically lower than those computed in presence of contrast, both for liposomes and microbubbles. Liposomes have already been used in cancer therapy for the selective ultrasound-mediated delivery of drugs. This work demonstrated their effectiveness also as vascular diagnostic contrast agents, therefore proving that liposomes can be used as efficient "theranostic" (i.e. therapeutic 1 diagnostic) ultrasound probes.

  7. The mouse retina in 3D: quantification of vascular growth and remodeling.

    PubMed

    Milde, Florian; Lauw, Stephanie; Koumoutsakos, Petros; Iruela-Arispe, M Luisa

    2013-12-01

    The mouse retina has become a prominent model for studying angiogenesis. The easy access and well-known developmental progression have significantly propelled our ability to examine and manipulate blood vessels in vivo. Nonetheless, most studies have restricted their evaluations to the superficial plexus (an upper vascular layer in contact with the vitreous). Here we present experimental data and quantification for the developmental progression of the full retina including the intermediate and deeper plexus that sprouts from the superficial layer. We analyze the origin and advancement of vertical sprouting and present the progression of vascular perfusion within the tissue. Furthermore, we introduce the use of Minkowsky functionals to quantify remodeling in the superficial and deeper plexus. The work expands information on the retina towards a 3D structure. This is of particular interest, as recent data have demonstrated differential effects of gene deletion on the upper and deeper plexus, highlighting the concept of distinct operational pathways during sprouting angiogenesis.

  8. 3D visualization of gene clusters and networks

    NASA Astrophysics Data System (ADS)

    Zhang, Leishi; Sheng, Weiguo; Liu, Xiaohui

    2005-03-01

    In this paper, we try to provide a global view of DNA microarray gene expression data analysis and modeling process by combining novel and effective visualization techniques with data mining algorithms. An integrated framework has been proposed to model and visualize short, high-dimensional gene expression data. The framework reduces the dimensionality of variables before applying appropriate temporal modeling method. Prototype has been built using Java3D to visualize the framework. The prototype takes gene expression data as input, clusters the genes, displays the clustering results using a novel graph layout algorithm, models individual gene clusters using Dynamic Bayesian Network and then visualizes the modeling results using simple but effective visualization techniques.

  9. Quantitative Analysis of Vascular Heterogeneity in Breast Lesions Using Contrast-Enhanced 3-D Harmonic and Subharmonic Ultrasound Imaging

    PubMed Central

    Sridharan, Anush; Eisenbrey, John R.; Machado, Priscilla; Ojeda-Fournier, Haydee; Wilkes, Annina; Sevrukov, Alexander; Mattrey, Robert F.; Wallace, Kirk; Chalek, Carl L.; Thomenius, Kai E.; Forsberg, Flemming

    2015-01-01

    Ability to visualize breast lesion vascularity and quantify the vascular heterogeneity using contrast-enhanced 3-D harmonic (HI) and subharmonic (SHI) ultrasound imaging was investigated in a clinical population. Patients (n = 134) identified with breast lesions on mammography were scanned using power Doppler imaging, contrast-enhanced 3-D HI, and 3-D SHI on a modified Logiq 9 scanner (GE Healthcare). A region of interest corresponding to ultrasound contrast agent flow was identified in 4D View (GE Medical Systems) and mapped to raw slice data to generate a map of time-intensity curves for the lesion volume. Time points corresponding to baseline, peak intensity, and washout of ultrasound contrast agent were identified and used to generate and compare vascular heterogeneity plots for malignant and benign lesions. Vascularity was observed with power Doppler imaging in 84 lesions (63 benign and 21 malignant). The 3-D HI showed flow in 8 lesions (5 benign and 3 malignant), whereas 3-D SHI visualized flow in 68 lesions (49 benign and 19 malignant). Analysis of vascular heterogeneity in the 3-D SHI volumes found benign lesions having a significant difference in vascularity between central and peripheral sections (1.71 ± 0.96 vs. 1.13 ± 0.79 dB, p < 0.001, respectively), whereas malignant lesions showed no difference (1.66 ± 1.39 vs. 1.24 ± 1.14 dB, p = 0.24), indicative of more vascular coverage. These preliminary results suggest quantitative evaluation of vascular heterogeneity in breast lesions using contrast-enhanced 3-D SHI is feasible and able to detect variations in vascularity between central and peripheral sections for benign and malignant lesions. PMID:25935933

  10. Quantitative analysis of vascular heterogeneity in breast lesions using contrast-enhanced 3-D harmonic and subharmonic ultrasound imaging.

    PubMed

    Sridharan, Anush; Eisenbrey, John R; Machado, Priscilla; Ojeda-Fournier, Haydee; Wilkes, Annina; Sevrukov, Alexander; Mattrey, Robert F; Wallace, Kirk; Chalek, Carl L; Thomenius, Kai E; Forsberg, Flemming

    2015-03-01

    Ability to visualize breast lesion vascularity and quantify the vascular heterogeneity using contrast-enhanced 3-D harmonic (HI) and subharmonic (SHI) ultrasound imaging was investigated in a clinical population. Patients (n = 134) identified with breast lesions on mammography were scanned using power Doppler imaging, contrast-enhanced 3-D HI, and 3-D SHI on a modified Logiq 9 scanner (GE Healthcare). A region of interest corresponding to ultrasound contrast agent flow was identified in 4D View (GE Medical Systems) and mapped to raw slice data to generate a map of time-intensity curves for the lesion volume. Time points corresponding to baseline, peak intensity, and washout of ultrasound contrast agent were identified and used to generate and compare vascular heterogeneity plots for malignant and benign lesions. Vascularity was observed with power Doppler imaging in 84 lesions (63 benign and 21 malignant). The 3-D HI showed flow in 8 lesions (5 benign and 3 malignant), whereas 3-D SHI visualized flow in 68 lesions (49 benign and 19 malignant). Analysis of vascular heterogeneity in the 3-D SHI volumes found benign lesions having a significant difference in vascularity between central and peripheral sections (1.71 ± 0.96 vs. 1.13 ± 0.79 dB, p < 0.001, respectively), whereas malignant lesions showed no difference (1.66 ± 1.39 vs. 1.24 ± 1.14 dB, p = 0.24), indicative of more vascular coverage. These preliminary results suggest quantitative evaluation of vascular heterogeneity in breast lesions using contrast-enhanced 3-D SHI is feasible and able to detect variations in vascularity between central and peripheral sections for benign and malignant lesions.

  11. Challenges and limitations of patient-specific vascular phantom fabrication using 3D Polyjet printing

    PubMed Central

    Ionita, Ciprian N; Mokin, Maxim; Varble, Nicole; Bednarek, Daniel R; Xiang, Jianping; Snyder, Kenneth V; Siddiqui, Adnan H; Levy, Elad I; Meng, Hui; Rudin, Stephen

    2014-01-01

    Additive manufacturing (3D printing) technology offers a great opportunity towards development of patient-specific vascular anatomic models, for medical device testing and physiological condition evaluation. However, the development process is not yet well established and there are various limitations depending on the printing materials, the technology and the printer resolution. Patient-specific neuro-vascular anatomy was acquired from computed tomography angiography and rotational digital subtraction angiography (DSA). The volumes were imported into a Vitrea 3D workstation (Vital Images Inc.) and the vascular lumen of various vessels and pathologies were segmented using a “marching cubes” algorithm. The results were exported as Stereo Lithographic (STL) files and were further processed by smoothing, trimming, and wall extrusion (to add a custom wall to the model). The models were printed using a Polyjet printer, Eden 260V (Objet-Stratasys). To verify the phantom geometry accuracy, the phantom was reimaged using rotational DSA, and the new data was compared with the initial patient data. The most challenging part of the phantom manufacturing was removal of support material. This aspect could be a serious hurdle in building very tortuous phantoms or small vessels. The accuracy of the printed models was very good: distance analysis showed average differences of 120 μm between the patient and the phantom reconstructed volume dimensions. Most errors were due to residual support material left in the lumen of the phantom. Despite the post-printing challenges experienced during the support cleaning, this technology could be a tremendous benefit to medical research such as in device development and testing. PMID:25300886

  12. Challenges and limitations of patient-specific vascular phantom fabrication using 3D Polyjet printing

    NASA Astrophysics Data System (ADS)

    Ionita, Ciprian N.; Mokin, Maxim; Varble, Nicole; Bednarek, Daniel R.; Xiang, Jianping; Snyder, Kenneth V.; Siddiqui, Adnan H.; Levy, Elad I.; Meng, Hui; Rudin, Stephen

    2014-03-01

    Additive manufacturing (3D printing) technology offers a great opportunity towards development of patient-specific vascular anatomic models, for medical device testing and physiological condition evaluation. However, the development process is not yet well established and there are various limitations depending on the printing materials, the technology and the printer resolution. Patient-specific neuro-vascular anatomy was acquired from computed tomography angiography and rotational digital subtraction angiography (DSA). The volumes were imported into a Vitrea 3D workstation (Vital Images Inc.) and the vascular lumen of various vessels and pathologies were segmented using a "marching cubes" algorithm. The results were exported as Stereo Lithographic (STL) files and were further processed by smoothing, trimming, and wall extrusion (to add a custom wall to the model). The models were printed using a Polyjet printer, Eden 260V (Objet-Stratasys). To verify the phantom geometry accuracy, the phantom was reimaged using rotational DSA, and the new data was compared with the initial patient data. The most challenging part of the phantom manufacturing was removal of support material. This aspect could be a serious hurdle in building very tortuous phantoms or small vessels. The accuracy of the printed models was very good: distance analysis showed average differences of 120 μm between the patient and the phantom reconstructed volume dimensions. Most errors were due to residual support material left in the lumen of the phantom. Despite the post-printing challenges experienced during the support cleaning, this technology could be a tremendous benefit to medical research such as in device development and testing.

  13. Challenges and limitations of patient-specific vascular phantom fabrication using 3D Polyjet printing.

    PubMed

    Ionita, Ciprian N; Mokin, Maxim; Varble, Nicole; Bednarek, Daniel R; Xiang, Jianping; Snyder, Kenneth V; Siddiqui, Adnan H; Levy, Elad I; Meng, Hui; Rudin, Stephen

    2014-03-13

    Additive manufacturing (3D printing) technology offers a great opportunity towards development of patient-specific vascular anatomic models, for medical device testing and physiological condition evaluation. However, the development process is not yet well established and there are various limitations depending on the printing materials, the technology and the printer resolution. Patient-specific neuro-vascular anatomy was acquired from computed tomography angiography and rotational digital subtraction angiography (DSA). The volumes were imported into a Vitrea 3D workstation (Vital Images Inc.) and the vascular lumen of various vessels and pathologies were segmented using a "marching cubes" algorithm. The results were exported as Stereo Lithographic (STL) files and were further processed by smoothing, trimming, and wall extrusion (to add a custom wall to the model). The models were printed using a Polyjet printer, Eden 260V (Objet-Stratasys). To verify the phantom geometry accuracy, the phantom was reimaged using rotational DSA, and the new data was compared with the initial patient data. The most challenging part of the phantom manufacturing was removal of support material. This aspect could be a serious hurdle in building very tortuous phantoms or small vessels. The accuracy of the printed models was very good: distance analysis showed average differences of 120 μm between the patient and the phantom reconstructed volume dimensions. Most errors were due to residual support material left in the lumen of the phantom. Despite the post-printing challenges experienced during the support cleaning, this technology could be a tremendous benefit to medical research such as in device development and testing.

  14. The integration of 3-D cell printing and mesoscopic fluorescence molecular tomography of vascular constructs within thick hydrogel scaffolds.

    PubMed

    Zhao, Lingling; Lee, Vivian K; Yoo, Seung-Schik; Dai, Guohao; Intes, Xavier

    2012-07-01

    Developing methods that provide adequate vascular perfusion is an important step toward engineering large functional tissues. Meanwhile, an imaging modality to assess the three-dimensional (3-D) structures and functions of the vascular channels is lacking for thick matrices (>2 ≈ 3 mm). Herein, we report on an original approach to construct and image 3-D dynamically perfused vascular structures in thick hydrogel scaffolds. In this work, we integrated a robotic 3-D cell printing technology with a mesoscopic fluorescence molecular tomography imaging system, and demonstrated the capability of the platform to construct perfused collagen scaffolds with endothelial lining and to image both the fluid flow and fluorescent-labeled living endothelial cells at high-frame rates, with high sensitivity and accuracy. These results establish the potential of integrating both 3-D cell printing and fluorescence mesoscopic imaging for functional and molecular studies in complex tissue-engineered tissues.

  15. 3D bioprinting of biomimetic aortic vascular constructs with self-supporting cells.

    PubMed

    Kucukgul, Can; Ozler, S Burce; Inci, Ilyas; Karakas, Ezgi; Irmak, Ster; Gozuacik, Devrim; Taralp, Alpay; Koc, Bahattin

    2015-04-01

    Cardiovascular diseases are the leading cause of deaths throughout the world. Vascular diseases are mostly treated with autografts and blood vessel transplantations. However, traditional grafting methods have several problems including lack of suitable harvest sites, additional surgical costs for harvesting procedure, pain, infection, lack of donors, and even no substitutes at all. Recently, tissue engineering and regenerative medicine approaches are used to regenerate damaged or diseased tissues. Most of the tissue engineering investigations have been based on the cell seeding into scaffolds by providing a suitable environment for cell attachment, proliferation, and differentiation. Because of the challenges such as difficulties in seeding cells spatially, rejection, and inflammation of biomaterials used, the recent tissue engineering studies focus on scaffold-free techniques. In this paper, the development of novel computer aided algorithms and methods are developed for 3D bioprinting of scaffold-free biomimetic macrovascular structures. Computer model mimicking a real human aorta is generated using imaging techniques and the proposed computational algorithms. An optimized three-dimensional bioprinting path planning are developed with the proposed self-supported model. Mouse embryonic fibroblast (MEF) cell aggregates and support structures (hydrogels) are 3D bioprinted layer-by-layer according to the proposed self-supported method to form an aortic tissue construct.

  16. Image intensity standardization in 3D rotational angiography and its application to vascular segmentation

    NASA Astrophysics Data System (ADS)

    Bogunović, Hrvoje; Radaelli, Alessandro G.; De Craene, Mathieu; Delgado, David; Frangi, Alejandro F.

    2008-03-01

    Knowledge-based vascular segmentation methods typically rely on a pre-built training set of segmented images, which is used to estimate the probability of each voxel to belong to a particular tissue. In 3D Rotational Angiography (3DRA) the same tissue can correspond to different intensity ranges depending on the imaging device, settings and contrast injection protocol. As a result, pre-built training sets do not apply to all images and the best segmentation results are often obtained when the training set is built specifically for each individual image. We present an Image Intensity Standardization (IIS) method designed to ensure a correspondence between specific tissues and intensity ranges common to every image that undergoes the standardization process. The method applies a piecewise linear transformation to the image that aligns the intensity histogram to the histogram taken as reference. The reference histogram has been selected from a high quality image not containing artificial objects such as coils or stents. This is a pre-processing step that allows employing a training set built on a limited number of standardized images for the segmentation of standardized images which were not part of the training set. The effectiveness of the presented IIS technique in combination with a well-validated knowledge-based vasculature segmentation method is quantified on a variety of 3DRA images depicting cerebral arteries and intracranial aneurysms. The proposed IIS method offers a solution to the standardization of tissue classes in routine medical images and effectively improves automation and usability of knowledge-based vascular segmentation algorithms.

  17. In vivo high-resolution 3D photoacoustic imaging of superficial vascular anatomy

    NASA Astrophysics Data System (ADS)

    Zhang, E. Z.; Laufer, J. G.; Pedley, R. B.; Beard, P. C.

    2009-02-01

    The application of a photoacoustic imaging instrument based upon a Fabry-Perot polymer film ultrasound sensor to imaging the superficial vasculature is described. This approach provides a backward mode-sensing configuration that has the potential to overcome the limitations of current piezoelectric based detection systems used in superficial photoacoustic imaging. The system has been evaluated by obtaining non-invasive images of the vasculature in human and mouse skin as well as mouse models of human colorectal tumours. These studies showed that the system can provide high-resolution 3D images of vascular structures to depths of up to 5 mm. It is considered that this type of instrument may find a role in the clinical assessment of conditions characterized by changes in the vasculature such as skin tumours and superficial soft tissue damage due to burns, wounds or ulceration. It may also find application in the characterization of small animal cancer models where it is important to follow the tumour vasculature over time in order to study its development and/or response to therapy.

  18. Human 3D vascularized organotypic microfluidic assays to study breast cancer cell extravasation

    PubMed Central

    Jeon, Jessie S.; Bersini, Simone; Gilardi, Mara; Dubini, Gabriele; Charest, Joseph L.; Moretti, Matteo; Kamm, Roger D.

    2015-01-01

    A key aspect of cancer metastases is the tendency for specific cancer cells to home to defined subsets of secondary organs. Despite these known tendencies, the underlying mechanisms remain poorly understood. Here we develop a microfluidic 3D in vitro model to analyze organ-specific human breast cancer cell extravasation into bone- and muscle-mimicking microenvironments through a microvascular network concentrically wrapped with mural cells. Extravasation rates and microvasculature permeabilities were significantly different in the bone-mimicking microenvironment compared with unconditioned or myoblast containing matrices. Blocking breast cancer cell A3 adenosine receptors resulted in higher extravasation rates of cancer cells into the myoblast-containing matrices compared with untreated cells, suggesting a role for adenosine in reducing extravasation. These results demonstrate the efficacy of our model as a drug screening platform and a promising tool to investigate specific molecular pathways involved in cancer biology, with potential applications to personalized medicine. PMID:25524628

  19. Direct Fabrication of 3D Metallic Networks and Their Performance.

    PubMed

    Ron, Racheli; Gachet, David; Rechav, Katya; Salomon, Adi

    2017-02-01

    Fabrication of macroscopic nanoporous metallic networks is challenging, because it demands fine structures at the nanoscale over a large-scale. A technique to form pure scalable networks is introduced. The networked-metals ("Netals") exhibit a strong interaction with light and indicate a large fraction of hot-electrons generation. These hot-electrons are available to derive photocatalytic processes.

  20. Optimization of vascularization-­inducing hydrogel bioinks for 3D bioprinting

    SciTech Connect

    Lui, E.; Moya, Monica L.

    2016-09-12

    This study seeks to validate the reproducibility of previous bioprinting work at Lawrence Livermore National Laboratory (LLNL) on a new Aerotech motion controller system and to modify an existing bioink, fibrin, by adding varying percent volumes of hyaluronic acid (HA). Endothelial and fibroblast cells bioprinted in fibrin gels using the Aerotech system were confirmed to be more than 77 percent viable after one day, and all bioprinted samples retained sterility after one week of culture. To characterize cell behavior in fibrin with HA addition, static co-­culture gels with varying percent volumes of HA were cultured in vitro for one week. Resulting confocal microscope images showed increased cell network formation in all concentrations of HA compared to the control (no HA), and rheological tests mimicking static gel compositions displayed positive correlations between gelation time, gel stiffness (G’), and hyaluronic acid concentration. Although the current data is insufficient to quantitatively associate HA concentration with the level of cell vascularization, future work will aim to develop a targeted HA concentration in fibrin for maximum cell network formation, to optimize the printing process parameters for this new bioink composition, and to analyze cell viability in bioprinted fibrin-­HA structures.

  1. Evaluation of the effectiveness of 3D vascular stereoscopic models in anatomy instruction for first year medical students.

    PubMed

    Cui, Dongmei; Wilson, Timothy D; Rockhold, Robin W; Lehman, Michael N; Lynch, James C

    2017-01-01

    The head and neck region is one of the most complex areas featured in the medical gross anatomy curriculum. The effectiveness of using three-dimensional (3D) models to teach anatomy is a topic of much discussion in medical education research. However, the use of 3D stereoscopic models of the head and neck circulation in anatomy education has not been previously studied in detail. This study investigated whether 3D stereoscopic models created from computed tomographic angiography (CTA) data were efficacious teaching tools for the head and neck vascular anatomy. The test subjects were first year medical students at the University of Mississippi Medical Center. The assessment tools included: anatomy knowledge tests (prelearning session knowledge test and postlearning session knowledge test), mental rotation tests (spatial ability; presession MRT and postsession MRT), and a satisfaction survey. Results were analyzed using a Wilcoxon rank-sum test and linear regression analysis. A total of 39 first year medical students participated in the study. The results indicated that all students who were exposed to the stereoscopic 3D vascular models in 3D learning sessions increased their ability to correctly identify the head and neck vascular anatomy. Most importantly, for students with low-spatial ability, 3D learning sessions improved postsession knowledge scores to a level comparable to that demonstrated by students with high-spatial ability indicating that the use of 3D stereoscopic models may be particularly valuable to these students with low-spatial ability. Anat Sci Educ 10: 34-45. © 2016 American Association of Anatomists.

  2. Extracting Hidden Hierarchies in 3D Distribution Networks

    NASA Astrophysics Data System (ADS)

    Modes, Carl; Magnasco, Marcelo; Katifori, Eleni

    2015-03-01

    Natural and man-made transport webs are frequently dominated by dense sets of nested cycles. The architecture of these networks - the topology and edge weights - determines how efficiently the networks perform their function. Yet, the set of tools that can characterize such a weighted cycle-rich architecture in a physically relevant, mathematically compact way is sparse. In order to fill this void, we have developed a new algorithm that rests on an abstraction of the physical `tiling' in the case of a two dimensional network to an effective tiling of an abstract surface in space that the network may be thought to sit in. Generically these abstract surfaces are richer than the plane and upon sequential removal of the weakest links by edge weight, neighboring tiles merge and a tree characterizing this merging process results. The properties of this characteristic tree can provide the physical and topological data required to describe the architecture of the network and to build physical models. This new algorithm can be used for automated phenotypic characterization of any weighted network whose structure is dominated by cycles, such as mammalian vasculature in the organs, the root networks of clonal colonies like quaking aspen, or the force networks in jammed granular matter.

  3. Extracting Hidden Hierarchies in 3D Distribution Networks

    NASA Astrophysics Data System (ADS)

    Modes, Carl D.; Magnasco, Marcelo O.; Katifori, Eleni

    2016-07-01

    Natural and man-made transport webs are frequently dominated by dense sets of nested cycles. The architecture of these networks, as defined by the topology and edge weights, determines how efficiently the networks perform their function. Yet, the set of tools that can characterize such a weighted cycle-rich architecture in a physically relevant, mathematically compact way is sparse. In order to fill this void, we have developed a new algorithm that rests on an abstraction of the physical "tiling" in the case of a two-dimensional network to an effective tiling of an abstract surface in 3-space that the network may be thought to sit in. Generically, these abstract surfaces are richer than the flat plane because there are now two families of fundamental units that may aggregate upon cutting weakest links—the plaquettes of the tiling and the longer "topological" cycles associated with the abstract surface itself. Upon sequential removal of the weakest links, as determined by a physically relevant edge weight, such as flow volume or capacity, neighboring plaquettes merge and a new tree graph characterizing this merging process results. The properties of this characteristic tree can provide the physical and topological data required to describe the architecture of the network and to build physical models. The new algorithm can be used for automated phenotypic characterization of any weighted network whose structure is dominated by cycles, such as mammalian vasculature in the organs or the force networks in jammed granular matter.

  4. Modeling Computer Communication Networks in a Realistic 3D Environment

    DTIC Science & Technology

    2010-03-01

    system throughput, packet loss, and network congestion as a function of time. This not only gives a better understanding of the network, but it also...only runs on Microsoft Windows, which precludes portability to UNIX-based systems such as Linux or Apple OSX. 3ds Max allows for very extensive scene...simulation. It is often desirable to display this data visually, in order to capitalize on the unique capabilities of the human visual system which

  5. High-Resolution X-Ray Techniques as New Tool to Investigate the 3D Vascularization of Engineered-Bone Tissue.

    PubMed

    Bukreeva, Inna; Fratini, Michela; Campi, Gaetano; Pelliccia, Daniele; Spanò, Raffaele; Tromba, Giuliana; Brun, Francesco; Burghammer, Manfred; Grilli, Marco; Cancedda, Ranieri; Cedola, Alessia; Mastrogiacomo, Maddalena

    2015-01-01

    The understanding of structure-function relationships in normal and pathologic mammalian tissues is at the basis of a tissue engineering (TE) approach for the development of biological substitutes to restore or improve tissue function. In this framework, it is interesting to investigate engineered bone tissue, formed when porous ceramic constructs are loaded with bone marrow stromal cells (BMSC) and implanted in vivo. To monitor the relation between bone formation and vascularization, it is important to achieve a detailed imaging and a quantitative description of the complete three-dimensional vascular network in such constructs. Here, we used synchrotron X-ray phase-contrast micro-tomography to visualize and analyze the three-dimensional micro-vascular networks in bone-engineered constructs, in an ectopic bone formation mouse-model. We compared samples seeded and not seeded with BMSC, as well as samples differently stained or unstained. Thanks to the high quality of the images, we investigated the 3D distribution of both vessels and collagen matrix and we obtained quantitative information for all different samples. We propose our approach as a tool for quantitative studies of angiogenesis in TE and for any pre-clinical investigation where a quantitative analysis of the vascular network is required.

  6. High-Resolution X-Ray Techniques as New Tool to Investigate the 3D Vascularization of Engineered-Bone Tissue

    PubMed Central

    Bukreeva, Inna; Fratini, Michela; Campi, Gaetano; Pelliccia, Daniele; Spanò, Raffaele; Tromba, Giuliana; Brun, Francesco; Burghammer, Manfred; Grilli, Marco; Cancedda, Ranieri; Cedola, Alessia; Mastrogiacomo, Maddalena

    2015-01-01

    The understanding of structure–function relationships in normal and pathologic mammalian tissues is at the basis of a tissue engineering (TE) approach for the development of biological substitutes to restore or improve tissue function. In this framework, it is interesting to investigate engineered bone tissue, formed when porous ceramic constructs are loaded with bone marrow stromal cells (BMSC) and implanted in vivo. To monitor the relation between bone formation and vascularization, it is important to achieve a detailed imaging and a quantitative description of the complete three-dimensional vascular network in such constructs. Here, we used synchrotron X-ray phase-contrast micro-tomography to visualize and analyze the three-dimensional micro-vascular networks in bone-engineered constructs, in an ectopic bone formation mouse-model. We compared samples seeded and not seeded with BMSC, as well as samples differently stained or unstained. Thanks to the high quality of the images, we investigated the 3D distribution of both vessels and collagen matrix and we obtained quantitative information for all different samples. We propose our approach as a tool for quantitative studies of angiogenesis in TE and for any pre-clinical investigation where a quantitative analysis of the vascular network is required. PMID:26442248

  7. Engineering of human hepatic tissue with functional vascular networks.

    PubMed

    Takebe, Takanori; Koike, Naoto; Sekine, Keisuke; Fujiwara, Ryoji; Amiya, Takeru; Zheng, Yun-Wen; Taniguchi, Hideki

    2014-01-01

    Although absolute organ shortage highlights the needs of alternative organ sources for regenerative medicine, the generation of a three-dimensional (3D) and complex vital organ, such as well-vascularized liver, remains a challenge. To this end, tissue engineering holds great promise; however, this approach is significantly limited by the failure of early vascularization in vivo after implantation. Here, we established a stable 3D in vitro pre-vascularization platform to generate human hepatic tissue after implantation in vivo. Human fetal liver cells (hFLCs) were mixed with human umbilical vein endothelial cells (HUVECs) and mesenchymal stem cells (hMSCs) and were implanted into a collagen/fibronectin matrix composite that was used as a 3-D carrier. After a couple of days, the fluorescent HUVECs developed premature vascular networks in vitro, which were stabilized by hMSCs. The establishment of functional vessels inside the pre-vascularized constructs was proven using dextran infusion studies after implantation under a transparency cranial window. Furthermore, dynamic morphological changes during embryonic liver cell maturation were intravitaly quantified with high-resolution confocal microscope analysis. The engineered human hepatic tissue demonstrated multiple liver-specific features, both structural and functional. Our new techniques discussed here can be implemented in future clinical uses and industrial uses, such as drug testing.

  8. Organ-wide 3D-imaging and topological analysis of the continuous microvascular network in a murine lymph node

    PubMed Central

    Kelch, Inken D.; Bogle, Gib; Sands, Gregory B.; Phillips, Anthony R. J.; LeGrice, Ian J.; Rod Dunbar, P.

    2015-01-01

    Understanding of the microvasculature has previously been limited by the lack of methods capable of capturing and modelling complete vascular networks. We used novel imaging and computational techniques to establish the topology of the entire blood vessel network of a murine lymph node, combining 63706 confocal images at 2 μm pixel resolution to cover a volume of 3.88 mm3. Detailed measurements including the distribution of vessel diameters, branch counts, and identification of voids were subsequently re-visualised in 3D revealing regional specialisation within the network. By focussing on critical immune microenvironments we quantified differences in their vascular topology. We further developed a morphology-based approach to identify High Endothelial Venules, key sites for lymphocyte extravasation. These data represent a comprehensive and continuous blood vessel network of an entire organ and provide benchmark measurements that will inform modelling of blood vessel networks as well as enable comparison of vascular topology in different organs. PMID:26567707

  9. New neural-networks-based 3D object recognition system

    NASA Astrophysics Data System (ADS)

    Abolmaesumi, Purang; Jahed, M.

    1997-09-01

    Three-dimensional object recognition has always been one of the challenging fields in computer vision. In recent years, Ulman and Basri (1991) have proposed that this task can be done by using a database of 2-D views of the objects. The main problem in their proposed system is that the correspondent points should be known to interpolate the views. On the other hand, their system should have a supervisor to decide which class does the represented view belong to. In this paper, we propose a new momentum-Fourier descriptor that is invariant to scale, translation, and rotation. This descriptor provides the input feature vectors to our proposed system. By using the Dystal network, we show that the objects can be classified with over 95% precision. We have used this system to classify the objects like cube, cone, sphere, torus, and cylinder. Because of the nature of the Dystal network, this system reaches to its stable point by a single representation of the view to the system. This system can also classify the similar views to a single class (e.g., for the cube, the system generated 9 different classes for 50 different input views), which can be used to select an optimum database of training views. The system is also very flexible to the noise and deformed views.

  10. Human in vitro 3D co-culture model to engineer vascularized bone-mimicking tissues combining computational tools and statistical experimental approach.

    PubMed

    Bersini, Simone; Gilardi, Mara; Arrigoni, Chiara; Talò, Giuseppe; Zamai, Moreno; Zagra, Luigi; Caiolfa, Valeria; Moretti, Matteo

    2016-01-01

    The generation of functional, vascularized tissues is a key challenge for both tissue engineering applications and the development of advanced in vitro models analyzing interactions among circulating cells, endothelium and organ-specific microenvironments. Since vascularization is a complex process guided by multiple synergic factors, it is critical to analyze the specific role that different experimental parameters play in the generation of physiological tissues. Our goals were to design a novel meso-scale model bridging the gap between microfluidic and macro-scale studies, and high-throughput screen the effects of multiple variables on the vascularization of bone-mimicking tissues. We investigated the influence of endothelial cell (EC) density (3-5 Mcells/ml), cell ratio among ECs, mesenchymal stem cells (MSCs) and osteo-differentiated MSCs (1:1:0, 10:1:0, 10:1:1), culture medium (endothelial, endothelial + angiopoietin-1, 1:1 endothelial/osteo), hydrogel type (100%fibrin, 60%fibrin+40%collagen), tissue geometry (2 × 2 × 2, 2 × 2 × 5 mm(3)). We optimized the geometry and oxygen gradient inside hydrogels through computational simulations and we analyzed microvascular network features including total network length/area and vascular branch number/length. Particularly, we employed the "Design of Experiment" statistical approach to identify key differences among experimental conditions. We combined the generation of 3D functional tissue units with the fine control over the local microenvironment (e.g. oxygen gradients), and developed an effective strategy to enable the high-throughput screening of multiple experimental parameters. Our approach allowed to identify synergic correlations among critical parameters driving microvascular network development within a bone-mimicking environment and could be translated to any vascularized tissue.

  11. Rapid casting of patterned vascular networks for perfusable engineered three-dimensional tissues

    NASA Astrophysics Data System (ADS)

    Miller, Jordan S.; Stevens, Kelly R.; Yang, Michael T.; Baker, Brendon M.; Nguyen, Duc-Huy T.; Cohen, Daniel M.; Toro, Esteban; Chen, Alice A.; Galie, Peter A.; Yu, Xiang; Chaturvedi, Ritika; Bhatia, Sangeeta N.; Chen, Christopher S.

    2012-09-01

    In the absence of perfusable vascular networks, three-dimensional (3D) engineered tissues densely populated with cells quickly develop a necrotic core. Yet the lack of a general approach to rapidly construct such networks remains a major challenge for 3D tissue culture. Here, we printed rigid 3D filament networks of carbohydrate glass, and used them as a cytocompatible sacrificial template in engineered tissues containing living cells to generate cylindrical networks that could be lined with endothelial cells and perfused with blood under high-pressure pulsatile flow. Because this simple vascular casting approach allows independent control of network geometry, endothelialization and extravascular tissue, it is compatible with a wide variety of cell types, synthetic and natural extracellular matrices, and crosslinking strategies. We also demonstrated that the perfused vascular channels sustained the metabolic function of primary rat hepatocytes in engineered tissue constructs that otherwise exhibited suppressed function in their core.

  12. Rapid casting of patterned vascular networks for perfusable engineered three-dimensional tissues.

    PubMed

    Miller, Jordan S; Stevens, Kelly R; Yang, Michael T; Baker, Brendon M; Nguyen, Duc-Huy T; Cohen, Daniel M; Toro, Esteban; Chen, Alice A; Galie, Peter A; Yu, Xiang; Chaturvedi, Ritika; Bhatia, Sangeeta N; Chen, Christopher S

    2012-09-01

    In the absence of perfusable vascular networks, three-dimensional (3D) engineered tissues densely populated with cells quickly develop a necrotic core. Yet the lack of a general approach to rapidly construct such networks remains a major challenge for 3D tissue culture. Here, we printed rigid 3D filament networks of carbohydrate glass, and used them as a cytocompatible sacrificial template in engineered tissues containing living cells to generate cylindrical networks that could be lined with endothelial cells and perfused with blood under high-pressure pulsatile flow. Because this simple vascular casting approach allows independent control of network geometry, endothelialization and extravascular tissue, it is compatible with a wide variety of cell types, synthetic and natural extracellular matrices, and crosslinking strategies. We also demonstrated that the perfused vascular channels sustained the metabolic function of primary rat hepatocytes in engineered tissue constructs that otherwise exhibited suppressed function in their core.

  13. Magnetic and Magnetoresistive Properties of 3D Interconnected NiCo Nanowire Networks

    NASA Astrophysics Data System (ADS)

    da Câmara Santa Clara Gomes, Tristan; De La Torre Medina, Joaquín; Lemaitre, Matthieu; Piraux, Luc

    2016-10-01

    Track-etched polymer membranes with crossed nanochannels have been revealed to be most suitable as templates to produce large surface area and mechanically stable 3D interconnected nanowire (NW) networks by electrodeposition. Geometrically controlled NW superstructures made of NiCo ferromagnetic alloys exhibit appealing magnetoresistive properties. The combination of exact alloy compositions with the spatial arrangement of NWs in the 3D network is decisive to obtain specific magnetic and magneto-transport behavior. A proposed simple model based on topological aspects of the 3D NW networks is used to accurately determine the anisotropic magnetoresistance ratios. Despite of their complex topology, the microstructure of Co-rich NiCo NW networks display mixed fcc-hcp phases with the c-axis of the hcp phase oriented perpendicular to their axis. These interconnected NW networks have high potential as reliable and stable magnetic field sensors.

  14. Modeling of flow-induced shear stress applied on 3D cellular scaffolds: Implications for vascular tissue engineering.

    PubMed

    Lesman, Ayelet; Blinder, Yaron; Levenberg, Shulamit

    2010-02-15

    Novel tissue-culture bioreactors employ flow-induced shear stress as a means of mechanical stimulation of cells. We developed a computational fluid dynamics model of the complex three-dimensional (3D) microstructure of a porous scaffold incubated in a direct perfusion bioreactor. Our model was designed to predict high shear-stress values within the physiological range of those naturally sensed by vascular cells (1-10 dyne/cm(2)), and will thereby provide suitable conditions for vascular tissue-engineering experiments. The model also accounts for cellular growth, which was designed as an added cell layer grown on all scaffold walls. Five model variants were designed, with geometric differences corresponding to cell-layer thicknesses of 0, 50, 75, 100, and 125 microm. Four inlet velocities (0.5, 1, 1.5, and 2 cm/s) were applied to each model. Wall shear-stress distribution and overall pressure drop calculations were then used to characterize the relation between flow rate, shear stress, cell-layer thickness, and pressure drop. The simulations showed that cellular growth within 3D scaffolds exposes cells to elevated shear stress, with considerably increasing average values in correlation to cell growth and inflow velocity. Our results provide in-depth analysis of the microdynamic environment of cells cultured within 3D environments, and thus provide advanced control over tissue development in vitro.

  15. Analyzing 3D xylem networks in Vitis vinifera using High Resolution Computed Tomography (HRCT)

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Recent developments in High Resolution Computed Tomography (HRCT) have made it possible to visualize three dimensional (3D) xylem networks without time consuming, labor intensive physical sectioning. Here we describe a new method to visualize complex vessel networks in plants and produce a quantitat...

  16. Network-based visualization of 3D landscapes and city models.

    PubMed

    Royan, Jérôme; Gioia, Patrick; Cavagna, Romain; Bouville, Christian

    2007-01-01

    To improve the visualization of large 3D landscapes and city models in a network environment, the authors use two different types of hierarchical level-of-detail models for terrain and groups of buildings. They also leverage the models to implement progressive streaming in both client-server and peer-to-peer network architectures.

  17. Hydrogel Bioprinted Microchannel Networks for Vascularization of Tissue Engineering Constructs

    PubMed Central

    Bertassoni, Luiz E.; Cecconi, Martina; Manoharan, Vijayan; Nikkhah, Mehdi; Hjortnaes, Jesper; Cristino, Ana Luiza; Barabaschi, Giada; Demarchi, Danilo; Dokmeci, Mehmet R.; Yang, Yunzhi; Khademhosseini, Ali

    2014-01-01

    Vascularization remains a critical challenge in tissue engineering. The development of vascular networks within densely populated and metabolically functional tissues facilitate transport of nutrients and removal of waste products, thus preserving cellular viability over a long period of time. Despite tremendous progress in fabricating complex tissue constructs in the past few years, approaches for controlled vascularization within hydrogel based engineered tissue constructs have remained limited. Here, we report a three dimensional (3D) micromolding technique utilizing bioprinted agarose template fibers to fabricate microchannel networks with various architectural features within photo cross linkable hydrogel constructs. Using the proposed approach, we were able to successfully embed functional and perfusable microchannels inside methacrylated gelatin (GelMA), star poly (ethylene glycol-co-lactide) acrylate (SPELA), poly (ethylene glycol) dimethacrylate (PEGDMA) and poly (ethylene glycol) diacrylate (PEGDA) hydrogels at different concentrations. In particular, GelMA hydrogels were used as a model to demonstrate the functionality of the fabricated vascular networks in improving mass transport, cellular viability and differentiation within the cell-laden tissue constructs. In addition, successful formation of endothelial monolayers within the fabricated channels was confirmed. Overall, our proposed strategy represents an effective technique for vascularization of hydrogel constructs with useful applications in tissue engineering and organs on a chip. PMID:24860845

  18. Label-free fast 3D coherent imaging reveals pancreatic islet micro-vascularization and dynamic blood flow

    PubMed Central

    Berclaz, Corinne; Szlag, Daniel; Nguyen, David; Extermann, Jérôme; Bouwens, Arno; Marchand, Paul J.; Nilsson, Julia; Schmidt-Christensen, Anja; Holmberg, Dan; Grapin-Botton, Anne; Lasser, Theo

    2016-01-01

    In diabetes, pancreatic β-cells play a key role. These cells are clustered within structures called islets of Langerhans inside the pancreas and produce insulin, which is directly secreted into the blood stream. The dense vascularization of islets of Langerhans is critical for maintaining a proper regulation of blood glucose homeostasis and is known to be affected from the early stage of diabetes. The deep localization of these islets inside the pancreas in the abdominal cavity renders their in vivo visualization a challenging task. A fast label-free imaging method with high spatial resolution is required to study the vascular network of islets of Langerhans. Based on these requirements, we developed a label-free and three-dimensional imaging method for observing islets of Langerhans using extended-focus Fourier domain Optical Coherence Microscopy (xfOCM). In addition to structural imaging, this system provides three-dimensional vascular network imaging and dynamic blood flow information within islets of Langerhans. We propose our method to deepen the understanding of the interconnection between diabetes and the evolution of the islet vascular network. PMID:27895996

  19. 3D Slicer as an Image Computing Platform for the Quantitative Imaging Network

    PubMed Central

    Fedorov, Andriy; Beichel, Reinhard; Kalpathy-Cramer, Jayashree; Finet, Julien; Fillion-Robin, Jean-Christophe; Pujol, Sonia; Bauer, Christian; Jennings, Dominique; Fennessy, Fiona; Sonka, Milan; Buatti, John; Aylward, Stephen; Miller, James V.; Pieper, Steve; Kikinis, Ron

    2012-01-01

    Quantitative analysis has tremendous but mostly unrealized potential in healthcare to support objective and accurate interpretation of the clinical imaging. In 2008, the National Cancer Institute began building the Quantitative Imaging Network (QIN) initiative with the goal of advancing quantitative imaging in the context of personalized therapy and evaluation of treatment response. Computerized analysis is an important component contributing to reproducibility and efficiency of the quantitative imaging techniques. The success of quantitative imaging is contingent on robust analysis methods and software tools to bring these methods from bench to bedside. 3D Slicer is a free open source software application for medical image computing. As a clinical research tool, 3D Slicer is similar to a radiology workstation that supports versatile visualizations but also provides advanced functionality such as automated segmentation and registration for a variety of application domains. Unlike a typical radiology workstation, 3D Slicer is free and is not tied to specific hardware. As a programming platform, 3D Slicer facilitates translation and evaluation of the new quantitative methods by allowing the biomedical researcher to focus on the implementation of the algorithm, and providing abstractions for the common tasks of data communication, visualization and user interface development. Compared to other tools that provide aspects of this functionality, 3D Slicer is fully open source and can be readily extended and redistributed. In addition, 3D Slicer is designed to facilitate the development of new functionality in the form of 3D Slicer extensions. In this paper, we present an overview of 3D Slicer as a platform for prototyping, development and evaluation of image analysis tools for clinical research applications. To illustrate the utility of the platform in the scope of QIN, we discuss several use cases of 3D Slicer by the existing QIN teams, and we elaborate on the future

  20. Engineering anatomically shaped vascularized bone grafts with hASCs and 3D-printed PCL scaffolds.

    PubMed

    Temple, Joshua P; Hutton, Daphne L; Hung, Ben P; Huri, Pinar Yilgor; Cook, Colin A; Kondragunta, Renu; Jia, Xiaofeng; Grayson, Warren L

    2014-12-01

    The treatment of large craniomaxillofacial bone defects is clinically challenging due to the limited availability of transplantable autologous bone grafts and the complex geometry of the bones. The ability to regenerate new bone tissues that faithfully replicate the anatomy would revolutionize treatment options. Advances in the field of bone tissue engineering over the past few decades offer promising new treatment alternatives using biocompatible scaffold materials and autologous cells. This approach combined with recent advances in three-dimensional (3D) printing technologies may soon allow the generation of large, bioartificial bone grafts with custom, patient-specific architecture. In this study, we use a custom-built 3D printer to develop anatomically shaped polycaprolactone (PCL) scaffolds with varying internal porosities. These scaffolds are assessed for their ability to support induction of human adipose-derived stem cells (hASCs) to form vasculature and bone, two essential components of functional bone tissue. The development of functional tissues is assessed in vitro and in vivo. Finally, we demonstrate the ability to print large mandibular and maxillary bone scaffolds that replicate fine details extracted from patient's computed tomography scans. The findings of this study illustrate the capabilities and potential of 3D printed scaffolds to be used for engineering autologous, anatomically shaped, vascularized bone grafts.

  1. Treatment planning for image-guided neuro-vascular interventions using patient-specific 3D printed phantoms

    NASA Astrophysics Data System (ADS)

    Russ, M.; O'Hara, R.; Setlur Nagesh, S. V.; Mokin, M.; Jimenez, C.; Siddiqui, A.; Bednarek, D.; Rudin, S.; Ionita, C.

    2015-03-01

    Minimally invasive endovascular image-guided interventions (EIGIs) are the preferred procedures for treatment of a wide range of vascular disorders. Despite benefits including reduced trauma and recovery time, EIGIs have their own challenges. Remote catheter actuation and challenging anatomical morphology may lead to erroneous endovascular device selections, delays or even complications such as vessel injury. EIGI planning using 3D phantoms would allow interventionists to become familiarized with the patient vessel anatomy by first performing the planned treatment on a phantom under standard operating protocols. In this study the optimal workflow to obtain such phantoms from 3D data for interventionist to practice on prior to an actual procedure was investigated. Patientspecific phantoms and phantoms presenting a wide range of challenging geometries were created. Computed Tomographic Angiography (CTA) data was uploaded into a Vitrea 3D station which allows segmentation and resulting stereo-lithographic files to be exported. The files were uploaded using processing software where preloaded vessel structures were included to create a closed-flow vasculature having structural support. The final file was printed, cleaned, connected to a flow loop and placed in an angiographic room for EIGI practice. Various Circle of Willis and cardiac arterial geometries were used. The phantoms were tested for ischemic stroke treatment, distal catheter navigation, aneurysm stenting and cardiac imaging under angiographic guidance. This method should allow for adjustments to treatment plans to be made before the patient is actually in the procedure room and enabling reduced risk of peri-operative complications or delays.

  2. The early mouse 3D osteocyte network in the presence and absence of mechanical loading.

    PubMed

    Sugawara, Yasuyo; Kamioka, Hiroshi; Ishihara, Yoshihito; Fujisawa, Naoko; Kawanabe, Noriaki; Yamashiro, Takashi

    2013-01-01

    Osteocytes are considered to act as mechanosensory cells in bone. They form a functional synctia in which their processes become interconnected to constitute a three-dimensional (3D) network. Previous studies reported that in mice, the two-dimensional osteocyte network becomes progressively more regular as they grow, although the key factors governing the arrangement of the osteocyte network during bone growth remain unknown. In this study, we characterized the 3D formation of the osteocyte network during bone growth. Morphological skeletal changes have been reported to occur in response to mechanical loading and unloading. In order to evaluate the effect of mechanical unloading on osteocyte network formation, we subjected newborn mice to sciatic neurectomy in order to immobilize their left hind limb as an unloading model. The osteocyte network was visualized by staining osteocyte cell bodies and processes with fluorescently labeled phalloidin. First, we compared the osteocyte network in the femora of embryonic and 6-week-old mice in order to understand the morphological changes that occur with normal growth and mechanical loading. In embryonic mice, the osteocyte network in the femur cortical bone displayed a random cell body distribution, non-directional orientation of cell processes, and irregularly shaped cells. In 6-week-old mice, the 3D network contained spindle-shaped osteocytes, which were arranged parallel to the longitudinal axis of the femur. In addition, more and longer cell processes radiated from each osteocyte. Second, we compared the cortical osteocyte networks of 6-week-old mice that had or had not undergone sciatic neurectomy in order to evaluate the effect of unloading on osteocyte network formation. The osteocyte network formation in both cortical bone and cancellous bone was affected by mechanical loading. However, there were differences in the extent of network formation between cortical bone and cancellous bone in response to mechanical

  3. Engineering Photocrosslinkable Bicomponent Hydrogel Constructs for Creating 3D Vascularized Bone.

    PubMed

    Kazemzadeh-Narbat, Mehdi; Rouwkema, Jeroen; Annabi, Nasim; Cheng, Hao; Ghaderi, Masoumeh; Cha, Byung-Hyun; Aparnathi, Mansi; Khalilpour, Akbar; Byambaa, Batzaya; Jabbari, Esmaiel; Tamayol, Ali; Khademhosseini, Ali

    2017-02-27

    Engineering bone tissue requires the generation of a highly organized vasculature. Cellular behavior is affected by the respective niche. Directing cellular behavior and differentiation for creating mineralized regions surrounded by vasculature can be achieved by controlling the pattern of osteogenic and angiogenic niches. This manuscript reports on engineering vascularized bone tissues by incorporating osteogenic and angiogenic cell-laden niches in a photocrosslinkable hydrogel construct. Two-step photolithography process is used to control the stiffness of the hydrogel and distribution of cells in the patterned hydrogel. In addittion, osteoinductive nanoparticles are utilized to induce osteogenesis. The size of microfabricated constructs has a pronounced effect on cellular organization and function. It is shown that the simultaneous presence of both osteogenic and angiogenic niches in one construct results in formation of mineralized regions surrounded by organized vasculature. In addition, the presence of angiogenic niche improves bone formation. This approach can be used for engineered constructs that can be used for treatment of bone defects.

  4. Protein-protein interaction networks studies and importance of 3D structure knowledge.

    PubMed

    Lu, Hui-Chun; Fornili, Arianna; Fraternali, Franca

    2013-12-01

    Protein-protein interaction networks (PPINs) are a powerful tool to study biological processes in living cells. In this review, we present the progress of PPIN studies from abstract to more detailed representations. We will focus on 3D interactome networks, which offer detailed information at the atomic level. This information can be exploited in understanding not only the underlying cellular mechanisms, but also how human variants and disease-causing mutations affect protein functions and complexes' stability. Recent studies have used structural information on PPINs to also understand the molecular mechanisms of binding partner selection. We will address the challenges in generating 3D PPINs due to the restricted number of solved protein structures. Finally, some of the current use of 3D PPINs will be discussed, highlighting their contribution to the studies in genotype-phenotype relationships and in the optimization of targeted studies to design novel chemical compounds for medical treatments.

  5. The fabrication of double layer tubular vascular tissue engineering scaffold via coaxial electrospinning and its 3D cell coculture.

    PubMed

    Ye, Lin; Cao, Jie; Chen, Lamei; Geng, Xue; Zhang, Ai-Ying; Guo, Lian-Rui; Gu, Yong-Quan; Feng, Zeng-Guo

    2015-12-01

    A continuous electrospinning technique was applied to fabricate double layer tubular tissue engineering vascular graft (TEVG) scaffold. The luminal layer was made from poly(ɛ-caprolac-tone)(PCL) ultrafine fibers via common single axial electrospinning followed by the outer layer of core-shell structured nanofibers via coaxial electrospinning. For preparing the outer layernano-fibers, the PCL was electrospun into the shell and both bovine serum albumin (BSA) and tetrapeptide val-gal-pro-gly (VAPG) were encapsulated into the core. The core-shell structure in the outer layer fibers was observed by transmission electron microscope (TEM). The in vitro release tests exhibited the sustainable release behavior of BSA and VAPG so that they provided a better cell growth environment in the interior of tubular scaffold wall. The in vitro culture of smooth muscle cells (SMCs) demonstrated their potential to penetrate into the scaffold wall for the 3D cell culture. Subsequently, 3D cell coculture was conducted. First, SMCs were seeded on the luminal surface of the scaffold and cultured for 5 days, and then endothelial cells (ECs) were also seeded on the luminal surface and cocultured with SMCs for another 2 days. After stained with antibodies, 3D cell distribution on the scaffold was revealed by confocal laser scanning microscopy (CLSM) where ECs were mainly located on the luminal surface whereas SMCs penetrated into the surface and distributed inside the scaffold wall. This double layer tubular scaffold with 3D cell distribution showed the promise to develop it into a novel TEVG for clinical trials in the near future.

  6. Automatic segmentation and analysis of fibrin networks in 3D confocal microscopy images

    NASA Astrophysics Data System (ADS)

    Liu, Xiaomin; Mu, Jian; Machlus, Kellie R.; Wolberg, Alisa S.; Rosen, Elliot D.; Xu, Zhiliang; Alber, Mark S.; Chen, Danny Z.

    2012-02-01

    Fibrin networks are a major component of blood clots that provides structural support to the formation of growing clots. Abnormal fibrin networks that are too rigid or too unstable can promote cardiovascular problems and/or bleeding. However, current biological studies of fibrin networks rarely perform quantitative analysis of their structural properties (e.g., the density of branch points) due to the massive branching structures of the networks. In this paper, we present a new approach for segmenting and analyzing fibrin networks in 3D confocal microscopy images. We first identify the target fibrin network by applying the 3D region growing method with global thresholding. We then produce a one-voxel wide centerline for each fiber segment along which the branch points and other structural information of the network can be obtained. Branch points are identified by a novel approach based on the outer medial axis. Cells within the fibrin network are segmented by a new algorithm that combines cluster detection and surface reconstruction based on the α-shape approach. Our algorithm has been evaluated on computer phantom images of fibrin networks for identifying branch points. Experiments on z-stack images of different types of fibrin networks yielded results that are consistent with biological observations.

  7. Classification of lung nodules in diagnostic CT: an approach based on 3D vascular features, nodule density distribution, and shape features

    NASA Astrophysics Data System (ADS)

    Lo, Shih-Chung B.; Hsu, Li-Yueh; Freedman, Matthew T.; Lure, Yuan Ming F.; Zhao, Hui

    2003-05-01

    We have developed various segmentation and analysis methods for the quantification of lung nodules in thoracic CT. Our methods include the enhancement of lung structures followed by a series of segmentation methods to extract the nodule and to form 3D configuration at an area of interest. The vascular index, aspect ratio, circularity, irregularity, extent, compactness, and convexity were also computed as shape features for quantifying the nodule boundary. The density distribution of the nodule was modeled based on its internal homogeneity and/or heterogeneity. We also used several density related features including entropy, difference entropy as well as other first and second order moments. We have collected 48 cases of lung nodules scanned by thin-slice diagnostic CT. Of these cases, 24 are benign and 24 are malignant. A jackknife experiment was performed using a standard back-propagation neural network as the classifier. The LABROC result showed that the Az of this preliminary study is 0.89.

  8. Quantitative 3D investigation of Neuronal network in mouse spinal cord model.

    PubMed

    Bukreeva, I; Campi, G; Fratini, M; Spanò, R; Bucci, D; Battaglia, G; Giove, F; Bravin, A; Uccelli, A; Venturi, C; Mastrogiacomo, M; Cedola, A

    2017-01-23

    The investigation of the neuronal network in mouse spinal cord models represents the basis for the research on neurodegenerative diseases. In this framework, the quantitative analysis of the single elements in different districts is a crucial task. However, conventional 3D imaging techniques do not have enough spatial resolution and contrast to allow for a quantitative investigation of the neuronal network. Exploiting the high coherence and the high flux of synchrotron sources, X-ray Phase-Contrast multiscale-Tomography allows for the 3D investigation of the neuronal microanatomy without any aggressive sample preparation or sectioning. We investigated healthy-mouse neuronal architecture by imaging the 3D distribution of the neuronal-network with a spatial resolution of 640 nm. The high quality of the obtained images enables a quantitative study of the neuronal structure on a subject-by-subject basis. We developed and applied a spatial statistical analysis on the motor neurons to obtain quantitative information on their 3D arrangement in the healthy-mice spinal cord. Then, we compared the obtained results with a mouse model of multiple sclerosis. Our approach paves the way to the creation of a "database" for the characterization of the neuronal network main features for a comparative investigation of neurodegenerative diseases and therapies.

  9. Proof-of-Concept: Assembling Carbon Nanocrystals for Ordered 3D Network

    DTIC Science & Technology

    2011-12-13

    for 3D ordering carbon nanotube networks. In this project, a ultra-thin poly( methyl methacrylate ) (PMMA) was coated to ~50nm graphene film. At the...mechanical performance. Subsequently, the filtered graphene film was immersed into acetone to etch the filter membrane, and the resultant freestanding

  10. Quantitative 3D investigation of Neuronal network in mouse spinal cord model

    PubMed Central

    Bukreeva, I.; Campi, G.; Fratini, M.; Spanò, R.; Bucci, D.; Battaglia, G.; Giove, F.; Bravin, A.; Uccelli, A.; Venturi, C.; Mastrogiacomo, M.; Cedola, A.

    2017-01-01

    The investigation of the neuronal network in mouse spinal cord models represents the basis for the research on neurodegenerative diseases. In this framework, the quantitative analysis of the single elements in different districts is a crucial task. However, conventional 3D imaging techniques do not have enough spatial resolution and contrast to allow for a quantitative investigation of the neuronal network. Exploiting the high coherence and the high flux of synchrotron sources, X-ray Phase-Contrast multiscale-Tomography allows for the 3D investigation of the neuronal microanatomy without any aggressive sample preparation or sectioning. We investigated healthy-mouse neuronal architecture by imaging the 3D distribution of the neuronal-network with a spatial resolution of 640 nm. The high quality of the obtained images enables a quantitative study of the neuronal structure on a subject-by-subject basis. We developed and applied a spatial statistical analysis on the motor neurons to obtain quantitative information on their 3D arrangement in the healthy-mice spinal cord. Then, we compared the obtained results with a mouse model of multiple sclerosis. Our approach paves the way to the creation of a “database” for the characterization of the neuronal network main features for a comparative investigation of neurodegenerative diseases and therapies. PMID:28112212

  11. Quantitative 3D investigation of Neuronal network in mouse spinal cord model

    NASA Astrophysics Data System (ADS)

    Bukreeva, I.; Campi, G.; Fratini, M.; Spanò, R.; Bucci, D.; Battaglia, G.; Giove, F.; Bravin, A.; Uccelli, A.; Venturi, C.; Mastrogiacomo, M.; Cedola, A.

    2017-01-01

    The investigation of the neuronal network in mouse spinal cord models represents the basis for the research on neurodegenerative diseases. In this framework, the quantitative analysis of the single elements in different districts is a crucial task. However, conventional 3D imaging techniques do not have enough spatial resolution and contrast to allow for a quantitative investigation of the neuronal network. Exploiting the high coherence and the high flux of synchrotron sources, X-ray Phase-Contrast multiscale-Tomography allows for the 3D investigation of the neuronal microanatomy without any aggressive sample preparation or sectioning. We investigated healthy-mouse neuronal architecture by imaging the 3D distribution of the neuronal-network with a spatial resolution of 640 nm. The high quality of the obtained images enables a quantitative study of the neuronal structure on a subject-by-subject basis. We developed and applied a spatial statistical analysis on the motor neurons to obtain quantitative information on their 3D arrangement in the healthy-mice spinal cord. Then, we compared the obtained results with a mouse model of multiple sclerosis. Our approach paves the way to the creation of a “database” for the characterization of the neuronal network main features for a comparative investigation of neurodegenerative diseases and therapies.

  12. Quantum key distribution for security guarantees over QoS-driven 3D satellite networks

    NASA Astrophysics Data System (ADS)

    Wang, Ping; Zhang, Xi; Chen, Genshe; Pham, Khanh; Blasch, Erik

    2014-06-01

    In recent years, quantum-based communication is emerging as a new technique for ensuring secured communications because it can guarantee absolute security between two different remote entities. Quantum communication performs the transmission and exchange of quantum information among distant nodes within a network. Quantum key distribution (QKD) is a methodology for generating and distributing random encryption keys using the principles of quantum physics. In this paper, we investigate the techniques on how to efficiently use QKD in 3D satellite networks and propose an effective method to overcome its communications-distance limitations. In order to implement secured and reliable communications over wireless satellite links, we develop a free-space quantum channel model in satellite communication networks. To enlarge the communications distances over 3D satellite networks, we propose to employ the intermediate nodes to relay the unconditional keys and guarantee the Quantum Bit Error Rate (QBER) for security requirement over 3D satellite networks. We also propose the communication model for QKD security-Quality of Service (QoS) guarantee and an adaptive cooperative routing selection scheme to optimize the throughput performance of QKD-based satellite communications networks. The obtained simulation results verify our proposed schemes.

  13. Lung nodule detection using 3D convolutional neural networks trained on weakly labeled data

    NASA Astrophysics Data System (ADS)

    Anirudh, Rushil; Thiagarajan, Jayaraman J.; Bremer, Timo; Kim, Hyojin

    2016-03-01

    Early detection of lung nodules is currently the one of the most effective ways to predict and treat lung cancer. As a result, the past decade has seen a lot of focus on computer aided diagnosis (CAD) of lung nodules, whose goal is to efficiently detect, segment lung nodules and classify them as being benign or malignant. Effective detection of such nodules remains a challenge due to their arbitrariness in shape, size and texture. In this paper, we propose to employ 3D convolutional neural networks (CNN) to learn highly discriminative features for nodule detection in lieu of hand-engineered ones such as geometric shape or texture. While 3D CNNs are promising tools to model the spatio-temporal statistics of data, they are limited by their need for detailed 3D labels, which can be prohibitively expensive when compared obtaining 2D labels. Existing CAD methods rely on obtaining detailed labels for lung nodules, to train models, which is also unrealistic and time consuming. To alleviate this challenge, we propose a solution wherein the expert needs to provide only a point label, i.e., the central pixel of of the nodule, and its largest expected size. We use unsupervised segmentation to grow out a 3D region, which is used to train the CNN. Using experiments on the SPIE-LUNGx dataset, we show that the network trained using these weak labels can produce reasonably low false positive rates with a high sensitivity, even in the absence of accurate 3D labels.

  14. Minimal camera networks for 3D image based modeling of cultural heritage objects.

    PubMed

    Alsadik, Bashar; Gerke, Markus; Vosselman, George; Daham, Afrah; Jasim, Luma

    2014-03-25

    3D modeling of cultural heritage objects like artifacts, statues and buildings is nowadays an important tool for virtual museums, preservation and restoration. In this paper, we introduce a method to automatically design a minimal imaging network for the 3D modeling of cultural heritage objects. This becomes important for reducing the image capture time and processing when documenting large and complex sites. Moreover, such a minimal camera network design is desirable for imaging non-digitally documented artifacts in museums and other archeological sites to avoid disturbing the visitors for a long time and/or moving delicate precious objects to complete the documentation task. The developed method is tested on the Iraqi famous statue "Lamassu". Lamassu is a human-headed winged bull of over 4.25 m in height from the era of Ashurnasirpal II (883-859 BC). Close-range photogrammetry is used for the 3D modeling task where a dense ordered imaging network of 45 high resolution images were captured around Lamassu with an object sample distance of 1 mm. These images constitute a dense network and the aim of our study was to apply our method to reduce the number of images for the 3D modeling and at the same time preserve pre-defined point accuracy. Temporary control points were fixed evenly on the body of Lamassu and measured by using a total station for the external validation and scaling purpose. Two network filtering methods are implemented and three different software packages are used to investigate the efficiency of the image orientation and modeling of the statue in the filtered (reduced) image networks. Internal and external validation results prove that minimal image networks can provide highly accurate records and efficiency in terms of visualization, completeness, processing time (>60% reduction) and the final accuracy of 1 mm.

  15. 3D Smart Monitoring Network Establishment for Rainfall-triggered Shallow Landslide

    NASA Astrophysics Data System (ADS)

    Liu, C.; Li, W.; Scaioni, M.; Wu, H.; Lu, P.; Li, R.

    2012-12-01

    The most important objective of the monitoring is the discovery of the omen of the landslide. Actually, an efficient monitoring solution is important to collect information as much as possible, either in term of multiple processes observation. It leads to setup 3D smart sensor networks, intended as the whole set of different measurement systems aiming at gathering data on the whole body of landslide site. Actually, sensor networks can be used for both analysis and early-warning. However, some existing sensors network observation method is only paid emphasis on the capture of multiple sources of data. Different with them, this task consider not only on the interpretation of monitoring measurements, but also on the relationships between the observation and the environmental conditions (rainfall). Actually, as the reference of the 3D smart sensors network establishment in this task, the rainfall-triggered landslides is emphasized to use some physically based models that reveal the dynamic changes in positive and negative (suction) pressure heads in the soil during the infiltration process in a regional scale. Nowadays, many physically based slope-stability models have been developed suitable for individual sites of different dimensions (Sidle and Hirotaka, 2006). The representative models are SHALSTAB (Dietrich et al, 1994) and TRIGRS (Baum et al, 2002). Based on the data captured from the 3D smart sensors network, the task will take the model of SHALSTAB and TRIGRS as examples, and analyzed their advantages and disadvantages. It revealed that there are some questions in the exiting shallow rainfall-landslide models: ignoring initial precipitation, rainfall-runoff, saturated-unsaturated infiltration processes. At the same time, we can also optimized the model and the 3D monitoring network, and made it more universality. Couple with the task, an established simulation 3D smart sensors network at Tongji University, Shanhgai, China is introduced in order to explain idea

  16. GIS Data Based Automatic High-Fidelity 3D Road Network Modeling

    NASA Technical Reports Server (NTRS)

    Wang, Jie; Shen, Yuzhong

    2011-01-01

    3D road models are widely used in many computer applications such as racing games and driving simulations_ However, almost all high-fidelity 3D road models were generated manually by professional artists at the expense of intensive labor. There are very few existing methods for automatically generating 3D high-fidelity road networks, especially those existing in the real world. This paper presents a novel approach thai can automatically produce 3D high-fidelity road network models from real 2D road GIS data that mainly contain road. centerline in formation. The proposed method first builds parametric representations of the road centerlines through segmentation and fitting . A basic set of civil engineering rules (e.g., cross slope, superelevation, grade) for road design are then selected in order to generate realistic road surfaces in compliance with these rules. While the proposed method applies to any types of roads, this paper mainly addresses automatic generation of complex traffic interchanges and intersections which are the most sophisticated elements in the road networks

  17. Reliable and Fault-Tolerant Software-Defined Network Operations Scheme for Remote 3D Printing

    NASA Astrophysics Data System (ADS)

    Kim, Dongkyun; Gil, Joon-Min

    2015-03-01

    The recent wide expansion of applicable three-dimensional (3D) printing and software-defined networking (SDN) technologies has led to a great deal of attention being focused on efficient remote control of manufacturing processes. SDN is a renowned paradigm for network softwarization, which has helped facilitate remote manufacturing in association with high network performance, since SDN is designed to control network paths and traffic flows, guaranteeing improved quality of services by obtaining network requests from end-applications on demand through the separated SDN controller or control plane. However, current SDN approaches are generally focused on the controls and automation of the networks, which indicates that there is a lack of management plane development designed for a reliable and fault-tolerant SDN environment. Therefore, in addition to the inherent advantage of SDN, this paper proposes a new software-defined network operations center (SD-NOC) architecture to strengthen the reliability and fault-tolerance of SDN in terms of network operations and management in particular. The cooperation and orchestration between SDN and SD-NOC are also introduced for the SDN failover processes based on four principal SDN breakdown scenarios derived from the failures of the controller, SDN nodes, and connected links. The abovementioned SDN troubles significantly reduce the network reachability to remote devices (e.g., 3D printers, super high-definition cameras, etc.) and the reliability of relevant control processes. Our performance consideration and analysis results show that the proposed scheme can shrink operations and management overheads of SDN, which leads to the enhancement of responsiveness and reliability of SDN for remote 3D printing and control processes.

  18. Treatment Planning for Image-Guided Neuro-Vascular Interventions Using Patient-Specific 3D Printed Phantoms

    PubMed Central

    Russ, M.; O’Hara, R.; Setlur Nagesh, S.V.; Mokin, M.; Jimenez, C.; Siddiqui, A.; Bednarek, D.; Rudin, S.; Ionita, C.

    2015-01-01

    Minimally invasive endovascular image-guided interventions (EIGIs) are the preferred procedures for treatment of a wide range of vascular disorders. Despite benefits including reduced trauma and recovery time, EIGIs have their own challenges. Remote catheter actuation and challenging anatomical morphology may lead to erroneous endovascular device selections, delays or even complications such as vessel injury. EIGI planning using 3D phantoms would allow interventionists to become familiarized with the patient vessel anatomy by first performing the planned treatment on a phantom under standard operating protocols. In this study the optimal workflow to obtain such phantoms from 3D data for interventionist to practice on prior to an actual procedure was investigated. Patient-specific phantoms and phantoms presenting a wide range of challenging geometries were created. Computed Tomographic Angiography (CTA) data was uploaded into a Vitrea 3D station which allows segmentation and resulting stereo-lithographic files to be exported. The files were uploaded using processing software where preloaded vessel structures were included to create a closed-flow vasculature having structural support. The final file was printed, cleaned, connected to a flow loop and placed in an angiographic room for EIGI practice. Various Circle of Willis and cardiac arterial geometries were used. The phantoms were tested for ischemic stroke treatment, distal catheter navigation, aneurysm stenting and cardiac imaging under angiographic guidance. This method should allow for adjustments to treatment plans to be made before the patient is actually in the procedure room and enabling reduced risk of peri-operative complications or delays. PMID:26778878

  19. Probabilistic Neighborhood-Based Data Collection Algorithms for 3D Underwater Acoustic Sensor Networks

    PubMed Central

    Han, Guangjie; Li, Shanshan; Zhu, Chunsheng; Jiang, Jinfang; Zhang, Wenbo

    2017-01-01

    Marine environmental monitoring provides crucial information and support for the exploitation, utilization, and protection of marine resources. With the rapid development of information technology, the development of three-dimensional underwater acoustic sensor networks (3D UASNs) provides a novel strategy to acquire marine environment information conveniently, efficiently and accurately. However, the specific propagation effects of acoustic communication channel lead to decreased successful information delivery probability with increased distance. Therefore, we investigate two probabilistic neighborhood-based data collection algorithms for 3D UASNs which are based on a probabilistic acoustic communication model instead of the traditional deterministic acoustic communication model. An autonomous underwater vehicle (AUV) is employed to traverse along the designed path to collect data from neighborhoods. For 3D UASNs without prior deployment knowledge, partitioning the network into grids can allow the AUV to visit the central location of each grid for data collection. For 3D UASNs in which the deployment knowledge is known in advance, the AUV only needs to visit several selected locations by constructing a minimum probabilistic neighborhood covering set to reduce data latency. Otherwise, by increasing the transmission rounds, our proposed algorithms can provide a tradeoff between data collection latency and information gain. These algorithms are compared with basic Nearest-neighbor Heuristic algorithm via simulations. Simulation analyses show that our proposed algorithms can efficiently reduce the average data collection completion time, corresponding to a decrease of data latency. PMID:28208735

  20. Probabilistic Neighborhood-Based Data Collection Algorithms for 3D Underwater Acoustic Sensor Networks.

    PubMed

    Han, Guangjie; Li, Shanshan; Zhu, Chunsheng; Jiang, Jinfang; Zhang, Wenbo

    2017-02-08

    Marine environmental monitoring provides crucial information and support for the exploitation, utilization, and protection of marine resources. With the rapid development of information technology, the development of three-dimensional underwater acoustic sensor networks (3D UASNs) provides a novel strategy to acquire marine environment information conveniently, efficiently and accurately. However, the specific propagation effects of acoustic communication channel lead to decreased successful information delivery probability with increased distance. Therefore, we investigate two probabilistic neighborhood-based data collection algorithms for 3D UASNs which are based on a probabilistic acoustic communication model instead of the traditional deterministic acoustic communication model. An autonomous underwater vehicle (AUV) is employed to traverse along the designed path to collect data from neighborhoods. For 3D UASNs without prior deployment knowledge, partitioning the network into grids can allow the AUV to visit the central location of each grid for data collection. For 3D UASNs in which the deployment knowledge is known in advance, the AUV only needs to visit several selected locations by constructing a minimum probabilistic neighborhood covering set to reduce data latency. Otherwise, by increasing the transmission rounds, our proposed algorithms can provide a tradeoff between data collection latency and information gain. These algorithms are compared with basic Nearest-neighbor Heuristic algorithm via simulations. Simulation analyses show that our proposed algorithms can efficiently reduce the average data collection completion time, corresponding to a decrease of data latency.

  1. Preparation of Tunable 3D Pillared Carbon Nanotube-Graphene Networks for High-Performance Capacitance

    DTIC Science & Technology

    2011-01-01

    puter modeling has predicted that such a 3D pillared VACNT graphene structure can be used for efficient hydrogen storage after being doped with...Pillared Carbon Nanotube Graphene Networks for High-Performance Capacitance Feng Du,†,§ Dingshan Yu,†,§ Liming Dai,†,* S. Ganguli,‡ V. Varshney,‡ and A...nanotubes (CNTs) and two-dimensional (2D) single-atomic layer graphene , have been demonstrated to show superior thermal, electrical, and mechanical

  2. Pt-Free Counter Electrodes with Carbon Black and 3D Network Epoxy Polymer Composites

    NASA Astrophysics Data System (ADS)

    Kang, Gyeongho; Choi, Jongmin; Park, Taiho

    2016-03-01

    Carbon black (CB) and a 3D network epoxy polymer composite, representing dual functions for conductive corrosion protective layer (CCPL) and catalytic layer (CL) by the control of CB weight ratio against polymer is developed. Our strategy provides a proper approach which applies high catalytic ability and chemical stability of CB in corrosive triiodide/iodide (I3-/I-) redox electrolyte system. The CB and a 3D network epoxy polymer composite coated on the stainless steel (SS) electrode to alternate counter electrodes in dye sensitized solar cells (DSSCs). A two-step spray pyrolysis process is used to apply a solution containing epoxy monomers and a polyfunctional amine hardener with 6 wt% CB to a SS substrate, which forms a CCPL. Subsequently, an 86 wt% CB is applied to form a CL. The excellent catalytic properties and corrosion protective properties of the CB and 3D network epoxy polymer composites produce efficient counter electrodes that can replace fluorine-doped tin oxide (FTO) with CCPL/SS and Pt/FTO with CL/CCPL/SS in DSSCs. This approach provides a promising approach to the development of efficient, stable, and cheap solar cells, paving the way for large-scale commercialization.

  3. Higher-Order Neural Networks Applied to 2D and 3D Object Recognition

    NASA Technical Reports Server (NTRS)

    Spirkovska, Lilly; Reid, Max B.

    1994-01-01

    A Higher-Order Neural Network (HONN) can be designed to be invariant to geometric transformations such as scale, translation, and in-plane rotation. Invariances are built directly into the architecture of a HONN and do not need to be learned. Thus, for 2D object recognition, the network needs to be trained on just one view of each object class, not numerous scaled, translated, and rotated views. Because the 2D object recognition task is a component of the 3D object recognition task, built-in 2D invariance also decreases the size of the training set required for 3D object recognition. We present results for 2D object recognition both in simulation and within a robotic vision experiment and for 3D object recognition in simulation. We also compare our method to other approaches and show that HONNs have distinct advantages for position, scale, and rotation-invariant object recognition. The major drawback of HONNs is that the size of the input field is limited due to the memory required for the large number of interconnections in a fully connected network. We present partial connectivity strategies and a coarse-coding technique for overcoming this limitation and increasing the input field to that required by practical object recognition problems.

  4. An approach to architecture 3D scaffold with interconnective microchannel networks inducing angiogenesis for tissue engineering.

    PubMed

    Sun, Jiaoxia; Wang, Yuanliang; Qian, Zhiyong; Hu, Chenbo

    2011-11-01

    The angiogenesis of 3D scaffold is one of the major current limitations in clinical practice tissue engineering. The new strategy of construction 3D scaffold with microchannel circulation network may improve angiogenesis. In this study, 3D poly(D: ,L: -lactic acid) scaffolds with controllable microchannel structures were fabricated using sacrificial sugar structures. Melt drawing sugar-fiber network produced by a modified filament spiral winding method was used to form the microchannel with adjustable diameters and porosity. This fabrication process was rapid, inexpensive, and highly scalable. The porosity, microchannel diameter, interconnectivity and surface topographies of the scaffold were characterized by scanning electron microscopy. Mechanical properties were evaluated by compression tests. The mean porosity values of the scaffolds were in the 65-78% and the scaffold exhibited microchannel structure with diameter in the 100-200 μm range. The results showed that the scaffolds exhibited an adequate porosity, interconnective microchannel network, and mechanical properties. The cell culture studies with endothelial cells (ECs) demonstrated that the scaffold allowed cells to proliferate and penetrate into the volume of the entire scaffold. Overall, these findings suggest that the fabrication process offers significant advantages and flexibility in generating a variety of non-cytotoxic tissue engineering scaffolds with controllable distributions of porosity and physical properties that could provide the necessary physical cues for ECs and further improve angiogenesis for tissue engineering.

  5. Pt-Free Counter Electrodes with Carbon Black and 3D Network Epoxy Polymer Composites

    PubMed Central

    Kang, Gyeongho; Choi, Jongmin; Park, Taiho

    2016-01-01

    Carbon black (CB) and a 3D network epoxy polymer composite, representing dual functions for conductive corrosion protective layer (CCPL) and catalytic layer (CL) by the control of CB weight ratio against polymer is developed. Our strategy provides a proper approach which applies high catalytic ability and chemical stability of CB in corrosive triiodide/iodide (I3−/I−) redox electrolyte system. The CB and a 3D network epoxy polymer composite coated on the stainless steel (SS) electrode to alternate counter electrodes in dye sensitized solar cells (DSSCs). A two-step spray pyrolysis process is used to apply a solution containing epoxy monomers and a polyfunctional amine hardener with 6 wt% CB to a SS substrate, which forms a CCPL. Subsequently, an 86 wt% CB is applied to form a CL. The excellent catalytic properties and corrosion protective properties of the CB and 3D network epoxy polymer composites produce efficient counter electrodes that can replace fluorine-doped tin oxide (FTO) with CCPL/SS and Pt/FTO with CL/CCPL/SS in DSSCs. This approach provides a promising approach to the development of efficient, stable, and cheap solar cells, paving the way for large-scale commercialization. PMID:26961256

  6. Artificial neural networks and model-based recognition of 3-D objects from 2-D images

    NASA Astrophysics Data System (ADS)

    Chao, Chih-Ho; Dhawan, Atam P.

    1992-09-01

    A computer vision system is developed for 3-D object recognition using artificial neural networks and a knowledge-based top-down feedback analysis system. This computer vision system can adequately analyze an incomplete edge map provided by a low-level processor for 3-D representation and recognition using key features. The key features are selected using a priority assignment and then used in an artificial neural network for matching with model key features. The result of such matching is utilized in generating the model-driven top-down feedback analysis. From the incomplete edge map we try to pick a candidate pattern utilizing the key feature priority assignment. The highest priority is given for the most connected node and associated features. The features are space invariant structures and sets of orientation for edge primitives. These features are now mapped into real numbers. A Hopfield network is then applied with two levels of matching to reduce the search time. The first match is to choose the class of possible model, the second match is then to find the model closest to the data patterns. This model is then rotated in 3-D to find the best match with the incomplete edge patterns and to provide the additional features in 3-D. In the case of multiple objects, a dynamically interconnected search strategy is designed to recognize objects using one pattern at a time. This strategy is also useful in recognizing occluded objects. The experimental results presented show the capability and effectiveness of this system.

  7. Statistical and neural network classifiers in model-based 3-D object recognition

    NASA Astrophysics Data System (ADS)

    Newton, Scott C.; Nutter, Brian S.; Mitra, Sunanda

    1991-02-01

    For autonomous machines equipped with vision capabilities and in a controlled environment 3-D model-based object identification methodologies will in general solve rigid body recognition problems. In an uncontrolled environment however several factors pose difficulties for correct identification. We have addressed the problem of 3-D object recognition using a number of methods including neural network classifiers and a Bayesian-like classifier for matching image data with model projection-derived data [1 21. Neural network classifiers used began operation as simple feature vector classifiers. However unmodelled signal behavior was learned with additional samples yielding great improvement in classification rates. The model analysis drastically shortened training time of both classification systems. In an environment where signal behavior is not accurately modelled two separate forms of learning give the systems the ability to update estimates of this behavior. Required of course are sufficient samples to learn this new information. Given sufficient information and a well-controlled environment identification of 3-D objects from a limited number of classes is indeed possible. 1.

  8. Percolation properties of 3-D multiscale pore networks: how connectivity controls soil filtration processes

    NASA Astrophysics Data System (ADS)

    Perrier, E. M. A.; Bird, N. R. A.; Rieutord, T. B.

    2010-10-01

    Quantifying the connectivity of pore networks is a key issue not only for modelling fluid flow and solute transport in porous media but also for assessing the ability of soil ecosystems to filter bacteria, viruses and any type of living microorganisms as well inert particles which pose a contamination risk. Straining is the main mechanical component of filtration processes: it is due to size effects, when a given soil retains a conveyed entity larger than the pores through which it is attempting to pass. We postulate that the range of sizes of entities which can be trapped inside soils has to be associated with the large range of scales involved in natural soil structures and that information on the pore size distribution has to be complemented by information on a critical filtration size (CFS) delimiting the transition between percolating and non percolating regimes in multiscale pore networks. We show that the mass fractal dimensions which are classically used in soil science to quantify scaling laws in observed pore size distributions can also be used to build 3-D multiscale models of pore networks exhibiting such a critical transition. We extend to the 3-D case a new theoretical approach recently developed to address the connectivity of 2-D fractal networks (Bird and Perrier, 2009). Theoretical arguments based on renormalisation functions provide insight into multi-scale connectivity and a first estimation of CFS. Numerical experiments on 3-D prefractal media confirm the qualitative theory. These results open the way towards a new methodology to estimate soil filtration efficiency from the construction of soil structural models to be calibrated on available multiscale data.

  9. Percolation properties of 3-D multiscale pore networks: how connectivity controls soil filtration processes

    NASA Astrophysics Data System (ADS)

    Perrier, E. M. A.; Bird, N. R. A.; Rieutord, T. B.

    2010-04-01

    Quantifying the connectivity of pore networks is a key issue not only for modelling fluid flow and solute transport in porous media but also for assessing the ability of soil ecosystems to filter bacteria, viruses and any type of living microorganisms as well inert particles which pose a contamination risk. Straining is the main mechanical component of filtration processes: it is due to size effects, when a given soil retains a conveyed entity larger than the pores through which it is attempting to pass. We postulate that the range of sizes of entities which can be trapped inside soils has to be associated with the large range of scales involved in natural soil structures and that information on the pore size distribution has to be complemented by information on a Critical Filtration Size (CFS) delimiting the transition between percolating and non percolating regimes in multiscale pore networks. We show that the mass fractal dimensions which are classically used in soil science to quantify scaling laws in observed pore size distributions can also be used to build 3-D multiscale models of pore networks exhibiting such a critical transition. We extend to the 3-D case a new theoretical approach recently developed to address the connectivity of 2-D fractal networks (Bird and Perrier, 2009). Theoretical arguments based on renormalisation functions provide insight into multi-scale connectivity and a first estimation of CFS. Numerical experiments on 3-D prefractal media confirm the qualitative theory. These results open the way towards a new methodology to estimate soil filtration efficiency from the construction of soil structural models to be calibrated on available multiscale data.

  10. 3D characterization of the fracture network in a deformed chalk reservoir analogue: The Lagerdorf case

    SciTech Connect

    Koestler, A.G.; Reksten, K.

    1994-12-31

    Quantitative descriptions of the 3D fracture networks in terms of connectivity, fracture types, fracture surface roughness and flow characteristics are necessary for reservoir evaluation, management, and enhanced oil recovery programs of fractured reservoirs. For a period of 2 years, a research project focused on an analogue to fractured chalk reservoirs excellently exposed near Laegerdorf, NW Germany. Upper Cretaceous chalk has been uplifted and deformed by an underlying salt diapir, and is now exploited for the cement industry. In the production wall of a quarry, the fracture network of the deformed chalk was characterized and mapped at different scales. The wall was scraped off as chalk exploitation proceeded, continuously revealing new sections through the faulted and fractured chalk body. A 230 m long part of the 35m high production wall was investigated during its recess of 25m. The large amount of fracture data were analyzed with respect to parameters such as fracture density distribution, orientation- and length distribution, and in terms of the representativity of data sets collected from restricted rock volumes. This 3D description and analysis of a fracture network revealed quantitative generic parameters of importance for modeling chalk reservoirs with less data and lower data quality.

  11. Advanced 3D mesh manipulation in stereolithographic files and post-print processing for the manufacturing of patient-specific vascular flow phantoms

    NASA Astrophysics Data System (ADS)

    O'Hara, Ryan P.; Chand, Arpita; Vidiyala, Sowmya; Arechavala, Stacie M.; Mitsouras, Dimitrios; Rudin, Stephen; Ionita, Ciprian N.

    2016-03-01

    Complex vascular anatomies can cause the failure of image-guided endovascular procedures. 3D printed patient-specific vascular phantoms provide clinicians and medical device companies the ability to preemptively plan surgical treatments, test the likelihood of device success, and determine potential operative setbacks. This research aims to present advanced mesh manipulation techniques of stereolithographic (STL) files segmented from medical imaging and post-print surface optimization to match physiological vascular flow resistance. For phantom design, we developed three mesh manipulation techniques. The first method allows outlet 3D mesh manipulations to merge superfluous vessels into a single junction, decreasing the number of flow outlets and making it feasible to include smaller vessels. Next we introduced Boolean operations to eliminate the need to manually merge mesh layers and eliminate errors of mesh self-intersections that previously occurred. Finally we optimize support addition to preserve the patient anatomical geometry. For post-print surface optimization, we investigated various solutions and methods to remove support material and smooth the inner vessel surface. Solutions of chloroform, alcohol and sodium hydroxide were used to process various phantoms and hydraulic resistance was measured and compared with values reported in literature. The newly mesh manipulation methods decrease the phantom design time by 30 - 80% and allow for rapid development of accurate vascular models. We have created 3D printed vascular models with vessel diameters less than 0.5 mm. The methods presented in this work could lead to shorter design time for patient specific phantoms and better physiological simulations.

  12. 2D image classification for 3D anatomy localization: employing deep convolutional neural networks

    NASA Astrophysics Data System (ADS)

    de Vos, Bob D.; Wolterink, Jelmer M.; de Jong, Pim A.; Viergever, Max A.; Išgum, Ivana

    2016-03-01

    Localization of anatomical regions of interest (ROIs) is a preprocessing step in many medical image analysis tasks. While trivial for humans, it is complex for automatic methods. Classic machine learning approaches require the challenge of hand crafting features to describe differences between ROIs and background. Deep convolutional neural networks (CNNs) alleviate this by automatically finding hierarchical feature representations from raw images. We employ this trait to detect anatomical ROIs in 2D image slices in order to localize them in 3D. In 100 low-dose non-contrast enhanced non-ECG synchronized screening chest CT scans, a reference standard was defined by manually delineating rectangular bounding boxes around three anatomical ROIs -- heart, aortic arch, and descending aorta. Every anatomical ROI was automatically identified using a combination of three CNNs, each analyzing one orthogonal image plane. While single CNNs predicted presence or absence of a specific ROI in the given plane, the combination of their results provided a 3D bounding box around it. Classification performance of each CNN, expressed in area under the receiver operating characteristic curve, was >=0.988. Additionally, the performance of ROI localization was evaluated. Median Dice scores for automatically determined bounding boxes around the heart, aortic arch, and descending aorta were 0.89, 0.70, and 0.85 respectively. The results demonstrate that accurate automatic 3D localization of anatomical structures by CNN-based 2D image classification is feasible.

  13. Anticancer Drug Camptothecin Test in 3D Hydrogel Networks with HeLa cells

    PubMed Central

    Liang, Jun; Susan Sun, Xiuzhi; Yang, Zhilong; Cao, Shuai

    2017-01-01

    Development of a biomimetic 3D culture system for drug screening is necessary to fully understand the in vivo environment. Previously, a self-assembling peptide hydrogel has been reported; the hydrogel exhibited physiological properties superior to a 3D cell culture matrix. In this work, further research using H9e hydrogel with HeLa cells was carried out considering H9e hydrogel’s interaction with camptothecin, a hydrophobic drug. According to AFM images, a PGworks solution triggered H9e hydrogel fiber aggregation and forms a 3D matrix suitable for cell culture. Dynamic rheological studies showed that camptothecin was encapsulated within the hydrogel network concurrently with peptide self-assembly without permanently destroying the hydrogel’s architecture and remodeling ability. Fluorescence measurement indicated negligible interaction between the fluorophore part of camptothecin and the hydrogel, especially at concentration 0.25 and 0.5 wt%. Using a dialysis method, we found that H9e hydrogel could not significantly inhibit the diffusion of camptothecin encapsulated inside the hydrogel matrix. In the cell culture experiment, HeLa cells were simultaneously embedded in the H9e hydrogel with the initialization of hydrogelation. Most importantly, cell viability data after camptothecin treatment showed responses that were drug-dose dependent but unaffected by the H9e hydrogel concentration, indicating that the hydrogel did not inhibit the drug. PMID:28145436

  14. Distributed network, wireless and cloud computing enabled 3-D ultrasound; a new medical technology paradigm.

    PubMed

    Meir, Arie; Rubinsky, Boris

    2009-11-19

    Medical technologies are indispensable to modern medicine. However, they have become exceedingly expensive and complex and are not available to the economically disadvantaged majority of the world population in underdeveloped as well as developed parts of the world. For example, according to the World Health Organization about two thirds of the world population does not have access to medical imaging. In this paper we introduce a new medical technology paradigm centered on wireless technology and cloud computing that was designed to overcome the problems of increasing health technology costs. We demonstrate the value of the concept with an example; the design of a wireless, distributed network and central (cloud) computing enabled three-dimensional (3-D) ultrasound system. Specifically, we demonstrate the feasibility of producing a 3-D high end ultrasound scan at a central computing facility using the raw data acquired at the remote patient site with an inexpensive low end ultrasound transducer designed for 2-D, through a mobile device and wireless connection link between them. Producing high-end 3D ultrasound images with simple low-end transducers reduces the cost of imaging by orders of magnitude. It also removes the requirement of having a highly trained imaging expert at the patient site, since the need for hand-eye coordination and the ability to reconstruct a 3-D mental image from 2-D scans, which is a necessity for high quality ultrasound imaging, is eliminated. This could enable relatively untrained medical workers in developing nations to administer imaging and a more accurate diagnosis, effectively saving the lives of people.

  15. Analysis of fracture networks in a reservoir dolomite by 3D micro-imaging

    NASA Astrophysics Data System (ADS)

    Voorn, Maarten; Hoyer, Stefan; Exner, Ulrike; Reuschlé, Thierry

    2013-04-01

    Narrow fractures in reservoir rocks can be of great importance when determining the hydrocarbon potential of such a reservoir. Such fractures can contribute significantly to - or even be dominant for - the porosity and permeability characteristics of such rocks. Investigating these narrow fractures is therefore important, but not always trivial. Standard laboratory measurements on sample plugs from a reservoir are not always suitable for fractured rocks. Thin section analysis can provide very important information, but mostly only in 2D. Also other sources of information have major drawbacks, such as FMI (Formation Micro-Imager) during coring (insufficient resolution) and hand specimen analysis (no internal information). 3D imaging of reservoir rock samples is a good alternative and extension to the methods mentioned above. The 3D information is in our case obtained by X-ray Micro-Computed Tomography (µCT) imaging. Our used samples are 2 and 3 cm diameter plugs of a narrowly fractured (apertures generally <200 µm) reservoir dolomite (Hauptdolomit formation) from below the Vienna Basin, Austria. µCT has the large advantage of being non-destructive to the samples, and with the chosen sample sizes and settings, the sample rocks and fractures can be imaged with sufficient quality at sufficient resolution. After imaging, the fracture networks need to be extracted (segmented) from the background. Unfortunately, available segmentation approaches in the literature do not provide satisfactory results on such narrow fractures. We therefore developed the multiscale Hessian fracture filter, with which we are able to extract the fracture networks from the datasets in a better way. The largest advantages of this technique are that it is inherently 3D, runs on desktop computers with limited resources, and is implemented in public domain software (ImageJ / FIJI). The results from the multiscale Hessian fracture filtering approach serve as input for porosity determination. Also

  16. Reversible Assembly of Graphitic Carbon Nitride 3D Network for Highly Selective Dyes Absorption and Regeneration.

    PubMed

    Zhang, Yuye; Zhou, Zhixin; Shen, Yanfei; Zhou, Qing; Wang, Jianhai; Liu, Anran; Liu, Songqin; Zhang, Yuanjian

    2016-09-27

    Responsive assembly of 2D materials is of great interest for a range of applications. In this work, interfacial functionalized carbon nitride (CN) nanofibers were synthesized by hydrolyzing bulk CN in sodium hydroxide solution. The reversible assemble and disassemble behavior of the as-prepared CN nanofibers was investigated by using CO2 as a trigger to form a hydrogel network at first. Compared to the most widespread absorbent materials such as active carbon, graphene and previously reported supramolecular gel, the proposed CN hydrogel not only exhibited a competitive absorbing capacity (maximum absorbing capacity of methylene blue up to 402 mg/g) but also overcame the typical deficiencies such as poor selectivity and high energy-consuming regeneration. This work would provide a strategy to construct a 3D CN network and open an avenue for developing smart assembly for potential applications ranging from environment to selective extraction.

  17. Nonthreshold-based event detection for 3d environment monitoring in sensor networks

    SciTech Connect

    Li, M.; Liu, Y.H.; Chen, L.

    2008-12-15

    Event detection is a crucial task for wireless sensor network applications, especially environment monitoring. Existing approaches for event detection are mainly based on some predefined threshold values and, thus, are often inaccurate and incapable of capturing complex events. For example, in coal mine monitoring scenarios, gas leakage or water osmosis can hardly be described by the overrun of specified attribute thresholds but some complex pattern in the full-scale view of the environmental data. To address this issue, we propose a nonthreshold-based approach for the real 3D sensor monitoring environment. We employ energy-efficient methods to collect a time series of data maps from the sensor network and detect complex events through matching the gathered data to spatiotemporal data patterns. Finally, we conduct trace-driven simulations to prove the efficacy and efficiency of this approach on detecting events of complex phenomena from real-life records.

  18. Reticular synthesis of porous molecular 1D nanotubes and 3D networks

    NASA Astrophysics Data System (ADS)

    Slater, A. G.; Little, M. A.; Pulido, A.; Chong, S. Y.; Holden, D.; Chen, L.; Morgan, C.; Wu, X.; Cheng, G.; Clowes, R.; Briggs, M. E.; Hasell, T.; Jelfs, K. E.; Day, G. M.; Cooper, A. I.

    2017-01-01

    Synthetic control over pore size and pore connectivity is the crowning achievement for porous metal-organic frameworks (MOFs). The same level of control has not been achieved for molecular crystals, which are not defined by strong, directional intermolecular coordination bonds. Hence, molecular crystallization is inherently less controllable than framework crystallization, and there are fewer examples of 'reticular synthesis', in which multiple building blocks can be assembled according to a common assembly motif. Here we apply a chiral recognition strategy to a new family of tubular covalent cages to create both 1D porous nanotubes and 3D diamondoid pillared porous networks. The diamondoid networks are analogous to MOFs prepared from tetrahedral metal nodes and linear ditopic organic linkers. The crystal structures can be rationalized by computational lattice-energy searches, which provide an in silico screening method to evaluate candidate molecular building blocks. These results are a blueprint for applying the 'node and strut' principles of reticular synthesis to molecular crystals.

  19. Calibration of an outdoor distributed camera network with a 3D point cloud.

    PubMed

    Ortega, Agustín; Silva, Manuel; Teniente, Ernesto H; Ferreira, Ricardo; Bernardino, Alexandre; Gaspar, José; Andrade-Cetto, Juan

    2014-07-29

    Outdoor camera networks are becoming ubiquitous in critical urban areas of the largest cities around the world. Although current applications of camera networks are mostly tailored to video surveillance, recent research projects are exploiting their use to aid robotic systems in people-assisting tasks. Such systems require precise calibration of the internal and external parameters of the distributed camera network. Despite the fact that camera calibration has been an extensively studied topic, the development of practical methods for user-assisted calibration that minimize user intervention time and maximize precision still pose significant challenges. These camera systems have non-overlapping fields of view, are subject to environmental stress, and are likely to suffer frequent recalibration. In this paper, we propose the use of a 3D map covering the area to support the calibration process and develop an automated method that allows quick and precise calibration of a large camera network. We present two cases of study of the proposed calibration method: one is the calibration of the Barcelona Robot Lab camera network, which also includes direct mappings (homographies) between image coordinates and world points in the ground plane (walking areas) to support person and robot detection and localization algorithms. The second case consist of improving the GPS positioning of geo-tagged images taken with a mobile device in the Facultat de Matemàtiques i Estadística (FME) patio at the Universitat Politècnica de Catalunya (UPC).

  20. Calibration of an Outdoor Distributed Camera Network with a 3D Point Cloud

    PubMed Central

    Ortega, Agustín; Silva, Manuel; Teniente, Ernesto H.; Ferreira, Ricardo; Bernardino, Alexandre; Gaspar, José; Andrade-Cetto, Juan

    2014-01-01

    Outdoor camera networks are becoming ubiquitous in critical urban areas of the largest cities around the world. Although current applications of camera networks are mostly tailored to video surveillance, recent research projects are exploiting their use to aid robotic systems in people-assisting tasks. Such systems require precise calibration of the internal and external parameters of the distributed camera network. Despite the fact that camera calibration has been an extensively studied topic, the development of practical methods for user-assisted calibration that minimize user intervention time and maximize precision still pose significant challenges. These camera systems have non-overlapping fields of view, are subject to environmental stress, and are likely to suffer frequent recalibration. In this paper, we propose the use of a 3D map covering the area to support the calibration process and develop an automated method that allows quick and precise calibration of a large camera network. We present two cases of study of the proposed calibration method: one is the calibration of the Barcelona Robot Lab camera network, which also includes direct mappings (homographies) between image coordinates and world points in the ground plane (walking areas) to support person and robot detection and localization algorithms. The second case consist of improving the GPS positioning of geo-tagged images taken with a mobile device in the Facultat de Matemàtiques i Estadística (FME) patio at the Universitat Politècnica de Catalunya (UPC). PMID:25076221

  1. Rapid microwave-assisted growth of silver nanoparticles on 3D graphene networks for supercapacitor application.

    PubMed

    Khamlich, S; Khamliche, T; Dhlamini, M S; Khenfouch, M; Mothudi, B M; Maaza, M

    2017-05-01

    Silver nanoparticles (AgNPs) grown on a three dimensional (3d) graphene networks (GNs) has been successfully prepared by an efficient and rapid microwave-assisted growth process to form GNs/AgNPs nanocomposite electrode materials for supercapacitor application. The 3d nature of the used GNs offers a unique architecture, which creates an efficient conduction networks and maximum utilization of space and interface, and acts as a conductive layer for the deposited AgNPs. The electrochemical performances of the fabricated electrode were evaluated by cyclic voltammetry (CV), galvanostatic charge/discharge and electrochemical impedance spectroscopy (EIS) tests. Specifically, the optimal GNs/AgNPs nanocomposite exhibits remarkable performances with a high specific capacitance of 528Fg(-1) at a current density of 1Ag(-1) and excellent capacitance retention of ∼93% after 3000cycles. Moreover, this microwave-assisted growth strategy of AgNPs is simple and effective, which could be extended to the construction of other three dimensional graphene based metallic composites for energy storage and conversion applications.

  2. Skeletal camera network embedded structure-from-motion for 3D scene reconstruction from UAV images

    NASA Astrophysics Data System (ADS)

    Xu, Zhihua; Wu, Lixin; Gerke, Markus; Wang, Ran; Yang, Huachao

    2016-11-01

    Structure-from-Motion (SfM) techniques have been widely used for 3D scene reconstruction from multi-view images. However, due to the large computational costs of SfM methods there is a major challenge in processing highly overlapping images, e.g. images from unmanned aerial vehicles (UAV). This paper embeds a novel skeletal camera network (SCN) into SfM to enable efficient 3D scene reconstruction from a large set of UAV images. First, the flight control data are used within a weighted graph to construct a topologically connected camera network (TCN) to determine the spatial connections between UAV images. Second, the TCN is refined using a novel hierarchical degree bounded maximum spanning tree to generate a SCN, which contains a subset of edges from the TCN and ensures that each image is involved in at least a 3-view configuration. Third, the SCN is embedded into the SfM to produce a novel SCN-SfM method, which allows performing tie-point matching only for the actually connected image pairs. The proposed method was applied in three experiments with images from two fixed-wing UAVs and an octocopter UAV, respectively. In addition, the SCN-SfM method was compared to three other methods for image connectivity determination. The comparison shows a significant reduction in the number of matched images if our method is used, which leads to less computational costs. At the same time the achieved scene completeness and geometric accuracy are comparable.

  3. Interim results from a neural network 3-D automatic target recognition program

    NASA Astrophysics Data System (ADS)

    Thoet, William; Rainey, Timothy G.; Slutz, Lee A.; Weingard, Fred

    1992-09-01

    Recent results from the Artificial Neural VIsion Learning (ANVIL) program are presented. The focus of the ANVIL program is to apply neural network technologies to the air-to-surface 3D automatic target recognition (ATR) problem. The 3D Multiple Object Detection and Location System (MODALS) neural network was developed under the ANVIL program to simultaneously detect, locate, segment, and identify multiple targets. The performance results show a very high identification accuracy, a high detection rate, and low false alarm rate, even for areas with high clutter and shadowing. The results are shown as detection/false alarm curves and identification/false alarm curves. In addition, positional detection accuracy is shown for various scale sizes. To provide data for the program, visible terrain board imagery was collected under a variety of background and lighting conditions. Tests were made on over 500 targets of five types and two classes. These targets varied in scale by up to -25%, varied in azimuth by up to 120 degrees, and varied in elevation by up to 10 degrees. The performance results are shown for targets with resolution ranging from 9 to 700 pixels on target. This work is being performed under contract to Wright Laboratory AAAT-1.

  4. Multi-casting approach for vascular networks in cellularized hydrogels.

    PubMed

    Justin, Alexander W; Brooks, Roger A; Markaki, Athina E

    2016-12-01

    Vascularization is essential for living tissue and remains a major challenge in the field of tissue engineering. A lack of a perfusable channel network within a large and densely populated tissue engineered construct leads to necrotic core formation, preventing fabrication of functional tissues and organs. We report a new method for producing a hierarchical, three-dimensional (3D) and perfusable vasculature in a large, cellularized fibrin hydrogel. Bifurcating channels, varying in size from 1 mm to 200-250 µm, are formed using a novel process in which we convert a 3D printed thermoplastic material into a gelatin network template, by way of an intermediate alginate hydrogel. This enables a CAD-based model design, which is highly customizable, reproducible, and which can yield highly complex architectures, to be made into a removable material, which can be used in cellular environments. Our approach yields constructs with a uniform and high density of cells in the bulk, made from bioactive collagen and fibrin hydrogels. Using standard cell staining and immuno-histochemistry techniques, we showed good cell seeding and the presence of tight junctions between channel endothelial cells, and high cell viability and cell spreading in the bulk hydrogel.

  5. Multi-casting approach for vascular networks in cellularized hydrogels

    PubMed Central

    Justin, Alexander W.; Brooks, Roger A.

    2016-01-01

    Vascularization is essential for living tissue and remains a major challenge in the field of tissue engineering. A lack of a perfusable channel network within a large and densely populated tissue engineered construct leads to necrotic core formation, preventing fabrication of functional tissues and organs. We report a new method for producing a hierarchical, three-dimensional (3D) and perfusable vasculature in a large, cellularized fibrin hydrogel. Bifurcating channels, varying in size from 1 mm to 200–250 µm, are formed using a novel process in which we convert a 3D printed thermoplastic material into a gelatin network template, by way of an intermediate alginate hydrogel. This enables a CAD-based model design, which is highly customizable, reproducible, and which can yield highly complex architectures, to be made into a removable material, which can be used in cellular environments. Our approach yields constructs with a uniform and high density of cells in the bulk, made from bioactive collagen and fibrin hydrogels. Using standard cell staining and immuno-histochemistry techniques, we showed good cell seeding and the presence of tight junctions between channel endothelial cells, and high cell viability and cell spreading in the bulk hydrogel. PMID:27928031

  6. Nogo-A regulates vascular network architecture in the postnatal brain.

    PubMed

    Wälchli, Thomas; Ulmann-Schuler, Alexandra; Hintermüller, Christoph; Meyer, Eric; Stampanoni, Marco; Carmeliet, Peter; Emmert, Maximilian Y; Bozinov, Oliver; Regli, Luca; Schwab, Martin E; Vogel, Johannes; Hoerstrup, Simon P

    2017-02-01

    Recently, we discovered a new role for the well-known axonal growth inhibitory molecule Nogo-A as a negative regulator of angiogenesis in the developing central nervous system. However, how Nogo-A affected the three-dimensional (3D) central nervous system (CNS) vascular network architecture remained unknown. Here, using vascular corrosion casting, hierarchical, synchrotron radiation μCT-based network imaging and computer-aided network analysis, we found that genetic ablation of Nogo-A significantly increased the three-dimensional vascular volume fraction in the postnatal day 10 (P10) mouse brain. More detailed analysis of the cerebral cortex revealed that this effect was mainly due to an increased number of capillaries and capillary branchpoints. Interestingly, other vascular parameters such as vessel diameter, -length, -tortuosity, and -volume were comparable between both genotypes for non-capillary vessels and capillaries. Taken together, our three-dimensional data showing more vessel segments and branchpoints at unchanged vessel morphology suggest that stimulated angiogenesis upon Nogo-A gene deletion results in the insertion of complete capillary micro-networks and not just single vessels into existing vascular networks. These findings significantly enhance our understanding of how angiogenesis, vascular remodeling, and three-dimensional vessel network architecture are regulated during central nervous system development. Nogo-A may therefore be a potential novel target for angiogenesis-dependent central nervous system pathologies such as brain tumors or stroke.

  7. Evaluation of the Effectiveness of 3D Vascular Stereoscopic Models in Anatomy Instruction for First Year Medical Students

    ERIC Educational Resources Information Center

    Cui, Dongmei; Wilson, Timothy D.; Rockhold, Robin W.; Lehman, Michael N.; Lynch, James C.

    2017-01-01

    The head and neck region is one of the most complex areas featured in the medical gross anatomy curriculum. The effectiveness of using three-dimensional (3D) models to teach anatomy is a topic of much discussion in medical education research. However, the use of 3D stereoscopic models of the head and neck circulation in anatomy education has not…

  8. Mobile large scale 3D coordinate measuring system based on network of rotating laser automatic theodolites

    NASA Astrophysics Data System (ADS)

    Liu, Zhigang; Liu, Zhongzheng; Wu, Jianwei; Xu, Yaozhong

    2010-08-01

    This paper presents a mobile 3D coordinate measuring system for large scale metrology. This system is composed of a network of rotating laser automatic theodolites (N-RLATs) and a portable touch probe. In the N-RLAT system, each RLAT consists of two laser fans which rotate about its own Z axis at a constant speed and scan the whole metrology space. The optical sensors mounted on the portable touch probe receive the sweeping laser fans and generate the corresponding pulse signals, which establish a relationship between rotating angle of laser fan and time, and then the space angle measurement is converted into the corresponding peak time precision measurement of pulse signal. The rotating laser fans are modeled mathematically as a time varying parametrical vector in its local framework. A two steps on-site calibration method for solving the parameters of each RLAT and coordinate transformation among the N-RLATs. The portable probe is composed of optical sensors array with specified geometrical features and a touch point, on which the coordinates of optical sensors is determined by the N-RLATs and the touch point is estimated by solving a non-linear system. A prototype mobile 3D coordinate measuring system is developed and experiment results show its validity.

  9. Novel enzymatically cross-linked hyaluronan hydrogels support the formation of 3D neuronal networks.

    PubMed

    Broguiere, Nicolas; Isenmann, Luca; Zenobi-Wong, Marcy

    2016-08-01

    Hyaluronan (HA) is an essential component of the central nervous system's extracellular matrix and its high molecular weight (MW) form has anti-inflammatory and anti-fibrotic properties relevant for regenerative medicine. Here, we introduce a new hydrogel based on high MW HA which is cross-linked using the transglutaminase (TG) activity of the activated blood coagulation factor XIII (FXIIIa). These HA-TG gels have significant advantages for neural tissue engineering compared to previous HA gels. Due to their chemical inertness in the absence of FXIIIa, the material can be stored long-term, is stable in solution, and shows no cytotoxicity. The gelation is completely cell-friendly due to the specificity of the enzyme and the gelation rate can be tuned from seconds to hours at physiological pH and independently of stiffness. The gels are injectable, and attach covalently to fibrinogen and fibrin, two common bioactive components in in vitro tissue engineering, as well as proteins present in vivo, allowing the gels to covalently bind to brain or spinal cord defects. These optimal chemical and bioactive properties of HA-TG gels enabled the formation of 3D neuronal cultures of unprecedented performance, showing fast neurite outgrowth, axonal and dendritic speciation, strong synaptic connectivity in 3D networks, and rapidly-occurring and long-lasting coordinated electrical activity.

  10. Regional application of multi-layer artificial neural networks in 3-D ionosphere tomography

    NASA Astrophysics Data System (ADS)

    Ghaffari Razin, Mir Reza; Voosoghi, Behzad

    2016-08-01

    Tomography is a very cost-effective method to study physical properties of the ionosphere. In this paper, residual minimization training neural network (RMTNN) is used in voxel-based tomography to reconstruct of 3-D ionosphere electron density with high spatial resolution. For numerical experiments, observations collected at 37 GPS stations from Iranian permanent GPS network (IPGN) are used. A smoothed TEC approach was used for absolute STEC recovery. To improve the vertical resolution, empirical orthogonal functions (EOFs) obtained from international reference ionosphere 2012 (IRI-2012) used as object function in training neural network. Ionosonde observations is used for validate reliability of the proposed method. Minimum relative error for RMTNN is 1.64% and maximum relative error is 15.61%. Also root mean square error (RMSE) of 0.17 × 1011 (electrons/m3) is computed for RMTNN which is less than RMSE of IRI2012. The results show that RMTNN has higher accuracy and compiles speed than other ionosphere reconstruction methods.

  11. Active 3-D microscaffold system with fluid perfusion for culturing in vitro neuronal networks.

    PubMed

    Rowe, Laura; Almasri, Mahmoud; Lee, Kil; Fogleman, Nick; Brewer, Gregory J; Nam, Yoonkey; Wheeler, Bruce C; Vukasinovic, Jelena; Glezer, Ari; Frazier, A Bruno

    2007-04-01

    This work demonstrated the design, fabrication, packaging, and characterization of an active microscaffold system with fluid perfusion/nutrient delivery functionalities for culturing in vitro neuronal networks from dissociated hippocampal rat pup neurons. The active microscaffold consisted of an 8 x 8 array of hollow, microfabricated, SU-8 towers (1.0 mm or 1.5 mm in height), with integrated, horizontal, SU-8 cross-members that connect adjacent towers, thus forming a 3-D grid that is conducive to branching, growth, and increased network formation of dissociated hippocampal neurons. Each microtower in the microscaffold system contained a hollow channel and multiple fluid ports for media delivery and perfusion of nutrients to the in vitro neuronal network growing within the microscaffold system. Additionally, there were two exposed Au electrodes on the outer wall of each microtower at varying heights (with insulated leads running within the microtower walls), which will later allow for integration of electrical stimulation/recording functionalities into the active microscaffold system. However, characterization of the stimulation/recording electrodes was not included in the scope of this paper. Design, fabrication, fluid packaging, and characterization of the active microscaffold system were performed. Furthermore, use of the active microscaffold system was demonstrated by culturing primary hippocampal embryonic rat pup neurons, and characterizing cell viability within the microscaffold system.

  12. Models and simulation of 3D neuronal dendritic trees using Bayesian networks.

    PubMed

    López-Cruz, Pedro L; Bielza, Concha; Larrañaga, Pedro; Benavides-Piccione, Ruth; DeFelipe, Javier

    2011-12-01

    Neuron morphology is crucial for neuronal connectivity and brain information processing. Computational models are important tools for studying dendritic morphology and its role in brain function. We applied a class of probabilistic graphical models called Bayesian networks to generate virtual dendrites from layer III pyramidal neurons from three different regions of the neocortex of the mouse. A set of 41 morphological variables were measured from the 3D reconstructions of real dendrites and their probability distributions used in a machine learning algorithm to induce the model from the data. A simulation algorithm is also proposed to obtain new dendrites by sampling values from Bayesian networks. The main advantage of this approach is that it takes into account and automatically locates the relationships between variables in the data instead of using predefined dependencies. Therefore, the methodology can be applied to any neuronal class while at the same time exploiting class-specific properties. Also, a Bayesian network was defined for each part of the dendrite, allowing the relationships to change in the different sections and to model heterogeneous developmental factors or spatial influences. Several univariate statistical tests and a novel multivariate test based on Kullback-Leibler divergence estimation confirmed that virtual dendrites were similar to real ones. The analyses of the models showed relationships that conform to current neuroanatomical knowledge and support model correctness. At the same time, studying the relationships in the models can help to identify new interactions between variables related to dendritic morphology.

  13. Structural and property studies on metal-organic compounds with 3-D supramolecular network

    NASA Astrophysics Data System (ADS)

    Zhang, Qi-Ying; Ma, Ke-Fang; Xiao, Hong-Ping; Li, Xin-Hua; Shi, Qian

    2014-07-01

    Two carboxylato-bridged allomeric compounds, {[Cu2(dbsa)2(hmt) (H2O)4]1/2·2H2O}n (1), {[Ni(dbsa)(H2O)2]1/2[Ni(dbsa)(hmt)(H2O)2]1/2·2H2O}n (2) (H2dbsa=meso-2,3-dibromosuccinic acid, hmt=hexamethylenetetramine) have been synthesized and characterized by X-ray structral analyses. The metal ions have two kinds of coordination fashion in one unit, and bridged by carboxylate and hmt ligands along with weak interactions existing in the solid structure, forming a 3-D supramolecular network. Variable-temperature magnetic property studies reveal the existence of antiferromagnetic interactions in 1 and 2 with g=2.2, J1=-3.5 cm-1, J2=-2.8 cm-1 for 1, and g=2.1, J=-3.5 cm-1 for 2.

  14. A 3D Poly(ethylene glycol)-based Tumor Angiogenesis Model to Study the Influence of Vascular Cells on Lung Tumor Cell Behavior

    PubMed Central

    Roudsari, Laila C.; Jeffs, Sydney E.; Witt, Amber S.; Gill, Bartley J.; West, Jennifer L.

    2016-01-01

    Tumor angiogenesis is critical to tumor growth and metastasis, yet much is unknown about the role vascular cells play in the tumor microenvironment. In vitro models that mimic in vivo tumor neovascularization facilitate exploration of this role. Here we investigated lung adenocarcinoma cancer cells (344SQ) and endothelial and pericyte vascular cells encapsulated in cell-adhesive, proteolytically-degradable poly(ethylene) glycol-based hydrogels. 344SQ in hydrogels formed spheroids and secreted proangiogenic growth factors that significantly increased with exposure to transforming growth factor beta 1 (TGF-β1), a potent tumor progression-promoting factor. Vascular cells in hydrogels formed tubule networks with localized activated TGF-β1. To study cancer cell-vascular cell interactions, we engineered a 2-layer hydrogel with 344SQ and vascular cell layers. Large, invasive 344SQ clusters (area > 5,000 μm2, circularity < 0.25) developed at the interface between the layers, and were not evident further from the interface or in control hydrogels without vascular cells. A modified model with spatially restricted 344SQ and vascular cell layers confirmed that observed cluster morphological changes required close proximity to vascular cells. Additionally, TGF-β1 inhibition blocked endothelial cell-driven 344SQ migration. Our findings suggest vascular cells contribute to tumor progression and establish this culture system as a platform for studying tumor vascularization. PMID:27596933

  15. A 3D Poly(ethylene glycol)-based Tumor Angiogenesis Model to Study the Influence of Vascular Cells on Lung Tumor Cell Behavior

    NASA Astrophysics Data System (ADS)

    Roudsari, Laila C.; Jeffs, Sydney E.; Witt, Amber S.; Gill, Bartley J.; West, Jennifer L.

    2016-09-01

    Tumor angiogenesis is critical to tumor growth and metastasis, yet much is unknown about the role vascular cells play in the tumor microenvironment. In vitro models that mimic in vivo tumor neovascularization facilitate exploration of this role. Here we investigated lung adenocarcinoma cancer cells (344SQ) and endothelial and pericyte vascular cells encapsulated in cell-adhesive, proteolytically-degradable poly(ethylene) glycol-based hydrogels. 344SQ in hydrogels formed spheroids and secreted proangiogenic growth factors that significantly increased with exposure to transforming growth factor beta 1 (TGF-β1), a potent tumor progression-promoting factor. Vascular cells in hydrogels formed tubule networks with localized activated TGF-β1. To study cancer cell-vascular cell interactions, we engineered a 2-layer hydrogel with 344SQ and vascular cell layers. Large, invasive 344SQ clusters (area > 5,000 μm2, circularity < 0.25) developed at the interface between the layers, and were not evident further from the interface or in control hydrogels without vascular cells. A modified model with spatially restricted 344SQ and vascular cell layers confirmed that observed cluster morphological changes required close proximity to vascular cells. Additionally, TGF-β1 inhibition blocked endothelial cell-driven 344SQ migration. Our findings suggest vascular cells contribute to tumor progression and establish this culture system as a platform for studying tumor vascularization.

  16. Porosity, permeability and 3D fracture network characterisation of dolomite reservoir rock samples.

    PubMed

    Voorn, Maarten; Exner, Ulrike; Barnhoorn, Auke; Baud, Patrick; Reuschlé, Thierry

    2015-03-01

    With fractured rocks making up an important part of hydrocarbon reservoirs worldwide, detailed analysis of fractures and fracture networks is essential. However, common analyses on drill core and plug samples taken from such reservoirs (including hand specimen analysis, thin section analysis and laboratory porosity and permeability determination) however suffer from various problems, such as having a limited resolution, providing only 2D and no internal structure information, being destructive on the samples and/or not being representative for full fracture networks. In this paper, we therefore explore the use of an additional method - non-destructive 3D X-ray micro-Computed Tomography (μCT) - to obtain more information on such fractured samples. Seven plug-sized samples were selected from narrowly fractured rocks of the Hauptdolomit formation, taken from wellbores in the Vienna basin, Austria. These samples span a range of different fault rocks in a fault zone interpretation, from damage zone to fault core. We process the 3D μCT data in this study by a Hessian-based fracture filtering routine and can successfully extract porosity, fracture aperture, fracture density and fracture orientations - in bulk as well as locally. Additionally, thin sections made from selected plug samples provide 2D information with a much higher detail than the μCT data. Finally, gas- and water permeability measurements under confining pressure provide an important link (at least in order of magnitude) towards more realistic reservoir conditions. This study shows that 3D μCT can be applied efficiently on plug-sized samples of naturally fractured rocks, and that although there are limitations, several important parameters can be extracted. μCT can therefore be a useful addition to studies on such reservoir rocks, and provide valuable input for modelling and simulations. Also permeability experiments under confining pressure provide important additional insights. Combining these and

  17. Porosity, permeability and 3D fracture network characterisation of dolomite reservoir rock samples

    PubMed Central

    Voorn, Maarten; Exner, Ulrike; Barnhoorn, Auke; Baud, Patrick; Reuschlé, Thierry

    2015-01-01

    With fractured rocks making up an important part of hydrocarbon reservoirs worldwide, detailed analysis of fractures and fracture networks is essential. However, common analyses on drill core and plug samples taken from such reservoirs (including hand specimen analysis, thin section analysis and laboratory porosity and permeability determination) however suffer from various problems, such as having a limited resolution, providing only 2D and no internal structure information, being destructive on the samples and/or not being representative for full fracture networks. In this paper, we therefore explore the use of an additional method – non-destructive 3D X-ray micro-Computed Tomography (μCT) – to obtain more information on such fractured samples. Seven plug-sized samples were selected from narrowly fractured rocks of the Hauptdolomit formation, taken from wellbores in the Vienna basin, Austria. These samples span a range of different fault rocks in a fault zone interpretation, from damage zone to fault core. We process the 3D μCT data in this study by a Hessian-based fracture filtering routine and can successfully extract porosity, fracture aperture, fracture density and fracture orientations – in bulk as well as locally. Additionally, thin sections made from selected plug samples provide 2D information with a much higher detail than the μCT data. Finally, gas- and water permeability measurements under confining pressure provide an important link (at least in order of magnitude) towards more realistic reservoir conditions. This study shows that 3D μCT can be applied efficiently on plug-sized samples of naturally fractured rocks, and that although there are limitations, several important parameters can be extracted. μCT can therefore be a useful addition to studies on such reservoir rocks, and provide valuable input for modelling and simulations. Also permeability experiments under confining pressure provide important additional insights. Combining these

  18. Vascular endothelial growth factor receptor-2 (VEGFR-2) inhibitors: development and validation of predictive 3-D QSAR models through extensive ligand- and structure-based approaches

    NASA Astrophysics Data System (ADS)

    Ragno, Rino; Ballante, Flavio; Pirolli, Adele; Wickersham, Richard B.; Patsilinakos, Alexandros; Hesse, Stéphanie; Perspicace, Enrico; Kirsch, Gilbert

    2015-08-01

    Vascular endothelial growth factor receptor-2, (VEGFR-2), is a key element in angiogenesis, the process by which new blood vessels are formed, and is thus an important pharmaceutical target. Here, 3-D quantitative structure-activity relationship (3-D QSAR) were used to build a quantitative screening and pharmacophore model of the VEGFR-2 receptors for design of inhibitors with improved activities. Most of available experimental data information has been used as training set to derive optimized and fully cross-validated eight mono-probe and a multi-probe quantitative models. Notable is the use of 262 molecules, aligned following both structure-based and ligand-based protocols, as external test set confirming the 3-D QSAR models' predictive capability and their usefulness in design new VEGFR-2 inhibitors. From a survey on literature, this is the first generation of a wide-ranging computational medicinal chemistry application on VEGFR2 inhibitors.

  19. Lightweight NiFe2O4 with controllable 3D network structure and enhanced microwave absorbing properties

    PubMed Central

    Wang, Fen; Wang, Xing; Zhu, Jianfeng; Yang, Haibo; Kong, Xingang; Liu, Xiao

    2016-01-01

    3D network structure NiFe2O4 was successfully synthesized by a templated salt precipitation method using PMMA colloid crystal as templates. The morphology, phase composition and microwave absorbing properties of as-prepared samples were characterized by scanning electron microscopy (SEM), X-ray diffraction (XRD), vector network analyzer (VNA), and so on. The results revealed that the 3D network structure was configurated with smooth spherical walls composed of NiFe2O4 nanocrystals and their pore diameters being in the range of 80–250 nm. The microwave absorption properties of the 3D network structure NiFe2O4 were crucially determined by the special structure. The synergy of intrinsic magnetic loss of magnetic NiFe2O4 and the interfacial polarization enhanced by 3D network structure and the interaction of multiple mechanisms endowed the sample with the feature of strong absorption, broad bandwidth and lightweight. There is more than one valley in the reflection loss curves and the maximum reflection loss is 27.5 dB with a bandwidth of 4 GHz. Moreover, the 3D network structure NiFe2O4 show a greater reflection loss with the same thickness comparing to the ordinary NiFe2O4 nanoparticles, which could achieve the feature of lightweight of the microwave absorbing materials. PMID:27897209

  20. Lightweight NiFe2O4 with controllable 3D network structure and enhanced microwave absorbing properties

    NASA Astrophysics Data System (ADS)

    Wang, Fen; Wang, Xing; Zhu, Jianfeng; Yang, Haibo; Kong, Xingang; Liu, Xiao

    2016-11-01

    3D network structure NiFe2O4 was successfully synthesized by a templated salt precipitation method using PMMA colloid crystal as templates. The morphology, phase composition and microwave absorbing properties of as-prepared samples were characterized by scanning electron microscopy (SEM), X-ray diffraction (XRD), vector network analyzer (VNA), and so on. The results revealed that the 3D network structure was configurated with smooth spherical walls composed of NiFe2O4 nanocrystals and their pore diameters being in the range of 80–250 nm. The microwave absorption properties of the 3D network structure NiFe2O4 were crucially determined by the special structure. The synergy of intrinsic magnetic loss of magnetic NiFe2O4 and the interfacial polarization enhanced by 3D network structure and the interaction of multiple mechanisms endowed the sample with the feature of strong absorption, broad bandwidth and lightweight. There is more than one valley in the reflection loss curves and the maximum reflection loss is 27.5 dB with a bandwidth of 4 GHz. Moreover, the 3D network structure NiFe2O4 show a greater reflection loss with the same thickness comparing to the ordinary NiFe2O4 nanoparticles, which could achieve the feature of lightweight of the microwave absorbing materials.

  1. Lightweight NiFe2O4 with controllable 3D network structure and enhanced microwave absorbing properties.

    PubMed

    Wang, Fen; Wang, Xing; Zhu, Jianfeng; Yang, Haibo; Kong, Xingang; Liu, Xiao

    2016-11-29

    3D network structure NiFe2O4 was successfully synthesized by a templated salt precipitation method using PMMA colloid crystal as templates. The morphology, phase composition and microwave absorbing properties of as-prepared samples were characterized by scanning electron microscopy (SEM), X-ray diffraction (XRD), vector network analyzer (VNA), and so on. The results revealed that the 3D network structure was configurated with smooth spherical walls composed of NiFe2O4 nanocrystals and their pore diameters being in the range of 80-250 nm. The microwave absorption properties of the 3D network structure NiFe2O4 were crucially determined by the special structure. The synergy of intrinsic magnetic loss of magnetic NiFe2O4 and the interfacial polarization enhanced by 3D network structure and the interaction of multiple mechanisms endowed the sample with the feature of strong absorption, broad bandwidth and lightweight. There is more than one valley in the reflection loss curves and the maximum reflection loss is 27.5 dB with a bandwidth of 4 GHz. Moreover, the 3D network structure NiFe2O4 show a greater reflection loss with the same thickness comparing to the ordinary NiFe2O4 nanoparticles, which could achieve the feature of lightweight of the microwave absorbing materials.

  2. Estimation of 3-D pore network coordination number of rocks from watershed segmentation of a single 2-D image

    NASA Astrophysics Data System (ADS)

    Rabbani, Arash; Ayatollahi, Shahab; Kharrat, Riyaz; Dashti, Nader

    2016-08-01

    In this study, we have utilized 3-D micro-tomography images of real and synthetic rocks to introduce two mathematical correlations which estimate the distribution parameters of 3-D coordination number using a single 2-D cross-sectional image. By applying a watershed segmentation algorithm, it is found that the distribution of 3-D coordination number is acceptably predictable by statistical analysis of the network extracted from 2-D images. In this study, we have utilized 25 volumetric images of rocks in order to propose two mathematical formulas. These formulas aim to approximate the average and standard deviation of coordination number in 3-D pore networks. Then, the formulas are applied for five independent test samples to evaluate the reliability. Finally, pore network flow modeling is used to find the error of absolute permeability prediction using estimated and measured coordination numbers. Results show that the 2-D images are considerably informative about the 3-D network of the rocks and can be utilized to approximate the 3-D connectivity of the porous spaces with determination coefficient of about 0.85 that seems to be acceptable considering the variety of the studied samples.

  3. Hydrogen adsorption and desorption with 3D silicon nanotube-network and film-network structures: Monte Carlo simulations

    NASA Astrophysics Data System (ADS)

    Li, Ming; Huang, Xiaobo; Kang, Zhan

    2015-08-01

    Hydrogen is clean, sustainable, and renewable, thus is viewed as promising energy carrier. However, its industrial utilization is greatly hampered by the lack of effective hydrogen storage and release method. Carbon nanotubes (CNTs) were viewed as one of the potential hydrogen containers, but it has been proved that pure CNTs cannot attain the desired target capacity of hydrogen storage. In this paper, we present a numerical study on the material-driven and structure-driven hydrogen adsorption of 3D silicon networks and propose a deformation-driven hydrogen desorption approach based on molecular simulations. Two types of 3D nanostructures, silicon nanotube-network (Si-NN) and silicon film-network (Si-FN), are first investigated in terms of hydrogen adsorption and desorption capacity with grand canonical Monte Carlo simulations. It is revealed that the hydrogen storage capacity is determined by the lithium doping ratio and geometrical parameters, and the maximum hydrogen uptake can be achieved by a 3D nanostructure with optimal configuration and doping ratio obtained through design optimization technique. For hydrogen desorption, a mechanical-deformation-driven-hydrogen-release approach is proposed. Compared with temperature/pressure change-induced hydrogen desorption method, the proposed approach is so effective that nearly complete hydrogen desorption can be achieved by Si-FN nanostructures under sufficient compression but without structural failure observed. The approach is also reversible since the mechanical deformation in Si-FN nanostructures can be elastically recovered, which suggests a good reusability. This study may shed light on the mechanism of hydrogen adsorption and desorption and thus provide useful guidance toward engineering design of microstructural hydrogen (or other gas) adsorption materials.

  4. Hydrogen adsorption and desorption with 3D silicon nanotube-network and film-network structures: Monte Carlo simulations

    SciTech Connect

    Li, Ming; Kang, Zhan; Huang, Xiaobo

    2015-08-28

    Hydrogen is clean, sustainable, and renewable, thus is viewed as promising energy carrier. However, its industrial utilization is greatly hampered by the lack of effective hydrogen storage and release method. Carbon nanotubes (CNTs) were viewed as one of the potential hydrogen containers, but it has been proved that pure CNTs cannot attain the desired target capacity of hydrogen storage. In this paper, we present a numerical study on the material-driven and structure-driven hydrogen adsorption of 3D silicon networks and propose a deformation-driven hydrogen desorption approach based on molecular simulations. Two types of 3D nanostructures, silicon nanotube-network (Si-NN) and silicon film-network (Si-FN), are first investigated in terms of hydrogen adsorption and desorption capacity with grand canonical Monte Carlo simulations. It is revealed that the hydrogen storage capacity is determined by the lithium doping ratio and geometrical parameters, and the maximum hydrogen uptake can be achieved by a 3D nanostructure with optimal configuration and doping ratio obtained through design optimization technique. For hydrogen desorption, a mechanical-deformation-driven-hydrogen-release approach is proposed. Compared with temperature/pressure change-induced hydrogen desorption method, the proposed approach is so effective that nearly complete hydrogen desorption can be achieved by Si-FN nanostructures under sufficient compression but without structural failure observed. The approach is also reversible since the mechanical deformation in Si-FN nanostructures can be elastically recovered, which suggests a good reusability. This study may shed light on the mechanism of hydrogen adsorption and desorption and thus provide useful guidance toward engineering design of microstructural hydrogen (or other gas) adsorption materials.

  5. Fracture-network 3D characterization in a deformed chalk reservoir analogue -- the Laegerdorf case

    SciTech Connect

    Koestler, A.G.; Reksten, K.

    1995-09-01

    Quantitative descriptions of 3D fracture networks in terms of fracture characteristics and connectivity are necessary for reservoir evaluation, management, and EOR programs of fractured reservoirs. The author`s research has focused on an analogue to North Sea fractured chalk reservoirs that is excellently exposed near Laegerdorf, northwest Germany. An underlying salt diapir uplifted and deformed Upper Cretaceous chalk; the cement industry now exploits it. The fracture network in the production wall of the quarry was characterized and mapped at different scales, and 12 profiles of the 230-m wide and 35-m high production wall were investigated as the wall receded 25 m. In addition, three wells were drilled into the chalk volume. The wells were cored and the wellbores were imaged with both the resistivity formation micro scanner (FMS) and the sonic circumferential borehole image logger (CBIL). The large amount of fracture data was analyzed with respect to parameters, such as fracture density distribution, orientation, and length distribution, and in terms of the representativity and predictability of data sets collected from restricted rock volumes.

  6. Knowledge Based 3d Building Model Recognition Using Convolutional Neural Networks from LIDAR and Aerial Imageries

    NASA Astrophysics Data System (ADS)

    Alidoost, F.; Arefi, H.

    2016-06-01

    In recent years, with the development of the high resolution data acquisition technologies, many different approaches and algorithms have been presented to extract the accurate and timely updated 3D models of buildings as a key element of city structures for numerous applications in urban mapping. In this paper, a novel and model-based approach is proposed for automatic recognition of buildings' roof models such as flat, gable, hip, and pyramid hip roof models based on deep structures for hierarchical learning of features that are extracted from both LiDAR and aerial ortho-photos. The main steps of this approach include building segmentation, feature extraction and learning, and finally building roof labeling in a supervised pre-trained Convolutional Neural Network (CNN) framework to have an automatic recognition system for various types of buildings over an urban area. In this framework, the height information provides invariant geometric features for convolutional neural network to localize the boundary of each individual roofs. CNN is a kind of feed-forward neural network with the multilayer perceptron concept which consists of a number of convolutional and subsampling layers in an adaptable structure and it is widely used in pattern recognition and object detection application. Since the training dataset is a small library of labeled models for different shapes of roofs, the computation time of learning can be decreased significantly using the pre-trained models. The experimental results highlight the effectiveness of the deep learning approach to detect and extract the pattern of buildings' roofs automatically considering the complementary nature of height and RGB information.

  7. APEnet+: a 3D Torus network optimized for GPU-based HPC Systems

    NASA Astrophysics Data System (ADS)

    Ammendola, R.; Biagioni, A.; Frezza, O.; Lo Cicero, F.; Lonardo, A.; Paolucci, P. S.; Rossetti, D.; Simula, F.; Tosoratto, L.; Vicini, P.

    2012-12-01

    In the supercomputing arena, the strong rise of GPU-accelerated clusters is a matter of fact. Within INFN, we proposed an initiative — the QUonG project — whose aim is to deploy a high performance computing system dedicated to scientific computations leveraging on commodity multi-core processors coupled with latest generation GPUs. The inter-node interconnection system is based on a point-to-point, high performance, low latency 3D torus network which is built in the framework of the APEnet+ project. It takes the form of an FPGA-based PCIe network card exposing six full bidirectional links running at 34 Gbps each that implements the RDMA protocol. In order to enable significant access latency reduction for inter-node data transfer, a direct network-to-GPU interface was built. The specialized hardware blocks, integrated in the APEnet+ board, provide support for GPU-initiated communications using the so called PCIe peer-to-peer (P2P) transactions. This development is made in close collaboration with the GPU vendor NVIDIA. The final shape of a complete QUonG deployment is an assembly of standard 42U racks, each one capable of 80 TFLOPS/rack of peak performance, at a cost of 5 k€/T F LOPS and for an estimated power consumption of 25 kW/rack. In this paper we report on the status of final rack deployment and on the R&D activities for 2012 that will focus on performance enhancement of the APEnet+ hardware through the adoption of new generation 28 nm FPGAs allowing the implementation of PCIe Gen3 host interface and the addition of new fault tolerance-oriented capabilities.

  8. Performance of a neural-network-based 3-D object recognition system

    NASA Astrophysics Data System (ADS)

    Rak, Steven J.; Kolodzy, Paul J.

    1991-08-01

    Object recognition in laser radar sensor imagery is a challenging application of neural networks. The task involves recognition of objects at a variety of distances and aspects with significant levels of sensor noise. These variables are related to sensor parameters such as sensor signal strength and angular resolution, as well as object range and viewing aspect. The effect of these parameters on a fixed recognition system based on log-polar mapped features and an unsupervised neural network classifier are investigated. This work is an attempt to quantify the design parameters of a laser radar measurement system with respect to classifying and/or identifying objects by the shape of their silhouettes. Experiments with vehicle silhouettes rotated through 90 deg-of-view angle from broadside to head-on ('out-of-plane' rotation) have been used to quantify the performance of a log-polar map/neural-network based 3-D object recognition system. These experiments investigated several key issues such as category stability, category memory compression, image fidelity, and viewing aspect. Initial results indicate a compression from 720 possible categories (8 vehicles X 90 out-of-plane rotations) to a classifier memory with approximately 30 stable recognition categories. These results parallel the human experience of studying an object from several viewing angles yet recognizing it through a wide range of viewing angles. Results are presented illustrating category formation for an eight vehicle dataset as a function of several sensor parameters. These include: (1) sensor noise, as a function of carrier-to-noise ratio; (2) pixels on the vehicle, related to angular resolution and target range; and (3) viewing aspect, as related to sensor-to-platform depression angle. This work contributes to the formation of a three- dimensional object recognition system.

  9. Network dynamics of 3D engineered neuronal cultures: a new experimental model for in-vitro electrophysiology

    PubMed Central

    Frega, Monica; Tedesco, Mariateresa; Massobrio, Paolo; Pesce, Mattia; Martinoia, Sergio

    2014-01-01

    Despite the extensive use of in-vitro models for neuroscientific investigations and notwithstanding the growing field of network electrophysiology, all studies on cultured cells devoted to elucidate neurophysiological mechanisms and computational properties, are based on 2D neuronal networks. These networks are usually grown onto specific rigid substrates (also with embedded electrodes) and lack of most of the constituents of the in-vivo like environment: cell morphology, cell-to-cell interaction and neuritic outgrowth in all directions. Cells in a brain region develop in a 3D space and interact with a complex multi-cellular environment and extracellular matrix. Under this perspective, 3D networks coupled to micro-transducer arrays, represent a new and powerful in-vitro model capable of better emulating in-vivo physiology. In this work, we present a new experimental paradigm constituted by 3D hippocampal networks coupled to Micro-Electrode-Arrays (MEAs) and we show how the features of the recorded network dynamics differ from the corresponding 2D network model. Further development of the proposed 3D in-vitro model by adding embedded functionalized scaffolds might open new prospects for manipulating, stimulating and recording the neuronal activity to elucidate neurophysiological mechanisms and to design bio-hybrid microsystems. PMID:24976386

  10. Network dynamics of 3D engineered neuronal cultures: a new experimental model for in-vitro electrophysiology.

    PubMed

    Frega, Monica; Tedesco, Mariateresa; Massobrio, Paolo; Pesce, Mattia; Martinoia, Sergio

    2014-06-30

    Despite the extensive use of in-vitro models for neuroscientific investigations and notwithstanding the growing field of network electrophysiology, all studies on cultured cells devoted to elucidate neurophysiological mechanisms and computational properties, are based on 2D neuronal networks. These networks are usually grown onto specific rigid substrates (also with embedded electrodes) and lack of most of the constituents of the in-vivo like environment: cell morphology, cell-to-cell interaction and neuritic outgrowth in all directions. Cells in a brain region develop in a 3D space and interact with a complex multi-cellular environment and extracellular matrix. Under this perspective, 3D networks coupled to micro-transducer arrays, represent a new and powerful in-vitro model capable of better emulating in-vivo physiology. In this work, we present a new experimental paradigm constituted by 3D hippocampal networks coupled to Micro-Electrode-Arrays (MEAs) and we show how the features of the recorded network dynamics differ from the corresponding 2D network model. Further development of the proposed 3D in-vitro model by adding embedded functionalized scaffolds might open new prospects for manipulating, stimulating and recording the neuronal activity to elucidate neurophysiological mechanisms and to design bio-hybrid microsystems.

  11. The effects of Δ9-Tetrahydrocannabinole treatment on gonadal micro-vascularization and affected fertility examined by SEM and 3D-morphometry

    NASA Astrophysics Data System (ADS)

    Erlbacher, K. M. T.; Minnich, B.

    2015-10-01

    The present study focuses on the effects of Δ9-tetrahydrocannabinol (THC) on the reproductive system in nude rats with special emphasis on how Δ9-THC impacts the vascularization of testes which in turn indirectly influences fertility. Basically, Δ9-tetrahydrocannabinol (THC) causes not only negative (psychoactive) effects in the human body as cannabinole administration in medical use (dose-dependent) offers multiple new treatment opportunities such as pain relief or containment of various cancers. Concerning the reproductive system it strongly influences CB-receptors along the hypothalamic-pituitary-gonadal axis resulting in reduced plasma testosterone levels. There is also altered sperm quality parameters reported such as sperm motility or sperm count. On the other hand Δ9-THC effects endothelial growth factors (VEGF, Ang-1 etc.) respectively acts on their specific receptors which in turn modify angiogenesis and vascularization of tissues and organs (e.g. tumorous tissues). This leads to new therapeutical strategies in the suppression of various cancers by inhibiting (neo-)vascularization and in turn famishment of tumorous tissues (lack of nutrition supply). Here we studied the micro-vascularization of gonads in a long-term THC-treated nude rat model by vascular corrosion casting, SEM and 3D-morphometry.

  12. 3-D Stent Detection in Intravascular OCT Using a Bayesian Network and Graph Search

    PubMed Central

    Wang, Zhao; Jenkins, Michael W.; Linderman, George C.; Bezerra, Hiram G.; Fujino, Yusuke; Costa, Marco A.; Wilson, David L.

    2015-01-01

    Worldwide, many hundreds of thousands of stents are implanted each year to revascularize occlusions in coronary arteries. Intravascular optical coherence tomography (OCT) is an important emerging imaging technique, which has the resolution and contrast necessary to quantitatively analyze stent deployment and tissue coverage following stent implantation. Automation is needed, as current, it takes up to 16 hours to manually analyze hundreds of images and thousands of stent struts from a single pullback. For automated strut detection, we used image formation physics and machine learning via a Bayesian network, and 3-D knowledge of stent structure via graph search. Graph search was done on en face projections using minimum spanning tree algorithms. Depths of all struts in a pullback were simultaneously determined using graph cut. To assess the method, we employed the largest validation data set used so far, involving more than 8,000 clinical images from 103 pullbacks from 72 patients. Automated strut detection achieved a 0.91±0.04 recall, and 0.84±0.08 precision. Performance was robust in images of varying quality. This method can improve the workflow for analysis of stent clinical trial data, and can potentially be used in the clinic to facilitate real-time stent analysis and visualization, aiding stent implantation. PMID:25751863

  13. Robust automatic rodent brain extraction using 3-D pulse-coupled neural networks (PCNN).

    PubMed

    Chou, Nigel; Wu, Jiarong; Bai Bingren, Jordan; Qiu, Anqi; Chuang, Kai-Hsiang

    2011-09-01

    Brain extraction is an important preprocessing step for further processing (e.g., registration and morphometric analysis) of brain MRI data. Due to the operator-dependent and time-consuming nature of manual extraction, automated or semi-automated methods are essential for large-scale studies. Automatic methods are widely available for human brain imaging, but they are not optimized for rodent brains and hence may not perform well. To date, little work has been done on rodent brain extraction. We present an extended pulse-coupled neural network algorithm that operates in 3-D on the entire image volume. We evaluated its performance under varying SNR and resolution and tested this method against the brain-surface extractor (BSE) and a level-set algorithm proposed for mouse brain. The results show that this method outperforms existing methods and is robust under low SNR and with partial volume effects at lower resolutions. Together with the advantage of minimal user intervention, this method will facilitate automatic processing of large-scale rodent brain studies.

  14. Spatio-temporal interpolation of soil moisture in 3D+T using automated sensor network data

    NASA Astrophysics Data System (ADS)

    Gasch, C.; Hengl, T.; Magney, T. S.; Brown, D. J.; Gräler, B.

    2014-12-01

    Soil sensor networks provide frequent in situ measurements of dynamic soil properties at fixed locations, producing data in 2- or 3-dimensions and through time (2D+T and 3D+T). Spatio-temporal interpolation of 3D+T point data produces continuous estimates that can then be used for prediction at unsampled times and locations, as input for process models, and can simply aid in visualization of properties through space and time. Regression-kriging with 3D and 2D+T data has successfully been implemented, but currently the field of geostatistics lacks an analytical framework for modeling 3D+T data. Our objective is to develop robust 3D+T models for mapping dynamic soil data that has been collected with high spatial and temporal resolution. For this analysis, we use data collected from a sensor network installed on the R.J. Cook Agronomy Farm (CAF), a 37-ha Long-Term Agro-Ecosystem Research (LTAR) site in Pullman, WA. For five years, the sensors have collected hourly measurements of soil volumetric water content at 42 locations and five depths. The CAF dataset also includes a digital elevation model and derivatives, a soil unit description map, crop rotations, electromagnetic induction surveys, daily meteorological data, and seasonal satellite imagery. The soil-water sensor data, combined with the spatial and temporal covariates, provide an ideal dataset for developing 3D+T models. The presentation will include preliminary results and address main implementation strategies.

  15. Comparison of simultaneous and sequential two-view registration for 3D/2D registration of vascular images.

    PubMed

    Pathak, Chetna; Van Horn, Mark; Weeks, Susan; Bullitt, Elizabeth

    2005-01-01

    Accurate 3D/2D vessel registration is complicated by issues of image quality, occlusion, and other problems. This study performs a quantitative comparison of 3D/2D vessel registration in which vessels segmented from preoperative CT or MR are registered with biplane x-ray angiograms by either a) simultaneous two-view registration with advance calculation of the relative pose of the two views, or b) sequential registration with each view. We conclude on the basis of phantom studies that, even in the absence of image errors, simultaneous two-view registration is more accurate than sequential registration. In more complex settings, including clinical conditions, the relative accuracy of simultaneous two-view registration is even greater.

  16. Application of artificial neural network in 3D imaging with lanthanum bromide calorimeter

    NASA Astrophysics Data System (ADS)

    Gostojic, A.; Tatischeff, V.; Kiener, J.; Hamadache, C.; Karkour, N.; Linget, D.; Grave, X.; Gibelin, L.; Travers, B.; Blin, S.; Barrillon, P.

    2015-07-01

    Gamma-ray astronomy in the energy range from 0.1 up to 100 MeV holds many understudied questions connected with e.g. stellar nucleosynthesis, the active Sun, neutron stars and black holes. To access the physics behind, a significant improvement in detection sensitivity is needed compared to previous missions, e.g. CGRO and INTEGRAL. One of the promising concepts for a future gamma-ray mission is an Advanced Compton Telescope. Under the project of creating a prototype of such instrument, we study the perspectives of using a novel inorganic scintillator as a calorimeter part. Modern inorganic crystal or ceramics scintillators are constantly improving on qualities such as energy resolution and radiation hardness, and this makes them a smart choice for a new space-borne telescope. At CSNSM Orsay, we have assembled a detection module from a 5 × 5cm2 area and 1 cm thick, cerium-doped lanthanum (III) bromide (LaBr3:Ce) inorganic scintillator coupled to a 64 channel multi-anode photomultiplier. The readout of the PMT signals is carried out with the ASIC MAROC, used previously for the luminometer of the ATLAS detector (CERN). Characterization, thorough measurements with various radioactive sources, as well as, single photoelectron detection have been done. Furthermore, we made a comparison of measurements with a detailed GEANT4-based simulation which includes tracking of the optical photons. Finally, we have studied the 3D reconstruction of the first interaction point of incident gamma rays, utilizing a neural network algorithm. This spatial position resolution plays a crucial part in the future implementations and, together with the other measured properties, it makes our detector module very interesting for the next generation of space telescopes operating in the MeV range.

  17. A collaborative computing framework of cloud network and WBSN applied to fall detection and 3-D motion reconstruction.

    PubMed

    Lai, Chin-Feng; Chen, Min; Pan, Jeng-Shyang; Youn, Chan-Hyun; Chao, Han-Chieh

    2014-03-01

    As cloud computing and wireless body sensor network technologies become gradually developed, ubiquitous healthcare services prevent accidents instantly and effectively, as well as provides relevant information to reduce related processing time and cost. This study proposes a co-processing intermediary framework integrated cloud and wireless body sensor networks, which is mainly applied to fall detection and 3-D motion reconstruction. In this study, the main focuses includes distributed computing and resource allocation of processing sensing data over the computing architecture, network conditions and performance evaluation. Through this framework, the transmissions and computing time of sensing data are reduced to enhance overall performance for the services of fall events detection and 3-D motion reconstruction.

  18. Co-Culture of Human Endothelial Cells and Foreskin Fibroblasts on 3D Silk-Fibrin Scaffolds Supports Vascularization.

    PubMed

    Samal, Juhi; Weinandy, Stefan; Weinandy, Agnieszka; Helmedag, Marius; Rongen, Lisanne; Hermanns-Sachweh, Benita; Kundu, Subhas C; Jockenhoevel, Stefan

    2015-10-01

    A successful strategy to enhance the in vivo survival of engineered tissues would be to prevascularize them. In this study, fabricated silk fibroin scaffolds from mulberry and non-mulberry silkworms are investigated and compared for supporting the co-culture of human umbilical vein endothelial cells and human foreskin fibroblasts. Scaffolds are cytocompatible and when combined with fibrin gel support capillary-like structure formation. Density and interconnectivity of the formed structures are found to be better in mulberry scaffolds. ELISA shows that levels of vascular endothelial growth factor (VEGF) released in co-cultures with fibrin gel are significantly higher than in co-cultures without fibrin gel. RT PCR shows an increase in VEGFR2 expression in mulberry scaffolds indicating these scaffolds combined with fibrin provide a suitable microenvironment for the development of capillary-like structures.

  19. Flow shear stress regulates endothelial barrier function and expression of angiogenic factors in a 3D microfluidic tumor vascular model

    PubMed Central

    Buchanan, Cara F; Verbridge, Scott S; Vlachos, Pavlos P; Rylander, Marissa Nichole

    2014-01-01

    Endothelial cells lining blood vessels are exposed to various hemodynamic forces associated with blood flow. These include fluid shear, the tangential force derived from the friction of blood flowing across the luminal cell surface, tensile stress due to deformation of the vessel wall by transvascular flow, and normal stress caused by the hydrodynamic pressure differential across the vessel wall. While it is well known that these fluid forces induce changes in endothelial morphology, cytoskeletal remodeling, and altered gene expression, the effect of flow on endothelial organization within the context of the tumor microenvironment is largely unknown. Using a previously established microfluidic tumor vascular model, the objective of this study was to investigate the effect of normal (4 dyn/cm2), low (1 dyn/cm2), and high (10 dyn/cm2) microvascular wall shear stress (WSS) on tumor-endothelial paracrine signaling associated with angiogenesis. It is hypothesized that high WSS will alter the endothelial phenotype such that vascular permeability and tumor-expressed angiogenic factors are reduced. Results demonstrate that endothelial permeability decreases as a function of increasing WSS, while co-culture with tumor cells increases permeability relative to mono-cultures. This response is likely due to shear stress-mediated endothelial cell alignment and tumor-VEGF-induced permeability. In addition, gene expression analysis revealed that high WSS (10 dyn/cm2) significantly down-regulates tumor-expressed MMP9, HIF1, VEGFA, ANG1, and ANG2, all of which are important factors implicated in tumor angiogenesis. This result was not observed in tumor mono-cultures or static conditioned media experiments, suggesting a flow-mediated paracrine signaling mechanism exists with surrounding tumor cells that elicits a change in expression of angiogenic factors. Findings from this work have significant implications regarding low blood velocities commonly seen in the tumor vasculature

  20. RhBMP-2 loaded 3D-printed mesoporous silica/calcium phosphate cement porous scaffolds with enhanced vascularization and osteogenesis properties

    NASA Astrophysics Data System (ADS)

    Li, Cuidi; Jiang, Chuan; Deng, Yuan; Li, Tao; Li, Ning; Peng, Mingzheng; Wang, Jinwu

    2017-01-01

    A major limitation in the development of effective scaffolds for bone regeneration has been the limited vascularization of the regenerating tissue. Here, we propose the development of a novel calcium phosphate cement (CPC)-based scaffold combining the properties of mesoporous silica (MS) with recombinant human bone morphogenic protein-2 (rhBMP-2) to facilitate vascularization and osteogenesis. Specifically, the development of a custom MS/CPC paste allowed the three-dimensional (3D) printing of scaffolds with a defined macroporous structure and optimized silicon (Si) ions release profile to promote the ingrowth of vascular tissue at an early stage after implantation in support of tissue viability and osteogenesis. In addition, the scaffold microstructure allowed the prolonged release of rhBMP-2, which in turn significantly stimulated the osteogenesis of human bone marrow stromal cells in vitro and of bone regeneration in vivo as shown in a rabbit femur defect repair model. Thus, the combination MS/CPC/rhBMP-2 scaffolds might provide a solution to issues of tissue necrosis during the regeneration process and therefore might be able to be readily developed into a useful tool for bone repair in the clinic.

  1. RhBMP-2 loaded 3D-printed mesoporous silica/calcium phosphate cement porous scaffolds with enhanced vascularization and osteogenesis properties

    PubMed Central

    Li, Cuidi; Jiang, Chuan; Deng, Yuan; Li, Tao; Li, Ning; Peng, Mingzheng; Wang, Jinwu

    2017-01-01

    A major limitation in the development of effective scaffolds for bone regeneration has been the limited vascularization of the regenerating tissue. Here, we propose the development of a novel calcium phosphate cement (CPC)-based scaffold combining the properties of mesoporous silica (MS) with recombinant human bone morphogenic protein-2 (rhBMP-2) to facilitate vascularization and osteogenesis. Specifically, the development of a custom MS/CPC paste allowed the three-dimensional (3D) printing of scaffolds with a defined macroporous structure and optimized silicon (Si) ions release profile to promote the ingrowth of vascular tissue at an early stage after implantation in support of tissue viability and osteogenesis. In addition, the scaffold microstructure allowed the prolonged release of rhBMP-2, which in turn significantly stimulated the osteogenesis of human bone marrow stromal cells in vitro and of bone regeneration in vivo as shown in a rabbit femur defect repair model. Thus, the combination MS/CPC/rhBMP-2 scaffolds might provide a solution to issues of tissue necrosis during the regeneration process and therefore might be able to be readily developed into a useful tool for bone repair in the clinic. PMID:28128363

  2. A 3D High Frequency Array Based 16 Channel Photoacoustic Microscopy System for In Vivo Micro-vascular Imaging

    PubMed Central

    Zemp, Roger; Yen, Jesse; Wang, L.V.; Shung, K. Kirk

    2009-01-01

    This paper discusses the design of a novel photoacoustic microscopy imaging system with promise for studying the structure of tissue microvasculature for applications in visualizing angiogenesis. A new sixteen channel analog and digital high frequency array based photoacoustic microscopy system (PAM) was developed using an Nd:YLF pumped tunable dye laser, a 30MHz piezo composite linear array transducer and a custom multi-channel receiver electronics system. Using offline delay and sum beamforming and beamsteering, phantom images were obtained from a 6µm carbon fiber in water at a depth of 8mm. The measured -6dB lateral and axial spatial resolution of the system was 100±5µm and 45±5µm, respectively. The dynamic focusing capability of the system was demonstrated by imaging a composite carbon fiber matrix through a 12.5mm imaging depth. Next, 2-D in vivo images were formed of vessels around 100µm in diameter in the human hand. 3-D in vivo images were also formed of micro-vessels 3mm below the surface of the skin in two Sprague Dawley rats. PMID:19131292

  3. Segmentation of Textures Defined on Flat vs. Layered Surfaces using Neural Networks: Comparison of 2D vs. 3D Representations.

    PubMed

    Oh, Sejong; Choe, Yoonsuck

    2007-08-01

    Texture boundary detection (or segmentation) is an important capability in human vision. Usually, texture segmentation is viewed as a 2D problem, as the definition of the problem itself assumes a 2D substrate. However, an interesting hypothesis emerges when we ask a question regarding the nature of textures: What are textures, and why did the ability to discriminate texture evolve or develop? A possible answer to this question is that textures naturally define physically distinct (i.e., occluded) surfaces. Hence, we can hypothesize that 2D texture segmentation may be an outgrowth of the ability to discriminate surfaces in 3D. In this paper, we conducted computational experiments with artificial neural networks to investigate the relative difficulty of learning to segment textures defined on flat 2D surfaces vs. those in 3D configurations where the boundaries are defined by occluding surfaces and their change over time due to the observer's motion. It turns out that learning is faster and more accurate in 3D, very much in line with our expectation. Furthermore, our results showed that the neural network's learned ability to segment texture in 3D transfers well into 2D texture segmentation, bolstering our initial hypothesis, and providing insights on the possible developmental origin of 2D texture segmentation function in human vision.

  4. Effect of Ductile Agents on the Dynamic Behavior of SiC3D Network Composites

    NASA Astrophysics Data System (ADS)

    Zhu, Jingbo; Wang, Yangwei; Wang, Fuchi; Fan, Qunbo

    2016-10-01

    Co-continuous SiC ceramic composites using pure aluminum, epoxy, and polyurethane (PU) as ductile agents were developed. The dynamic mechanical behavior and failure mechanisms were investigated experimentally using the split Hopkinson pressure bar (SHPB) method and computationally by finite element (FE) simulations. The results show that the SiC3D/Al composite has the best overall performance in comparison with SiC3D/epoxy and SiC3D/PU composites. FE simulations are generally consistent with experimental data. These simulations provide valuable help in predicting mechanical strength and in interpreting the experimental results and failure mechanisms. They may be combined with micrographs for fracture characterizations of the composites. We found that interactions between the SiC phase and ductile agents under dynamic compression in the SHPB method are complex, and that interfacial condition is an important parameter that determines the mechanical response of SiC3D composites with a characteristic interlocking structure during dynamic compression. However, the effect of the mechanical properties of ductile agents on dynamic behavior of the composites is a second consideration in the production of the composites.

  5. Functional metabolic interactions of human neuron-astrocyte 3D in vitro networks

    PubMed Central

    Simão, Daniel; Terrasso, Ana P.; Teixeira, Ana P.; Brito, Catarina; Sonnewald, Ursula; Alves, Paula M.

    2016-01-01

    The generation of human neural tissue-like 3D structures holds great promise for disease modeling, drug discovery and regenerative medicine strategies. Promoting the establishment of complex cell-cell interactions, 3D culture systems enable the development of human cell-based models with increased physiological relevance, over monolayer cultures. Here, we demonstrate the establishment of neuronal and astrocytic metabolic signatures and shuttles in a human 3D neural cell model, namely the glutamine-glutamate-GABA shuttle. This was indicated by labeling of neuronal GABA following incubation with the glia-specific substrate [2-13C]acetate, which decreased by methionine sulfoximine-induced inhibition of the glial enzyme glutamine synthetase. Cell metabolic specialization was further demonstrated by higher pyruvate carboxylase-derived labeling in glutamine than in glutamate, indicating its activity in astrocytes and not in neurons. Exposure to the neurotoxin acrylamide resulted in intracellular accumulation of glutamate and decreased GABA synthesis. These results suggest an acrylamide-induced impairment of neuronal synaptic vesicle trafficking and imbalanced glutamine-glutamate-GABA cycle, due to loss of cell-cell contacts at synaptic sites. This work demonstrates, for the first time to our knowledge, that neural differentiation of human cells in a 3D setting recapitulates neuronal-astrocytic metabolic interactions, highlighting the relevance of these models for toxicology and better understanding the crosstalk between human neural cells. PMID:27619889

  6. Webs on the Web (WOW): 3D visualization of ecological networks on the WWW for collaborative research and education

    NASA Astrophysics Data System (ADS)

    Yoon, Ilmi; Williams, Rich; Levine, Eli; Yoon, Sanghyuk; Dunne, Jennifer; Martinez, Neo

    2004-06-01

    This paper describes information technology being developed to improve the quality, sophistication, accessibility, and pedagogical simplicity of ecological network data, analysis, and visualization. We present designs for a WWW demonstration/prototype web site that provides database, analysis, and visualization tools for research and education related to food web research. Our early experience with a prototype 3D ecological network visualization guides our design of a more flexible architecture design. 3D visualization algorithms include variable node and link sizes, placements according to node connectivity and tropic levels, and visualization of other node and link properties in food web data. The flexible architecture includes an XML application design, FoodWebML, and pipelining of computational components. Based on users" choices of data and visualization options, the WWW prototype site will connect to an XML database (Xindice) and return the visualization in VRML format for browsing and further interactions.

  7. Molecular tectonics: pyridyl containing thiacalix[4]arene based tectons for the generation of 2- and 3-D silver coordination networks.

    PubMed

    Ovsyannikov, A; Lang, M N; Ferlay, S; Solovieva, S E; Antipin, I S; Konovalov, A I; Kyritsakas, N; Hosseini, M W

    2013-01-07

    Three new organic tectons (2–4) based on the p-tert-butylthiacalix[4]arene backbone, blocked in the 1,3-alternate conformation, bearing four pyridyl coordinating moieties, have been synthesised and characterised in the solid state. The ligands are positional isomers and differ by the position of the N atom on the pyridyl unit (ortho for 2, meta for 3 and para for 4). Their combination with the Ag+ cation leads, reproducibly, to the formation of 2- and 3-D infinite silver coordination networks. Independent of the nature of the anion, the combination of 2 offering four (N,S) type chelates with the Ag+ cation affords an unprecedented diamond type 3D network. Both 3 and 4, behaving as tetrakis monodentate ligands, lead to the formation of 2-D architectures.

  8. 3D Graphene-Foam-Reduced-Graphene-Oxide Hybrid Nested Hierarchical Networks for High-Performance Li-S Batteries.

    PubMed

    Hu, Guangjian; Xu, Chuan; Sun, Zhenhua; Wang, Shaogang; Cheng, Hui-Ming; Li, Feng; Ren, Wencai

    2016-02-24

    A 3D graphene-foam-reduced-graphene-oxide hybrid nested hierarchical network is synthesized to achieve high sulfur loading and content simultaneously, which solves the "double low" issues of Li-S batteries. The obtained Li-S cathodes show a high areal capacity two times larger than that of commercial lithium-ion batteries, and a good cycling performance comparable to those at low sulfur loading.

  9. Cerebral Blood Flow Alterations as Assessed by 3D ASL in Cognitive Impairment in Patients with Subcortical Vascular Cognitive Impairment: A Marker for Disease Severity

    PubMed Central

    Sun, Yawen; Cao, Wenwei; Ding, Weina; Wang, Yao; Han, Xu; Zhou, Yan; Xu, Qun; Zhang, Yong; Xu, Jianrong

    2016-01-01

    Abnormal reductions in cortical cerebral blood flow (CBF) have been identified in subcortical vascular cognitive impairment (SVCI). However, little is known about the pattern of CBF reduction in relation with the degree of cognitive impairment. CBF measured with three-dimensional (3D) Arterial Spin Labeling (ASL) perfusion magnetic resonance imaging (MRI) helps detect functional changes in subjects with SVCI. We aimed to compare CBF maps in subcortical ischemic vascular disease (SIVD) subjects with and without cognitive impairment and to detect the relationship of the regions of CBF reduction in the brain with the degree of cognitive impairment according to the z-score. A total of 53 subjects with SVCI and 23 matched SIVD subjects without cognitive impairment (controls), underwent a whole-brain 3D ASL MRI in the resting state. Regional CBF (rCBF) was compared voxel wise by using an analysis of variance design in a statistical parametric mapping program, with patient age and sex as covariates. Correlations were calculated between the rCBF value in the whole brain and the z-score in the 53 subjects with SVCI. Compared with the control subjects, SVCI group demonstrated diffuse decreased CBF in the brain. Significant positive correlations were determined in the rCBF values in the left hippocampus, left superior temporal pole gyrus, right superior frontal orbital lobe, right medial frontal orbital lobe, right middle temporal lobe, left thalamus and right insula with the z-scores in SVCI group. The noninvasively quantified resting CBF demonstrated altered CBF distributions in the SVCI brain. The deficit brain perfusions in the temporal and frontal lobe, hippocampus, thalamus and insula was related to the degree of cognitive impairment. Its relationship to cognition indicates the clinical relevance of this functional marker. Thus, our results provide further evidence for the mechanisms underlying the cognitive deficit in patients with SVCI. PMID:27630562

  10. Microfluidic assay of endothelial cell migration in 3D interpenetrating polymer semi-network HA-Collagen hydrogel.

    PubMed

    Jeong, Gi Seok; Kwon, Gu Han; Kang, Ah Ran; Jung, Bo Young; Park, Yongdoo; Chung, Seok; Lee, Sang-Hoon

    2011-08-01

    Cell migration through the extracellular matrix (ECM) is one of the key features for physiological and pathological processes such as angiogenesis, cancer metastasis, and wound healing. In particular, the quantitative assay of endothelial cell migration under the well-defined three dimensional (3D) microenvironment is important to analyze the angiogenesis mechanism. In this study, we report a microfluidic assay of endothelial cell sprouting and migration into an interpenetrating polymer semi-network HA-Collagen (SIPNs CH) hydrogel as ECM providing an enhanced in vivo mimicking 3D microenvironment to cells. The microfluidic chip could provide a well-controlled gradient of growth factor to cells, whereas the hydrogel could mimic a well-defined 3D microenvironment in vivo. (In addition/Furthermore, the microfluidic chip gives a well-controlled gradient of growth factor to cells) For this reason, three types of hydrogel, composed of semi-interpenetrating networks of collagen and hyaluronic acid were prepared, and firstly we proved the role of the hydrogel in endothelial cell migration. The diffusion property and swelling ratio of the hydrogel were characterized. It modulated the migration of endothelial cells in quantified manner, also being influenced by additional synthesis of Matrix metalloproteinase(MMP)-sensitive remodeling peptides and Arginine-glycine-lycinee (RGD) cell adhesion peptides. We successfully established a novel cell migration platform by changing major determinants such as ECM material under biochemical synthesis and under growth factor gradients in a microfluidic manner.

  11. Bi-Mn mixed metal organic oxide: A novel 3d-6p mixed metal coordination network

    NASA Astrophysics Data System (ADS)

    Shi, Fa-Nian; Rosa Silva, Ana; Bian, Liang

    2015-05-01

    A new terminology of metal organic oxide (MOO) was given a definition as a type of coordination polymers which possess the feature of inorganic connectivity between metals and the direct bonded atoms and show 1D, 2D or 3D inorganic sub-networks. One such compound was shown as an example. A 3d-6p (Mn-Bi. Named MOOMnBi) mixed metals coordination network has been synthesized via hydrothermal method. The new compound with the molecular formula of [MnBi2O(1,3,5-BTC)2]n (1,3,5-BTC stands for benzene-1,3,5-tricarboxylate) was characterized via single crystal X-ray diffraction technique that revealed a very interesting 3-dimensional (3D) framework with Bi4O2(COO)12 clusters which are further connected to Mn(COO)6 fragments into a 2D MOO. The topology study indicates an unprecedented topological type with the net point group of {413.62}{413.68}{416.65}{418.610}{422.614}{43} corresponding to 3,6,7,7,8,9-c hexa-nodal net. MOOMnBi shows catalytic activity in the synthesis of (E)-α,β-unsaturated ketones.

  12. Characterizing 3-D flow velocity in evolving pore networks driven by CaCO3 precipitation and dissolution

    NASA Astrophysics Data System (ADS)

    Chojnicki, K. N.; Yoon, H.; Martinez, M. J.

    2015-12-01

    Understanding reactive flow in geomaterials is important for optimizing geologic carbon storage practices, such as using pore space efficiently. Flow paths can be complex in large degrees of geologic heterogeneities across scales. In addition, local heterogeneity can evolve as reactive transport processes alter the pore-scale morphology. For example, dissolved carbon dioxide may react with minerals in fractured rocks, confined aquifers, or faults, resulting in heterogeneous cementation (and/or dissolution) and evolving flow conditions. Both path and flow complexities are important and poorly characterized, making it difficult to determine their evolution with traditional 2-D transport models. Here we characterize the development of 3-D pore-scale flow with an evolving pore configuration due to calcium carbonate (CaCO3) precipitation and dissolution. A simple pattern of a microfluidic pore network is used initially and pore structures will become more complex due to precipitation and dissolution processes. At several stages of precipitation and dissolution, we directly visualize 3-D velocity vectors using micro particle image velocimetry and a laser scanning confocal microscope. Measured 3-D velocity vectors are then compared to 3-D simulated flow fields which will be used to simulate reactive transport. Our findings will highlight the importance of the 3-D flow dynamics and its impact on estimating reactive surface area over time. Sandia National Laboratories is a multi-program laboratory managed and operated by Sandia Corporation, a wholly owned subsidiary of Lockheed Martin Corporation, for the U.S. Department of Energy's National Nuclear Security Administration under contract DE-AC04-94AL85000. This material is based upon work supported as part of the Center for Frontiers of Subsurface Energy Security, an Energy Frontier Research Center funded by the U.S. Department of Energy, Office of Science, Office of Basic Energy Sciences under Award Number DE-SC0001114.

  13. Preliminary Measurement of Communication Rates on the Cray T3D Interprocessor Network

    NASA Technical Reports Server (NTRS)

    Springer, Paul; Peterson, John; Numrich, Robert

    1993-01-01

    None given.(from task description): Objectives: test the communication network, determine how communication rates scale with message size, test the effect of contention, show the effect of contention.

  14. Geometric Bioinspired Networks for Recognition of 2-D and 3-D Low-Level Structures and Transformations.

    PubMed

    Bayro-Corrochano, Eduardo; Vazquez-Santacruz, Eduardo; Moya-Sanchez, Eduardo; Castillo-Munis, Efrain

    2016-10-01

    This paper presents the design of radial basis function geometric bioinspired networks and their applications. Until now, the design of neural networks has been inspired by the biological models of neural networks but mostly using vector calculus and linear algebra. However, these designs have never shown the role of geometric computing. The question is how biological neural networks handle complex geometric representations involving Lie group operations like rotations. Even though the actual artificial neural networks are biologically inspired, they are just models which cannot reproduce a plausible biological process. Until now researchers have not shown how, using these models, one can incorporate them into the processing of geometric computing. Here, for the first time in the artificial neural networks domain, we address this issue by designing a kind of geometric RBF using the geometric algebra framework. As a result, using our artificial networks, we show how geometric computing can be carried out by the artificial neural networks. Such geometric neural networks have a great potential in robot vision. This is the most important aspect of this contribution to propose artificial geometric neural networks for challenging tasks in perception and action. In our experimental analysis, we show the applicability of our geometric designs, and present interesting experiments using 2-D data of real images and 3-D screw axis data. In general, our models should be used to process different types of inputs, such as visual cues, touch (texture, elasticity, temperature), taste, and sound. One important task of a perception-action system is to fuse a variety of cues coming from the environment and relate them via a sensor-motor manifold with motor modules to carry out diverse reasoned actions.

  15. 3D face recognition system using cylindrical hidden-layer neural network: spatial domain and its eigenspace domain

    NASA Astrophysics Data System (ADS)

    Kusumoputro, Benyamin; Pangabean, Martha Y.; Rachman, Leila F.

    2001-09-01

    In this paper, a 3-D face recognition system is developed using a modified neural network. This modified neural network is constructed by substituting each of neuron in its hidden layer of conventional multilayer perceptron with a circular-structure of neurons. This neural system is then called as cylindrical-structure of hidden layer neural network (CHL-NN). The neural system is then applied on a real 3-D face image database that consists of 5 Indonesian persons. The images are taken under four different expressions such as neutral, smile, laugh and free expression. The 2-D images is taken from the human face images by gradually changing visual points, which is done by successively varies the camera position from - 90 to +90 with an interval of 15 degree. The experimental result has shown that the average recognition rate of 60% could be achieved when we used the image in its spatial domain. Improvement of the system is then developed, by transforming the image in its spatial domain into its eigenspace domain. Karhunen Loeve transformation technique is used, and each image in the spatial domain is represented as a point in the eigenspace domain. Fisherface method is then utilized as a feature extraction on the eigenspace domain, and using the same database and experimental procedure, the recognition rate of the system could be increased into 84% in average.

  16. Related pituitary cell lineages develop into interdigitated 3D cell networks.

    PubMed

    Budry, Lionel; Lafont, Chrystel; El Yandouzi, Taoufik; Chauvet, Norbert; Conéjero, Geneviève; Drouin, Jacques; Mollard, Patrice

    2011-07-26

    The pituitary gland has long been considered to be a random patchwork of hormone-producing cells. By using pituitary-scale tridimensional imaging for two of the least abundant cell lineages, the corticotropes and gonadotropes, we have now uncovered highly organized and interdigitated cell networks that reflect homotypic and heterotypic interactions between cells. Although newly differentiated corticotrope cells appear on the ventral surface of the gland, they rapidly form homotypic strands of cells that extend from the lateral tips of the anterior pituitary along its ventral surface and into the medial gland. As the corticotrope network is established away from the microvasculature, cell morphology changes from rounded, to polygonal, and finally to cells with long cytoplasmic processes or cytonemes that connect corticotropes to the perivascular space. Gonadotropes differentiate later and are positioned in close proximity to corticotropes and capillaries. Blockade of corticotrope terminal differentiation produced by knockout of the gene encoding the transcription factor Tpit results in smaller gonadotropes within an expanded cell network, particularly in the lateral gland. Thus, pituitary-scale tridimensional imaging reveals highly structured cell networks of unique topology for each pituitary lineage. The sequential development of interdigitated cell networks during organogenesis indicate that extensive cell:cell interactions lead to a highly ordered cell positioning rather than random patchwork.

  17. Comparative morphology of the hemolymph vascular system in scorpions--a survey using corrosion casting, MicroCT, and 3D-reconstruction.

    PubMed

    Wirkner, Christian S; Prendini, Lorenzo

    2007-05-01

    Although scorpions are one of the better known groups of Arthropoda, detailed knowledge of their anatomy remains superficial. This contribution presents the first comprehensive investigation of the gross morphology of the scorpion vascular system, based on a survey of species representing all major lineages of the order, using classical and modern non-destructive techniques in combination with three-dimensional reconstruction. The investigation reveals that the hemolymph vascular system (HVS) of Scorpiones comprises a central pumping heart which extends the entire length of the mesosoma and is enclosed in a pericardium. Several arteries branch off the heart to supply different organs and body regions. Two different anterior aorta major branching patterns are identified among the species investigated. Arteries that branch off the anterior aorta system supply the appendages (chelicerae, pedipalps, and walking legs) and the central nerve mass with a complex arterial network. This study of the HVS of scorpions provides further evidence that the vascular systems of euarthropods can be highly complex. Use of the term "open circulatory system" within arthropods is re-emphasized, as it refers to the general organization of the body cavity (i.e. mixocoely) rather than to the complexity of the circulatory system.

  18. A Computational Tool for Quantitative Analysis of Vascular Networks

    PubMed Central

    Zudaire, Enrique; Gambardella, Laure; Kurcz, Christopher; Vermeren, Sonja

    2011-01-01

    Angiogenesis is the generation of mature vascular networks from pre-existing vessels. Angiogenesis is crucial during the organism' development, for wound healing and for the female reproductive cycle. Several murine experimental systems are well suited for studying developmental and pathological angiogenesis. They include the embryonic hindbrain, the post-natal retina and allantois explants. In these systems vascular networks are visualised by appropriate staining procedures followed by microscopical analysis. Nevertheless, quantitative assessment of angiogenesis is hampered by the lack of readily available, standardized metrics and software analysis tools. Non-automated protocols are being used widely and they are, in general, time - and labour intensive, prone to human error and do not permit computation of complex spatial metrics. We have developed a light-weight, user friendly software, AngioTool, which allows for quick, hands-off and reproducible quantification of vascular networks in microscopic images. AngioTool computes several morphological and spatial parameters including the area covered by a vascular network, the number of vessels, vessel length, vascular density and lacunarity. In addition, AngioTool calculates the so-called “branching index” (branch points / unit area), providing a measurement of the sprouting activity of a specimen of interest. We have validated AngioTool using images of embryonic murine hindbrains, post-natal retinas and allantois explants. AngioTool is open source and can be downloaded free of charge. PMID:22110636

  19. Efficient Data Gathering in 3D Linear Underwater Wireless Sensor Networks Using Sink Mobility

    PubMed Central

    Akbar, Mariam; Javaid, Nadeem; Khan, Ayesha Hussain; Imran, Muhammad; Shoaib, Muhammad; Vasilakos, Athanasios

    2016-01-01

    Due to the unpleasant and unpredictable underwater environment, designing an energy-efficient routing protocol for underwater wireless sensor networks (UWSNs) demands more accuracy and extra computations. In the proposed scheme, we introduce a mobile sink (MS), i.e., an autonomous underwater vehicle (AUV), and also courier nodes (CNs), to minimize the energy consumption of nodes. MS and CNs stop at specific stops for data gathering; later on, CNs forward the received data to the MS for further transmission. By the mobility of CNs and MS, the overall energy consumption of nodes is minimized. We perform simulations to investigate the performance of the proposed scheme and compare it to preexisting techniques. Simulation results are compared in terms of network lifetime, throughput, path loss, transmission loss and packet drop ratio. The results show that the proposed technique performs better in terms of network lifetime, throughput, path loss and scalability. PMID:27007373

  20. AxeCorp's "Team Challenge": Teaching Teamwork via 3D Social Networking Platforms

    ERIC Educational Resources Information Center

    Carmichael, Kendra

    2011-01-01

    To prepare business communication undergraduates for a changing work world and to engage today's tech-savvy students, many instructors have embraced social media by incorporating its use in the classroom. This article describes AxeCorp, a fictional company headquartered on the immersive social networking platform, Second Life, and one particular…

  1. Temporal modulation of collective cell behavior controls vascular network topology.

    PubMed

    Kur, Esther; Kim, Jiha; Tata, Aleksandra; Comin, Cesar H; Harrington, Kyle I; Costa, Luciano da F; Bentley, Katie; Gu, Chenghua

    2016-02-24

    Vascular network density determines the amount of oxygen and nutrients delivered to host tissues, but how the vast diversity of densities is generated is unknown. Reiterations of endothelial-tip-cell selection, sprout extension and anastomosis are the basis for vascular network generation, a process governed by the VEGF/Notch feedback loop. Here, we find that temporal regulation of this feedback loop, a previously unexplored dimension, is the key mechanism to determine vascular density. Iterating between computational modeling and in vivo live imaging, we demonstrate that the rate of tip-cell selection determines the length of linear sprout extension at the expense of branching, dictating network density. We provide the first example of a host tissue-derived signal (Semaphorin3E-Plexin-D1) that accelerates tip cell selection rate, yielding a dense network. We propose that temporal regulation of this critical, iterative aspect of network formation could be a general mechanism, and additional temporal regulators may exist to sculpt vascular topology.

  2. Temporal modulation of collective cell behavior controls vascular network topology

    PubMed Central

    Kur, Esther; Kim, Jiha; Tata, Aleksandra; Comin, Cesar H; Harrington, Kyle I; Costa, Luciano da F; Bentley, Katie; Gu, Chenghua

    2016-01-01

    Vascular network density determines the amount of oxygen and nutrients delivered to host tissues, but how the vast diversity of densities is generated is unknown. Reiterations of endothelial-tip-cell selection, sprout extension and anastomosis are the basis for vascular network generation, a process governed by the VEGF/Notch feedback loop. Here, we find that temporal regulation of this feedback loop, a previously unexplored dimension, is the key mechanism to determine vascular density. Iterating between computational modeling and in vivo live imaging, we demonstrate that the rate of tip-cell selection determines the length of linear sprout extension at the expense of branching, dictating network density. We provide the first example of a host tissue-derived signal (Semaphorin3E-Plexin-D1) that accelerates tip cell selection rate, yielding a dense network. We propose that temporal regulation of this critical, iterative aspect of network formation could be a general mechanism, and additional temporal regulators may exist to sculpt vascular topology. DOI: http://dx.doi.org/10.7554/eLife.13212.001 PMID:26910011

  3. Self-Assembly of Single-Layer CoAl-Layered Double Hydroxide Nanosheets on 3D Graphene Network Used as Highly Efficient Electrocatalyst for Oxygen Evolution Reaction.

    PubMed

    Ping, Jianfeng; Wang, Yixian; Lu, Qipeng; Chen, Bo; Chen, Junze; Huang, Ying; Ma, Qinglang; Tan, Chaoliang; Yang, Jian; Cao, Xiehong; Wang, Zhijuan; Wu, Jian; Ying, Yibin; Zhang, Hua

    2016-09-01

    A non-noble metal based 3D porous electrocatalyst is prepared by self-assembly of the liquid-exfoliated single-layer CoAl-layered double hydroxide nanosheets (CoAl-NSs) onto 3D graphene network, which exhibits higher catalytic activity and better stability for electrochemical oxygen evolution reaction compared to the commercial IrO2 nanoparticle-based 3D porous electrocatalyst.

  4. Testing Foundations of Biological Scaling Theory Using Automated Measurements of Vascular Networks.

    PubMed

    Newberry, Mitchell G; Ennis, Daniel B; Savage, Van M

    2015-08-01

    Scientists have long sought to understand how vascular networks supply blood and oxygen to cells throughout the body. Recent work focuses on principles that constrain how vessel size changes through branching generations from the aorta to capillaries and uses scaling exponents to quantify these changes. Prominent scaling theories predict that combinations of these exponents explain how metabolic, growth, and other biological rates vary with body size. Nevertheless, direct measurements of individual vessel segments have been limited because existing techniques for measuring vasculature are invasive, time consuming, and technically difficult. We developed software that extracts the length, radius, and connectivity of in vivo vessels from contrast-enhanced 3D Magnetic Resonance Angiography. Using data from 20 human subjects, we calculated scaling exponents by four methods-two derived from local properties of branching junctions and two from whole-network properties. Although these methods are often used interchangeably in the literature, we do not find general agreement between these methods, particularly for vessel lengths. Measurements for length of vessels also diverge from theoretical values, but those for radius show stronger agreement. Our results demonstrate that vascular network models cannot ignore certain complexities of real vascular systems and indicate the need to discover new principles regarding vessel lengths.

  5. Biofunctionalized 3-D Carbon Nano-Network Platform for Enhanced Fibroblast Cell Adhesion

    PubMed Central

    Chowdhury, A. K. M. Rezaul Haque; Tavangar, Amirhossein; Tan, Bo; Venkatakrishnan, Krishnan

    2017-01-01

    Carbon nanomaterials have been investigated for various biomedical applications. In most cases, however, these nanomaterials must be functionalized biologically or chemically due to their biological inertness or possible cytotoxicity. Here, we report the development of a new carbon nanomaterial with a bioactive phase that significantly promotes cell adhesion. We synthesize the bioactive phase by introducing self-assembled nanotopography and altered nano-chemistry to graphite substrates using ultrafast laser. To the best of our knowledge, this is the first time that such a cytophilic bio-carbon is developed in a single step without requiring subsequent biological/chemical treatments. By controlling the nano-network concentration and chemistry, we develop platforms with different degrees of cell cytophilicity. We study quantitatively and qualitatively the cell response to nano-network platforms with NIH-3T3 fibroblasts. The findings from the in vitro study indicate that the platforms possess excellent biocompatibility and promote cell adhesion considerably. The study of the cell morphology shows a healthy attachment of cells with a well-spread shape, overextended actin filaments, and morphological symmetry, which is indicative of a high cellular interaction with the nano-network. The developed nanomaterial possesses great biocompatibility and considerably stimulates cell adhesion and subsequent cell proliferation, thus offering a promising path toward engineering various biomedical devices. PMID:28287138

  6. Biofunctionalized 3-D Carbon Nano-Network Platform for Enhanced Fibroblast Cell Adhesion

    NASA Astrophysics Data System (ADS)

    Chowdhury, A. K. M. Rezaul Haque; Tavangar, Amirhossein; Tan, Bo; Venkatakrishnan, Krishnan

    2017-03-01

    Carbon nanomaterials have been investigated for various biomedical applications. In most cases, however, these nanomaterials must be functionalized biologically or chemically due to their biological inertness or possible cytotoxicity. Here, we report the development of a new carbon nanomaterial with a bioactive phase that significantly promotes cell adhesion. We synthesize the bioactive phase by introducing self-assembled nanotopography and altered nano-chemistry to graphite substrates using ultrafast laser. To the best of our knowledge, this is the first time that such a cytophilic bio-carbon is developed in a single step without requiring subsequent biological/chemical treatments. By controlling the nano-network concentration and chemistry, we develop platforms with different degrees of cell cytophilicity. We study quantitatively and qualitatively the cell response to nano-network platforms with NIH-3T3 fibroblasts. The findings from the in vitro study indicate that the platforms possess excellent biocompatibility and promote cell adhesion considerably. The study of the cell morphology shows a healthy attachment of cells with a well-spread shape, overextended actin filaments, and morphological symmetry, which is indicative of a high cellular interaction with the nano-network. The developed nanomaterial possesses great biocompatibility and considerably stimulates cell adhesion and subsequent cell proliferation, thus offering a promising path toward engineering various biomedical devices.

  7. Trabecular network arrangement within the human patella: how osteoarthritis remodels the 3D trabecular structure

    NASA Astrophysics Data System (ADS)

    Hoechel, Sebastian; Deyhle, Hans; Toranelli, Mireille; Müller-Gerbl, Magdalena

    2016-10-01

    Following the principles of "morphology reveals biomechanics", the anatomical structure of the cartilage-osseous interface and the supporting trabecular network show defined adaptation in their architectural properties to physiological loading. In case of a faulty relationship, the ability to support the load diminishes and the onset of osteoarthritis (OA) may arise and disturb the balanced formation and resorption processes. To describe and quantify the changes occurring, 10 human OA patellae were analysed concerning the architectural parameters of the trabecular network within the first five mms by the evaluation of 3Dmicro-CT datasets. The analysed OA-samples showed a strong irregularity for all trabecular parameters across the trabecular network, no regularity in parameter distribution was found. In general, we saw a decrease of material in the OA population as BV/TV, BS/TV, Tb.N and Tb.Th were decreased and the spacing increased. The development into depth showed a logarithmic dependency, which revealed the greatest difference for all parameters within the first mm in comparison to the physiologic samples. The differences decreased towards the 5th mm. The interpretation of the mathematic dependency leads to the conclusion that the main impact of OA is beneath the subchondral bone plate (SBP) and lessens with depth. Next to the clear difference in material, the architectural arrangement is more rod-like and isotropic just beneath the SBP in comparison to the plate-like and more anisotropic physiological arrangement.

  8. Bi–Mn mixed metal organic oxide: A novel 3d-6p mixed metal coordination network

    SciTech Connect

    Shi, Fa-Nian; Rosa Silva, Ana; Bian, Liang

    2015-05-15

    A new terminology of metal organic oxide (MOO) was given a definition as a type of coordination polymers which possess the feature of inorganic connectivity between metals and the direct bonded atoms and show 1D, 2D or 3D inorganic sub-networks. One such compound was shown as an example. A 3d-6p (Mn–Bi. Named MOOMnBi) mixed metals coordination network has been synthesized via hydrothermal method. The new compound with the molecular formula of [MnBi{sub 2}O(1,3,5-BTC){sub 2}]{sub n} (1,3,5-BTC stands for benzene-1,3,5-tricarboxylate) was characterized via single crystal X-ray diffraction technique that revealed a very interesting 3-dimensional (3D) framework with Bi{sub 4}O{sub 2}(COO){sub 12} clusters which are further connected to Mn(COO){sub 6} fragments into a 2D MOO. The topology study indicates an unprecedented topological type with the net point group of (4{sup 13}.6{sup 2})(4{sup 13}.6{sup 8})(4{sup 16}.6{sup 5})(4{sup 18}.6{sup 10})(4{sup 22}.6{sup 14})(4{sup 3}) corresponding to 3,6,7,7,8,9-c hexa-nodal net. MOOMnBi shows catalytic activity in the synthesis of (E)-α,β-unsaturated ketones. - Graphical abstract: This metal organic framework (MOF) is the essence of a 2D metal organic oxide (MOO). - Highlights: • New concept of metal organic oxide (MOO) was defined and made difference from metal organic framework. • New MOO of MOOMnBi was synthesized by hydrothermal method. • Crystal structure of MOOMnBi was determined by single crystal X-ray analysis. • The catalytic activity of MOOMnBi was studied showing reusable after 2 cycles.

  9. Clustering of 3D-Structure Similarity Based Network of Secondary Metabolites Reveals Their Relationships with Biological Activities.

    PubMed

    Ohtana, Yuki; Abdullah, Azian Azamimi; Altaf-Ul-Amin, Md; Huang, Ming; Ono, Naoaki; Sato, Tetsuo; Sugiura, Tadao; Horai, Hisayuki; Nakamura, Yukiko; Morita Hirai, Aki; Lange, Klaus W; Kibinge, Nelson K; Katsuragi, Tetsuo; Shirai, Tsuyoshi; Kanaya, Shigehiko

    2014-12-01

    Developing database systems connecting diverse species based on omics is the most important theme in big data biology. To attain this purpose, we have developed KNApSAcK Family Databases, which are utilized in a number of researches in metabolomics. In the present study, we have developed a network-based approach to analyze relationships between 3D structure and biological activity of metabolites consisting of four steps as follows: construction of a network of metabolites based on structural similarity (Step 1), classification of metabolites into structure groups (Step 2), assessment of statistically significant relations between structure groups and biological activities (Step 3), and 2-dimensional clustering of the constructed data matrix based on statistically significant relations between structure groups and biological activities (Step 4). Applying this method to a data set consisting of 2072 secondary metabolites and 140 biological activities reported in KNApSAcK Metabolite Activity DB, we obtained 983 statistically significant structure group-biological activity pairs. As a whole, we systematically analyzed the relationship between 3D-chemical structures of metabolites and biological activities.

  10. Three-dimensional vascular network projective reconstruction from uncalibrated and non-subtracted x-ray rotational angiography image sequence

    NASA Astrophysics Data System (ADS)

    Chakchouk, Moez; Sevestre-Ghalila, Sylvie; Ghorbel, Faouzi; Tenzekhti, Faouzi; Hamza, Radhi

    2002-05-01

    X-ray rotational angiography has recently gained increasing interest for computer-assisted quantitative analysis. It provides more accurate assessment of vascular diseases and precise inspection of complex structure of the arterial network via three-dimensional (3D) vascular reconstruction. The 3D spatial information can be obtained via a stereoscopic analysis of the two-dimensional (2D) projections of the opacified blood vessels. In this work, we focus on the problem of automatic 3D reconstruction of blood vessel networks for telediagnostic applications and therefore from uncalibrated X-ray rotational angiography image sequence. Three main issues are addressed: 1) automatic accurate subpixel vascular median axis network detection from non-subtracted 2D angiography images, 2) robust matching of the extracted features by using an original method based on statistical tests, and 3) three-dimensional reconstruction through epipolar geometry determination from uncalibrated 2D images. Our reconstruction method has the advantage to be independent of the angiography acquisition system. It is therefore interesting for telemedicine and specially for telediagnostic systems.

  11. Incorporating Discrete Irregular Fracture Zone Networks into 3D Paleohydrogeologic Simulations

    NASA Astrophysics Data System (ADS)

    Normani, S. D.

    2015-12-01

    Dual continuum computational models which include both porous media and discrete fracture zones are valuable tools in assessing groundwater migration and pathways in fractured rock systems. Fracture generation models can produce stochastic realizations of fracture networks which honor geological structures and fracture propagation behaviors. Surface lineament traces can be propagated to depth based on fracture zone statistics to produce representations of geological structures in rock. The generated discrete, complex and irregular fracture zone networks, represented as a triangulated mesh, are embedded using orthogonal quadrilateral elements within a three-dimensional hexahedral finite element mesh. A detailed coupled density-dependent paleohydrogeologic groundwater analysis of a hypothetical 104 km2 portion of the Canadian Shield has been conducted using the discrete-fracture dual continuum finite element model FRAC3DVS to investigate the characterization of large-scale fracture zone networks on groundwater and tracer movement during a 120,000 year paleoclimate cycle. Permeability reduction due to permafrost was also applied. Time series data for the depth of permafrost, along with ice thickness and lake depth, were provided by the University of Toronto (UofT) Glacial Systems Model. The crystalline rock between fracture zones was assigned properties characteristic of those reported for the Canadian Shield. Total dissolved solids concentrations of 300 g/L are encountered at depth. Surface water features and a Digital Elevation Model (DEM) were used in a GIS framework to define the watershed boundaries at surface water divides and to populate the finite element mesh. This work will illustrate the long-term evolution and stability of the geosphere and groundwater systems to external perturbations caused by glaciation through the use of performance measures such as Mean Life Expectancy and the migration of a unit tracer to depth over a paleoclimate cycle.

  12. Functional imaging of tumor vascular network in small animal models

    NASA Astrophysics Data System (ADS)

    Kalchenko, Vyacheslav; Madar-Balakirski, Noa; Kuznetsov, Yuri; Meglinski, Igor; Harmelin, Alon

    2011-07-01

    In current report we present synchronized in vivo imaging of tumor vascular network and tumor microenvironment obtained by combined use of Dynamic Light Scattering Imaging, Spectrally Enhanced Microscopy, and Fluorescence Intravital Microscopy. Dynamic Light Scattering Imaging is used for functional imaging of the vascular network and blood microcirculation. Spectrally Enhanced Microscopy provides information regarding blood vessel topography. Fluorescence Intravital Microscopy is used for imaging of tumor microvasculature and tumor microenvironment. These well known modalities have been comprehensively validated in the past and are widely used in various bio-medical applications. As shown here, their combined application has great potential for studies of vascular biology. This multi-modal non-invasive diagnostic technique expands our current capacity to investigate blood microcirculation and tumor angiogenesis in vivo, thereby contributing to the development of cancer research and treatment.

  13. The 3-D image recognition based on fuzzy neural network technology

    NASA Technical Reports Server (NTRS)

    Hirota, Kaoru; Yamauchi, Kenichi; Murakami, Jun; Tanaka, Kei

    1993-01-01

    Three dimensional stereoscopic image recognition system based on fuzzy-neural network technology was developed. The system consists of three parts; preprocessing part, feature extraction part, and matching part. Two CCD color camera image are fed to the preprocessing part, where several operations including RGB-HSV transformation are done. A multi-layer perception is used for the line detection in the feature extraction part. Then fuzzy matching technique is introduced in the matching part. The system is realized on SUN spark station and special image input hardware system. An experimental result on bottle images is also presented.

  14. 3D functional and perfusable microvascular networks for organotypic microfluidic models.

    PubMed

    Bersini, Simone; Moretti, Matteo

    2015-05-01

    The metastatic dissemination of cancer cells from primary tumors to secondary loci is a complex and multistep process including local invasion, intravasation, survival in the blood stream and extravasation towards the metastatic site. It is well known cancer metastases follow organ-specific pathways with selected primary tumors mainly metastasizing towards a specific panel of secondary organs (Steven Paget's theory 1889). However, circulatory patterns and microarchitecture of capillary networks play a key role in the metastatic spread as well (James Ewing's theory 1929). Taking into account both these factors would be critical to develop more complex and physiologically relevant in vitro cancer models. This review presents recent advances in the generation of microvascularized systems through microfluidic approaches and discusses promising results achieved by organ-on-a-chip platforms mimicking the pathophysiology of the functional units of specific organs. The combination of physiologically-like microvascular networks and organotypic microenvironments would foster a new generation of in vitro cancer models to more effectively screen new therapeutics, design personalized medicine treatments and investigate molecular pathways involved in cancer metastases.

  15. 3D High Resolution Mesh Deformation Based on Multi Library Wavelet Neural Network Architecture

    NASA Astrophysics Data System (ADS)

    Dhibi, Naziha; Elkefi, Akram; Bellil, Wajdi; Amar, Chokri Ben

    2016-12-01

    This paper deals with the features of a novel technique for large Laplacian boundary deformations using estimated rotations. The proposed method is based on a Multi Library Wavelet Neural Network structure founded on several mother wavelet families (MLWNN). The objective is to align features of mesh and minimize distortion with a fixed feature that minimizes the sum of the distances between all corresponding vertices. New mesh deformation method worked in the domain of Region of Interest (ROI). Our approach computes deformed ROI, updates and optimizes it to align features of mesh based on MLWNN and spherical parameterization configuration. This structure has the advantage of constructing the network by several mother wavelets to solve high dimensions problem using the best wavelet mother that models the signal better. The simulation test achieved the robustness and speed considerations when developing deformation methodologies. The Mean-Square Error and the ratio of deformation are low compared to other works from the state of the art. Our approach minimizes distortions with fixed features to have a well reconstructed object.

  16. Layout search of a gene regulatory network for 3-D visualization.

    PubMed

    Hosoyama, Naoki; Nasimul, Noman; Iba, Hitoshi

    2003-01-01

    In recent years, base sequences have been increasingly unscrambled through attempts represented by the human genome project. Accordingly, the estimation of the genetic network has been accelerated. However, no definitive method has become available for drawing a large effective graph. This paper proposes a method which allows for coping with an increase in the number of nodes by laying out genes on planes of several layers and then overlapping these planes. This layout involves an optimization problem which requires maximizing the fitness function. To demonstrate the effectiveness of our approach, we show some graphs using actual data on 82 genes and 552 genes. We also describe how to lay out nodes by means of stochastic searches, e.g., stochastic hill-climbing and incremental methods. The experimental results show the superiority and usefulness of two search methods in comparison with the simple random search.

  17. 3-D multilateration for measurement of earth crustal deformation and network densification

    NASA Technical Reports Server (NTRS)

    Ong, K. M.

    1973-01-01

    Discussion of how range and range-difference data types can make possible precise three-dimensional measurement of ground station positions and the position of an artificial signal source, without explicit dependence upon the signal source trajectory. An effective strategy for such measurement is to combine the multilateration approach with a VLBI system using natural radio sources. The VLBI methods would provide a coarse grid of three-dimensional benchmark locations on a regional and global scale. Multilateration stations would then occupy these coarse grid locations and provide a means for highly portable, relatively low-cost units to then densify networks on a regional and local scale. Because a multilateration approach can make use of strong artificial radio sources, it makes possible the use of relatively low-cost, highly mobile stations. Such mobile stations are virtually essential for three dimensional surveying in heavily urbanized areas or in rugged terrain.

  18. Dynamic network morphology and tension buildup in a 3D model of cytokinetic ring assembly.

    PubMed

    Bidone, Tamara C; Tang, Haosu; Vavylonis, Dimitrios

    2014-12-02

    During fission yeast cytokinesis, actin filaments nucleated by cortical formin Cdc12 are captured by myosin motors bound to a band of cortical nodes and bundled by cross-linking proteins. The myosin motors exert forces on the actin filaments, resulting in a net pulling of the nodes into a contractile ring, while cross-linking interactions help align actin filaments and nodes into a single bundle. We used these mechanisms in a three-dimensional computational model of contractile ring assembly, with semiflexible actin filaments growing from formins at cortical nodes, capturing of filaments by neighboring nodes, and cross-linking among filaments through attractive interactions. The model was used to predict profiles of actin filament density at the cell cortex, morphologies of condensing node-filament networks, and regimes of cortical tension by varying the node pulling force and strength of cross-linking among actin filaments. Results show that cross-linking interactions can lead to confinement of actin filaments at the simulated cortical boundary. We show that the ring-formation region in parameter space lies close to regions leading to clumps, meshworks or double rings, and stars/cables. Since boundaries between regions are not sharp, transient structures that resemble clumps, stars, and meshworks can appear in the process of ring assembly. These results are consistent with prior experiments with mutations in actin-filament turnover regulators, myosin motor activity, and changes in the concentration of cross-linkers that alter the morphology of the condensing network. Transient star shapes appear in some simulations, and these morphologies offer an explanation for star structures observed in prior experimental images. Finally, we quantify tension along actin filaments and forces on nodes during ring assembly and show that the mechanisms describing ring assembly can also drive ring constriction once the ring is formed.

  19. Pillared Graphene: A New 3-D Innovative Network Nanostructure Augments Hydrogen Storage

    NASA Astrophysics Data System (ADS)

    Georgios, Dimitrakakis K.; Emmanuel, Tylianakis; George, Froudakis E.

    2009-08-01

    Nowadays, people have turned into finding an alternative power source for everyday applications. One of the most promising energy fuels is hydrogen. It can be used as an energy carrier at small portable devices (e.g. laptops and/or cell phones) up to larger, like cars. Hydrogen is considered as the perfect fuel. It can be burnt in combustion engines and the only by-product is water. For hydrogen-powered vehicles a big liming factor is the gas tank and is the reason for not using widely hydrogen in automobile applications. According to United States' Department of Energy (D.O.E.) the target for reversible hydrogen storage in mobile applications is 6% wt. and 45 gr. H2/L and these should be met by 2010. After their synthesis Carbon Nanotubes (CNTs) were considered as ideal candidates for hydrogen storage especially after some initially incorrect but invitingly results. As it was proven later, pristine carbon nanotubes cannot achieve D.O.E.'s targets in ambient conditions of pressure and temperature. Therefore, a way to increase their hydrogen storage capacity should be found. An attempt was done by doping CNTs with alkali metal atoms. Although the results were promising, even that increment was not enough. Consequently, new architectures were suggested as materials that could potentially enhance hydrogen storage. In this work a novel three dimensional (3-D) nanoporous carbon structure called Pillared Graphene (Figure 1) is proposed for augmented hydrogen storage in ambient conditions. Pillared Graphene consists of parallel graphene sheets and CNTs that act like pillars and support the graphene sheets. The entire structure (Figure 1) can be resembled like a building in its early stages of construction, where the floors are represented by graphene sheets and the pillars are the CNTs. As shown in Figure 1, CNTs do not penetrate the structure from top to bottom. Instead, they alternately go up and down, so that on the same plane do not exist two neighboring CNTs with the

  20. Enzymatic regulation of functional vascular networks using gelatin hydrogels

    PubMed Central

    Chuang, Chia-Hui; Lin, Ruei-Zeng; Tien, Han-Wen; Chu, Ya-Chun; Li, Yen-Cheng; Melero-Martin, Juan M.; Chen, Ying-Chieh

    2015-01-01

    To manufacture tissue engineering-based functional tissues, scaffold materials that can be sufficiently vascularized to mimic the functionality and complexity of native tissues are needed. Currently, vascular network bioengineering is largely carried out using natural hydrogels as embedding scaffolds, but most natural hydrogels have poor mechanical stability and durability, factors that critically limit their widespread use. In this study, we examined the suitability of gelatin-phenolic hydroxyl (gelatin-Ph) hydrogels that can be enzymatically crosslinked, allowing tuning of the storage modulus and the proteolytic degradation rate, for use as injectable hydrogels to support the human progenitor cell-based formation of a stable and mature vascular network. Porcine gelatin-Ph hydrogels were found to be cytocompatible with human blood-derived endothelial colony-forming cells and white adipose tissue-derived mesenchymal stem cells, resulting in >87% viability, and cell proliferation and spreading could be modulated by using hydrogels with different proteolytic degradability and stiffness. In addition, gelatin was extracted from mouse dermis and murine gelatin-Ph hydrogels were prepared. Importantly, implantation of human cell-laden porcine or murine gelatin-Ph hydrogels into immunodeficient mice resulted in the rapid formation of functional anastomoses between the bioengineered human vascular network and the mouse vasculature. Furthermore, the degree of enzymatic crosslinking of the gelatin-Ph hydrogels could be used to modulate cell behavior and the extent of vascular network formation in vivo. Our report details a technique for the synthesis of gelatin-Ph hydrogels from allogeneic or xenogeneic dermal skin and suggests that these hydrogels can be used for biomedical applications that require the formation of microvascular networks, including the development of complex engineered tissues. PMID:25749296

  1. Enzymatic regulation of functional vascular networks using gelatin hydrogels.

    PubMed

    Chuang, Chia-Hui; Lin, Ruei-Zeng; Tien, Han-Wen; Chu, Ya-Chun; Li, Yen-Cheng; Melero-Martin, Juan M; Chen, Ying-Chieh

    2015-06-01

    To manufacture tissue engineering-based functional tissues, scaffold materials that can be sufficiently vascularized to mimic the functionality and complexity of native tissues are needed. Currently, vascular network bioengineering is largely carried out using natural hydrogels as embedding scaffolds, but most natural hydrogels have poor mechanical stability and durability, factors that critically limit their widespread use. In this study, we examined the suitability of gelatin-phenolic hydroxyl (gelatin-Ph) hydrogels that can be enzymatically crosslinked, allowing tuning of the storage modulus and the proteolytic degradation rate, for use as injectable hydrogels to support the human progenitor cell-based formation of a stable and mature vascular network. Porcine gelatin-Ph hydrogels were found to be cytocompatible with human blood-derived endothelial colony-forming cells and white adipose tissue-derived mesenchymal stem cells, resulting in >87% viability, and cell proliferation and spreading could be modulated by using hydrogels with different proteolytic degradability and stiffness. In addition, gelatin was extracted from mouse dermis and murine gelatin-Ph hydrogels were prepared. Importantly, implantation of human cell-laden porcine or murine gelatin-Ph hydrogels into immunodeficient mice resulted in the rapid formation of functional anastomoses between the bioengineered human vascular network and the mouse vasculature. Furthermore, the degree of enzymatic crosslinking of the gelatin-Ph hydrogels could be used to modulate cell behavior and the extent of vascular network formation in vivo. Our report details a technique for the synthesis of gelatin-Ph hydrogels from allogeneic or xenogeneic dermal skin and suggests that these hydrogels can be used for biomedical applications that require the formation of microvascular networks, including the development of complex engineered tissues.

  2. Templated assembly of BiFeO₃ nanocrystals into 3D mesoporous networks for catalytic applications.

    PubMed

    Papadas, I T; Subrahmanyam, K S; Kanatzidis, M G; Armatas, G S

    2015-03-19

    The self-assembly of uniform nanocrystals into large porous architectures is currently of immense interest for nanochemistry and nanotechnology. These materials combine the respective advantages of discrete nanoparticles and mesoporous structures. In this article, we demonstrate a facile nanoparticle templating process to synthesize a three-dimensional mesoporous BiFeO₃ material. This approach involves the polymer-assisted aggregating assembly of 3-aminopropanoic acid-stabilized bismuth ferrite (BiFeO₃) nanocrystals followed by thermal decomposition of the surfactant. The resulting material consists of a network of tightly connected BiFeO₃ nanoparticles (∼6-7 nm in diameter) and has a moderately high surface area (62 m(2) g(-1)) and uniform pores (ca. 6.3 nm). As a result of the unique mesostructure, the porous assemblies of BiFeO₃ nanoparticles show an excellent catalytic activity and chemical stability for the reduction of p-nitrophenol to p-aminophenol with NaBH4.

  3. Metastatic liver tumour segmentation with a neural network-guided 3D deformable model.

    PubMed

    Vorontsov, Eugene; Tang, An; Roy, David; Pal, Christopher J; Kadoury, Samuel

    2017-01-01

    The segmentation of liver tumours in CT images is useful for the diagnosis and treatment of liver cancer. Furthermore, an accurate assessment of tumour volume aids in the diagnosis and evaluation of treatment response. Currently, segmentation is performed manually by an expert, and because of the time required, a rough estimate of tumour volume is often done instead. We propose a semi-automatic segmentation method that makes use of machine learning within a deformable surface model. Specifically, we propose a deformable model that uses a voxel classifier based on a multilayer perceptron (MLP) to interpret the CT image. The new deformable model considers vertex displacement towards apparent tumour boundaries and regularization that promotes surface smoothness. During operation, a user identifies the target tumour and the mesh then automatically delineates the tumour from the MLP processed image. The method was tested on a dataset of 40 abdominal CT scans with a total of 95 colorectal metastases collected from a variety of scanners with variable spatial resolution. The segmentation results are encouraging with a Dice similarity metric of [Formula: see text] and demonstrates that the proposed method can deal with highly variable data. This work motivates further research into tumour segmentation using machine learning with more data and deeper neural networks.

  4. Engineering of a Biomimetic Pericyte-Covered 3D Microvascular Network.

    PubMed

    Kim, Jaerim; Chung, Minhwan; Kim, Sudong; Jo, Dong Hyun; Kim, Jeong Hun; Jeon, Noo Li

    2015-01-01

    Pericytes enveloping the endothelium play an important role in the physiology and pathology of microvessels, especially in vessel maturation and stabilization. However, our understanding of fundamental pericyte biology is limited by the lack of a robust in vitro model system that allows researchers to evaluate the interactions among multiple cell types in perfusable blood vessels. The present work describes a microfluidic platform that can be used to investigate interactions between pericytes and endothelial cells (ECs) during the sprouting, growth, and maturation steps of neovessel formation. A mixture of ECs and pericytes was attached to the side of a pre-patterned three dimensional fibrin matrix and allowed to sprout across the matrix. The effects of intact coverage and EC maturation by the pericytes on the perfused EC network were confirmed using a confocal microscope. Compared with EC monoculture conditions, EC-pericyte co-cultured vessels showed a significant reduction in diameter, increased numbers of junctions and branches and decreased permeability. In response to biochemical factors, ECs and pericytes in the platform showed the similar features with previous reports from in vivo experiments, thus reflect various pathophysiological conditions of in vivo microvessels. Taken together, these results support the physiological relevancy of our three-dimensional microfluidic culture system but also that the system can be used to screen drug effect on EC-pericyte biology.

  5. Applications of neural networks to landmark detection in 3-D surface data

    NASA Astrophysics Data System (ADS)

    Arndt, Craig M.

    1992-09-01

    The problem of identifying key landmarks in 3-dimensional surface data is of considerable interest in solving a number of difficult real-world tasks, including object recognition and image processing. The specific problem that we address in this research is to identify the specific landmarks (anatomical) in human surface data. This is a complex task, currently performed visually by an expert human operator. In order to replace these human operators and increase reliability of the data acquisition, we need to develop a computer algorithm which will utilize the interrelations between the 3-dimensional data to identify the landmarks of interest. The current presentation describes a method for designing, implementing, training, and testing a custom architecture neural network which will perform the landmark identification task. We discuss the performance of the net in relationship to human performance on the same task and how this net has been integrated with other AI and traditional programming methods to produce a powerful analysis tool for computer anthropometry.

  6. Analysis of performance improvements for host and GPU interface of the APENet+ 3D Torus network

    NASA Astrophysics Data System (ADS)

    Ammendola A, R.; Biagioni, A.; Frezza, O.; Lo Cicero, F.; Lonardo, A.; Paolucci, P. S.; Rossetti, D.; Simula, F.; Tosoratto, L.; Vicini, P.

    2014-06-01

    APEnet+ is an INFN (Italian Institute for Nuclear Physics) project aiming to develop a custom 3-Dimensional torus interconnect network optimized for hybrid clusters CPU-GPU dedicated to High Performance scientific Computing. The APEnet+ interconnect fabric is built on a FPGA-based PCI-express board with 6 bi-directional off-board links showing 34 Gbps of raw bandwidth per direction, and leverages upon peer-to-peer capabilities of Fermi and Kepler-class NVIDIA GPUs to obtain real zero-copy, GPU-to-GPU low latency transfers. The minimization of APEnet+ transfer latency is achieved through the adoption of RDMA protocol implemented in FPGA with specialized hardware blocks tightly coupled with embedded microprocessor. This architecture provides a high performance low latency offload engine for both trasmit and receive side of data transactions: preliminary results are encouraging, showing 50% of bandwidth increase for large packet size transfers. In this paper we describe the APEnet+ architecture, detailing the hardware implementation and discuss the impact of such RDMA specialized hardware on host interface latency and bandwidth.

  7. Multisensor fusion for 3-D defect characterization using wavelet basis function neural networks

    NASA Astrophysics Data System (ADS)

    Lim, Jaein; Udpa, Satish S.; Udpa, Lalita; Afzal, Muhammad

    2001-04-01

    The primary objective of multi-sensor data fusion, which offers both quantitative and qualitative benefits, has the ability to draw inferences that may not be feasible with data from a single sensor alone. In this paper, data from two sets of sensors are fused to estimate the defect profile from magnetic flux leakage (MFL) inspection data. The two sensors measure the axial and circumferential components of the MFL. Data is fused at the signal level. If the flux is oriented axially, the samples of the axial signal are measured along a direction parallel to the flaw, while the circumferential signal is measured in a direction that is perpendicular to the flaw. The two signals are combined as the real and imaginary components of a complex valued signal. Signals from an array of sensors are arranged in contiguous rows to obtain a complex valued image. A boundary extraction algorithm is used to extract the defect areas in the image. Signals from the defect regions are then processed to minimize noise and the effects of lift-off. Finally, a wavelet basis function (WBF) neural network is employed to map the complex valued image appropriately to obtain the geometrical profile of the defect. The feasibility of the approach was evaluated using the data obtained from the MFL inspection of natural gas transmission pipelines. Results show the effectiveness of the approach.

  8. 3D geological modelling of a complex buried-valley network delineated from borehole and AEM data

    NASA Astrophysics Data System (ADS)

    Høyer, A.-S.; Jørgensen, F.; Sandersen, P. B. E.; Viezzoli, A.; Møller, I.

    2015-11-01

    Buried tunnel valleys are common features in formerly glaciated areas, and where present, they are very important for the groundwater recharge and flow. Delineation of the structures and modelling of the infill is therefore very important in relation to groundwater mapping. Typically, borehole information is too sparse to enable a detailed delineation of the structures, whereas densely covering airborne electromagnetic data have proven to be very useful for this. In the last decades, the mapping approach has been studied carefully, but the 3D modelling of the valley structures has not been described to the same degree yet. In this study, we create a 3D geological model of an area that is characterised by a complex network of buried valleys mapped with a spatially dense airborne electromagnetic survey. Due to the comprehensive dataset, the modelling requires formulation of an advanced strategy. This contains a number of steps, where the AEM-derived resistivity data are initially interpreted based on the geological background knowledge to identify the buried valleys and build a conceptual geological model. Secondly, the age relationships between the valleys are established from the valley orientations and their internal cross-cut relationships. Thirdly, the deep erosional surfaces are modelled. Subsequently, the interpreted age relationships are utilised to trim the valley floor surfaces, such that younger valleys cut older. Finally, a voxel model is built and populated with lithofacies and stratigraphical units. The model is constructed as a combined layer-based and voxel model in order to map both the overall structures as well as the lithological variations within the 3D model domain. The final model contains 20 buried valleys that show a complex cross-cut setting that indicate the presence of at least eight valley generations. Most of the valley infills show lithological variations, and the final voxel model thus contains 42 different geological units.

  9. Bone canalicular network segmentation in 3D nano-CT images through geodesic voting and image tessellation

    NASA Astrophysics Data System (ADS)

    Zuluaga, Maria A.; Orkisz, Maciej; Dong, Pei; Pacureanu, Alexandra; Gouttenoire, Pierre-Jean; Peyrin, Françoise

    2014-05-01

    Recent studies emphasized the role of the bone lacuno-canalicular network (LCN) in the understanding of bone diseases such as osteoporosis. However, suitable methods to investigate this structure are lacking. The aim of this paper is to introduce a methodology to segment the LCN from three-dimensional (3D) synchrotron radiation nano-CT images. Segmentation of such structures is challenging due to several factors such as limited contrast and signal-to-noise ratio, partial volume effects and huge number of data that needs to be processed, which restrains user interaction. We use an approach based on minimum-cost paths and geodesic voting, for which we propose a fully automatic initialization scheme based on a tessellation of the image domain. The centroids of pre-segmented lacunæ are used as Voronoi-tessellation seeds and as start-points of a fast-marching front propagation, whereas the end-points are distributed in the vicinity of each Voronoi-region boundary. This initialization scheme was devised to cope with complex biological structures involving cells interconnected by multiple thread-like, branching processes, while the seminal geodesic-voting method only copes with tree-like structures. Our method has been assessed quantitatively on phantom data and qualitatively on real datasets, demonstrating its feasibility. To the best of our knowledge, presented 3D renderings of lacunæ interconnected by their canaliculi were achieved for the first time.

  10. Shape-memory polymer nanocomposites with a 3D conductive network for bidirectional actuation and locomotion application.

    PubMed

    Peng, Qingyu; Wei, Hongqiu; Qin, Yuyang; Lin, Zaishan; Zhao, Xu; Xu, Fan; Leng, Jinsong; He, Xiaodong; Cao, Anyuan; Li, Yibin

    2016-10-27

    Electrical stimulation of shape-memory polymers (SMPs) has many advantages over thermal methods; creating an efficient conductive path through the bulk polymers is essential for developing high performance electroactive systems. Here, we show that a three-dimensional (3D) porous carbon nanotube sponge can serve as a built-in integral conductive network to provide internal, homogeneous, in situ Joule heating for shape-memory polymers, thus significantly improving the mechanical and thermal behavior of SMPs. As a result, the 3D nanocomposites show a fast response and produce large exerting forces (with a maximum flexural stress of 14.6 MPa) during shape recovery. We further studied the construction of a double-layer composite structure for bidirectional actuation, in which the shape change is dominated by the temperature-dependent exerting force from the top and bottom layer, alternately. An inchworm-type robot is demonstrated whose locomotion is realized by such bidirectional shape memory. Our large stroke shape-memory nanocomposites have promising applications in many areas including artificial muscles and bionic robots.

  11. Ice-Templated Assembly Strategy to Construct 3D Boron Nitride Nanosheet Networks in Polymer Composites for Thermal Conductivity Improvement.

    PubMed

    Zeng, Xiaoliang; Yao, Yimin; Gong, Zhengyu; Wang, Fangfang; Sun, Rong; Xu, Jianbin; Wong, Ching-Ping

    2015-12-01

    Owing to the growing heat removal issue of modern electronic devices, polymer composites with high thermal conductivity have drawn much attention in the past few years. However, a traditional method to enhance the thermal conductivity of the polymers by addition of inorganic fillers usually creates composite with not only limited thermal conductivity but also other detrimental effects due to large amount of fillers required. Here, novel polymer composites are reported by first constructing 3D boron nitride nanosheets (3D-BNNS) network using ice-templated approach and then infiltrating them with epoxy matrix. The obtained polymer composites exhibit a high thermal conductivity (2.85 W m(-1) K(-1)), a low thermal expansion coefficient (24-32 ppm K(-1)), and an increased glass transition temperature (T(g)) at relatively low BNNSs loading (9.29 vol%). These results demonstrate that this approach opens a new avenue for design and preparation of polymer composites with high thermal conductivity. The polymer composites are potentially useful in advanced electronic packaging techniques, namely, thermal interface materials, underfill materials, molding compounds, and organic substrates.

  12. 3D morphometry of valley networks on Mars from HRSC/MEX DEMs: Implications for climatic evolution through time

    NASA Astrophysics Data System (ADS)

    Ansan, V.; Mangold, N.

    2013-09-01

    valley networks have been identified mainly in the Noachian heavily cratered uplands. Eight dense branching valley networks were studied in Noachian terrains of Huygens, Newcomb and Kepler craters, south Tyrrhena Terra, and Thaumasia, in Hesperian terrains of Echus Plateau and west Eberswalde craters, and in Amazonian terrains of Alba Patera, using images and digital elevation models from the Mars Express High Resolution Stereo Camera to determine 2D and 3D morphometric parameters. Extracted geomorphic parameters show similar geometry to terrestrial valleys: drainage densities, organization from bifurcation ratios and lengths ratios, Hack exponent consistent with terrestrial values of ~0.6, and progressive deepening of valleys with increasing Strahler order. In addition, statistics on valley depths indicate a deeper incision of Noachian valleys compared to younger post-Noachian valleys (<25 m for Amazonian ones compared to >100 m for Noachian ones), showing a strong difference in fluvial erosion. These characteristics show that dense Martian valley networks formed by overland flows in relation to a global atmospheric water cycle in Noachian epoch and confirm that the later stages of activity may be related to shorter duration of activity, distinct climatic conditions, and/or regional processes, or conditions.

  13. Hybrid nickel manganese oxide nanosheet-3D metallic dendrite percolation network electrodes for high-rate electrochemical energy storage.

    PubMed

    Nguyen, Tuyen; Eugénio, Sónia; Boudard, Michel; Rapenne, Laetitia; Carmezim, M João; Silva, Teresa M; Montemor, M Fátima

    2015-08-07

    This work reports the fabrication, by electrodeposition and post-thermal annealing, of hybrid electrodes for high rate electrochemical energy storage composed of nickel manganese oxide (Ni0.86Mn0.14O) nanosheets over 3D open porous dendritic NiCu foams. The hybrid electrodes are made of two different percolation networks of nanosheets and dendrites, and exhibit a specific capacitance value of 848 F g(-1) at 1 A g(-1). The electrochemical tests revealed that the electrodes display an excellent rate capability, characterized by capacitance retention of approximately 83% when the applied current density increases from 1 A g(-1) to 20 A g(-1). The electrodes also evidenced high charge-discharge cycling stability, which attained 103% after 1000 cycles.

  14. Electrospun carbon nanofibers reinforced 3D porous carbon polyhedra network derived from metal-organic frameworks for capacitive deionization

    PubMed Central

    Liu, Yong; Ma, Jiaqi; Lu, Ting; Pan, Likun

    2016-01-01

    Carbon nanofibers reinforced 3D porous carbon polyhedra network (e-CNF-PCP) was prepared through electrospinning and subsequent thermal treatment. The morphology, structure and electrochemical performance of the e-CNF-PCP were characterized using scanning electron microscopy, Raman spectra, nitrogen adsorption-desorption, cyclic voltammetry and electrochemical impedance spectroscopy, and their electrosorption performance in NaCl solution was studied. The results show that the e-CNF-PCP exhibits a high electrosorption capacity of 16.98 mg g−1 at 1.2 V in 500 mg l−1 NaCl solution, which shows great improvement compared with those of electrospun carbon nanofibers and porous carbon polyhedra. The e-CNF-PCP should be a very promising candidate as electrode material for CDI applications. PMID:27608826

  15. Pose-invariant face-head identification using a bank of neural networks and the 3D neck reference point

    NASA Astrophysics Data System (ADS)

    Hild, Michael; Yoshida, Kazunobu; Hashimoto, Motonobu

    2003-03-01

    A method for recognizing faces in relativley unconstrained environments, such as offices, is described. It can recognize faces occurring over an extended range of orientations and distances relative to the camera. As the pattern recognition mechanism, a bank of small neural networks of the multilayer perceptron type is used, where each perceptron has the task of recognizing only a single person's face. The perceptrons are trained with a set of nine face images representing the nine main facial orientations of the person to be identified, and a set face images from various other persons. The center of the neck is determined as the reference point for face position unification. Geometric normalization and reference point determination utilizes 3-D data point measurements obtained with a stereo camera. The system achieves a recognition rate of about 95%.

  16. Mixed-scale channel networks including Kingfisher-beak-shaped 3D microfunnels for efficient single particle entrapment

    NASA Astrophysics Data System (ADS)

    Lee, Yunjeong; Lim, Yeongjin; Shin, Heungjoo

    2016-06-01

    Reproducible research results for nanofluidics and their applications require viable fabrication technologies to produce nanochannels integrated with microchannels that can guide fluid flow and analytes into/out of the nanochannels. We present the simple fabrication of mixed-scale polydimethylsiloxane (PDMS) channel networks consisting of nanochannels and microchannels via a single molding process using a monolithic mixed-scale carbon mold. The monolithic carbon mold is fabricated by pyrolyzing a polymer mold patterned by photolithography. During pyrolysis, the polymer mold shrinks by ~90%, which enables nanosized carbon molds to be produced without a complex nanofabrication process. Because of the good adhesion between the polymer mold and the Si substrate, non-uniform volume reduction occurs during pyrolysis resulting in the formation of curved carbon mold side walls. These curved side walls and the relatively low surface energy of the mold provide efficient demolding of the PDMS channel networks. In addition, the trigonal prismatic shape of the polymer is converted into to a Kingfisher-beak-shaped carbon structure due to the non-uniform volume reduction. The transformation of this mold architecture produces a PDMS Kingfisher-beak-shaped 3D microfunnel that connects the microchannel and the nanochannel smoothly. The smooth reduction in the cross-sectional area of the 3D microfunnels enables efficient single microparticle trapping at the nanochannel entrance; this is beneficial for studies of cell transfection.Reproducible research results for nanofluidics and their applications require viable fabrication technologies to produce nanochannels integrated with microchannels that can guide fluid flow and analytes into/out of the nanochannels. We present the simple fabrication of mixed-scale polydimethylsiloxane (PDMS) channel networks consisting of nanochannels and microchannels via a single molding process using a monolithic mixed-scale carbon mold. The monolithic

  17. Gap-free segmentation of vascular networks with automatic image processing pipeline.

    PubMed

    Hsu, Chih-Yang; Ghaffari, Mahsa; Alaraj, Ali; Flannery, Michael; Zhou, Xiaohong Joe; Linninger, Andreas

    2017-03-01

    Current image processing techniques capture large vessels reliably but often fail to preserve connectivity in bifurcations and small vessels. Imaging artifacts and noise can create gaps and discontinuity of intensity that hinders segmentation of vascular trees. However, topological analysis of vascular trees require proper connectivity without gaps, loops or dangling segments. Proper tree connectivity is also important for high quality rendering of surface meshes for scientific visualization or 3D printing. We present a fully automated vessel enhancement pipeline with automated parameter settings for vessel enhancement of tree-like structures from customary imaging sources, including 3D rotational angiography, magnetic resonance angiography, magnetic resonance venography, and computed tomography angiography. The output of the filter pipeline is a vessel-enhanced image which is ideal for generating anatomical consistent network representations of the cerebral angioarchitecture for further topological or statistical analysis. The filter pipeline combined with computational modeling can potentially improve computer-aided diagnosis of cerebrovascular diseases by delivering biometrics and anatomy of the vasculature. It may serve as the first step in fully automatic epidemiological analysis of large clinical datasets. The automatic analysis would enable rigorous statistical comparison of biometrics in subject-specific vascular trees. The robust and accurate image segmentation using a validated filter pipeline would also eliminate operator dependency that has been observed in manual segmentation. Moreover, manual segmentation is time prohibitive given that vascular trees have more than thousands of segments and bifurcations so that interactive segmentation consumes excessive human resources. Subject-specific trees are a first step toward patient-specific hemodynamic simulations for assessing treatment outcomes.

  18. The Derivation of Fault Volumetric Properties from 3D Trace Maps Using Outcrop Constrained Discrete Fracture Network Models

    NASA Astrophysics Data System (ADS)

    Hodgetts, David; Seers, Thomas

    2015-04-01

    -deterministic, outcrop constrained discrete fracture network modeling code to derive volumetric fault intensity measures (fault area per unit volume / fault volume per unit volume). Producing per-vertex measures of volumetric intensity; our method captures the spatial variability in 3D fault density across a surveyed outcrop, enabling first order controls to be probed. We demonstrate our approach on pervasively faulted exposures of a Permian aged reservoir analogue from the Vale of Eden Basin, UK.

  19. 3-D components of a biological neural network visualized in computer generated imagery. II - Macular neural network organization

    NASA Technical Reports Server (NTRS)

    Ross, Muriel D.; Meyer, Glenn; Lam, Tony; Cutler, Lynn; Vaziri, Parshaw

    1990-01-01

    Computer-assisted reconstructions of small parts of the macular neural network show how the nerve terminals and receptive fields are organized in 3-dimensional space. This biological neural network is anatomically organized for parallel distributed processing of information. Processing appears to be more complex than in computer-based neural network, because spatiotemporal factors figure into synaptic weighting. Serial reconstruction data show anatomical arrangements which suggest that (1) assemblies of cells analyze and distribute information with inbuilt redundancy, to improve reliability; (2) feedforward/feedback loops provide the capacity for presynaptic modulation of output during processing; (3) constrained randomness in connectivities contributes to adaptability; and (4) local variations in network complexity permit differing analyses of incoming signals to take place simultaneously. The last inference suggests that there may be segregation of information flow to central stations subserving particular functions.

  20. Effectiveness of evaluating tumor vascularization using 3D power Doppler ultrasound with high-definition flow technology in the prediction of the response to neoadjuvant chemotherapy for T2 breast cancer: a preliminary report

    NASA Astrophysics Data System (ADS)

    Shia, Wei-Chung; Chen, Dar-Ren; Huang, Yu-Len; Wu, Hwa-Koon; Kuo, Shou-Jen

    2015-10-01

    The aim of this study was to evaluate the effectiveness of advanced ultrasound (US) imaging of vascular flow and morphological features in the prediction of a pathologic complete response (pCR) and a partial response (PR) to neoadjuvant chemotherapy for T2 breast cancer. Twenty-nine consecutive patients with T2 breast cancer treated with six courses of anthracycline-based neoadjuvant chemotherapy were enrolled. Three-dimensional (3D) power Doppler US with high-definition flow (HDF) technology was used to investigate the blood flow in and morphological features of the tumors. Six vascularity quantization features, three morphological features, and two vascular direction features were selected and extracted from the US images. A support vector machine was used to evaluate the changes in vascularity after neoadjuvant chemotherapy, and pCR and PR were predicted on the basis of these changes. The most accurate prediction of pCR was achieved after the first chemotherapy cycle, with an accuracy of 93.1% and a specificity of 85.5%, while that of a PR was achieved after the second cycle, with an accuracy of 79.31% and a specificity of 72.22%. Vascularity data can be useful to predict the effects of neoadjuvant chemotherapy. Determination of changes in vascularity after neoadjuvant chemotherapy using 3D power Doppler US with HDF can generate accurate predictions of the patient response, facilitating early decision-making.

  1. Image-guided, Laser-based Fabrication of Vascular-derived Microfluidic Networks.

    PubMed

    Heintz, Keely A; Mayerich, David; Slater, John H

    2017-01-03

    This detailed protocol outlines the implementation of image-guided, laser-based hydrogel degradation for the fabrication of vascular-derived microfluidic networks embedded in PEGDA hydrogels. Here, we describe the creation of virtual masks that allow for image-guided laser control; the photopolymerization of a micromolded PEGDA hydrogel, suitable for microfluidic network fabrication and pressure head-driven flow; the setup and use of a commercially available laser scanning confocal microscope paired with a femtosecond pulsed Ti:S laser to induce hydrogel degradation; and the imaging of fabricated microfluidic networks using fluorescent species and confocal microscopy. Much of the protocol is focused on the proper setup and implementation of the microscope software and microscope macro, as these are crucial steps in using a commercial microscope for microfluidic fabrication purposes that contain a number of intricacies. The image-guided component of this technique allows for the implementation of 3D image stacks or user-generated 3D models, thereby allowing for creative microfluidic design and for the fabrication of complex microfluidic systems of virtually any configuration. With an expected impact in tissue engineering, the methods outlined in this protocol could aid in the fabrication of advanced biomimetic microtissue constructs for organ- and human-on-a-chip devices. By mimicking the complex architecture, tortuosity, size, and density of in vivo vasculature, essential biological transport processes can be replicated in these constructs, leading to more accurate in vitro modeling of drug pharmacokinetics and disease.

  2. Regulation of the nascent brain vascular network by neural progenitors.

    PubMed

    Santhosh, Devi; Huang, Zhen

    2015-11-01

    Neural progenitors are central players in the development of the brain neural circuitry. They not only produce the diverse neuronal and glial cell types in the brain, but also guide their migration in this process. Recent evidence indicates that neural progenitors also play a critical role in the development of the brain vascular network. At an early stage, neural progenitors have been found to facilitate the ingression of blood vessels from outside the neural tube, through VEGF and canonical Wnt signaling. Subsequently, neural progenitors directly communicate with endothelial cells to stabilize nascent brain vessels, in part through down-regulating Wnt pathway activity. Furthermore, neural progenitors promote nascent brain vessel integrity, through integrin αvβ8-dependent TGFβ signaling. In this review, we will discuss the evidence for, as well as questions that remain, regarding these novel roles of neural progenitors and the underlying mechanisms in their regulation of the nascent brain vascular network.

  3. 7-cyclopentyl-5-(4-phenoxyphenyl)-7H-pyrrolo[2,3-d] pyrimidin-4-ylamine inhibits the proliferation and migration of vascular smooth muscle cells by suppressing ERK and Akt pathways.

    PubMed

    Seo, Hyang-Hee; Kim, Sang Woo; Lee, Chang Youn; Lim, Kyu Hee; Lee, Jiyun; Lim, Soyeon; Lee, Seahyoung; Hwang, Ki-Chul

    2017-03-05

    Excessive vascular smooth muscle cell (VSMC) proliferation and migration after vascular injury significantly contributes to the development of occlusive vascular disease. Therefore, inhibiting the proliferation and migration of VSMCs is a validated therapeutic modality for occlusive vascular disease such as atherosclerosis and restenosis. In the present study, we screened chemical compounds for their anti-proliferative effects on VSMCs using multiple approaches, such as MTT assays, wound healing assays, and trans-well migration assays. Our data indicate that 7-cyclopentyl-5-(4-phenoxyphenyl)-7H-pyrrolo[2,3-d] pyrimidin-4-ylamine, a lymphocyte-specific protein tyrosine kinase (Lck) inhibitor, significantly inhibited both VSMC proliferation and migration. 7-cyclopentyl-5-(4-phenoxyphenyl)-7H-pyrrolo[2,3-d]pyrimidin-4-ylamine suppresses VSMC proliferation and migration via down-regulating the protein kinase B (Akt) and extracellular signal regulated kinase (ERK) pathways, and it significantly decreased the expression of proliferating cell nuclear antigen (PCNA) and cyclin D1 and, the phosphorylation of retinoblastoma protein (pRb). Additionally, 7-cyclopentyl-5-(4-phenoxyphenyl)-7H-pyrrolo[2,3-d] pyrimidin-4-ylamine suppressed the migration of VSMCs from endothelium-removed aortic rings, as well as neointima formation following rat carotid balloon injury. The present study identified 7-cyclopentyl-5-(4-phenoxyphenyl)-7H-pyrrolo[2,3-d]pyrimidin-4-ylamine as a potent VSMC proliferation and migration inhibitor and warrants further studies to elucidate its more detailed molecular mechanisms, such as its primary target, and to further validate its in vivo efficacy as a therapeutic agent for pathologic vascular conditions, such as restenosis and atherosclerosis.

  4. Determination of 3D surface displacement rates in the Upper Rhine Graben based on GURN (GNSS Upper Rhine Graben Network)

    NASA Astrophysics Data System (ADS)

    Mayer, M.; Knöpfler, A.; Masson, F.; Ulrich, P.; Heck, B.

    2012-04-01

    regional network GURN actually consists of approx. 80 permanently operating GNSS sites of different data providers in Germany, France and Switzerland. The first work steps in the context of GURN were dominated by a detailed analysis of the GNSS data base (e.g., instrumental change artefacts). This analysis included a comparison of the working group related results (EOST, GIK), where different software packages and data handling strategies were used to derive 3D coordinate time series as basis for the determination of a 3D surface displacement field. Due to very small expected velocities in the URG region, the recent GURN focus is on the reliable derivation of site velocities, therefore effects of datum realisation have to be handled with care. The presentation gives an insight into the joint venture GURN focussing on recent results (e.g., 3D surface velocity field).

  5. iRegNet3D: three-dimensional integrated regulatory network for the genomic analysis of coding and non-coding disease mutations.

    PubMed

    Liang, Siqi; Tippens, Nathaniel D; Zhou, Yaoda; Mort, Matthew; Stenson, Peter D; Cooper, David N; Yu, Haiyuan

    2017-01-18

    The mechanistic details of most disease-causing mutations remain poorly explored within the context of regulatory networks. We present a high-resolution three-dimensional integrated regulatory network (iRegNet3D) in the form of a web tool, where we resolve the interfaces of all known transcription factor (TF)-TF, TF-DNA and chromatin-chromatin interactions for the analysis of both coding and non-coding disease-associated mutations to obtain mechanistic insights into their functional impact. Using iRegNet3D, we find that disease-associated mutations may perturb the regulatory network through diverse mechanisms including chromatin looping. iRegNet3D promises to be an indispensable tool in large-scale sequencing and disease association studies.

  6. Allosteric pathway identification through network analysis: from molecular dynamics simulations to interactive 2D and 3D graphs.

    PubMed

    Allain, Ariane; Chauvot de Beauchêne, Isaure; Langenfeld, Florent; Guarracino, Yann; Laine, Elodie; Tchertanov, Luba

    2014-01-01

    Allostery is a universal phenomenon that couples the information induced by a local perturbation (effector) in a protein to spatially distant regulated sites. Such an event can be described in terms of a large scale transmission of information (communication) through a dynamic coupling between structurally rigid (minimally frustrated) and plastic (locally frustrated) clusters of residues. To elaborate a rational description of allosteric coupling, we propose an original approach - MOdular NETwork Analysis (MONETA) - based on the analysis of inter-residue dynamical correlations to localize the propagation of both structural and dynamical effects of a perturbation throughout a protein structure. MONETA uses inter-residue cross-correlations and commute times computed from molecular dynamics simulations and a topological description of a protein to build a modular network representation composed of clusters of residues (dynamic segments) linked together by chains of residues (communication pathways). MONETA provides a brand new direct and simple visualization of protein allosteric communication. A GEPHI module implemented in the MONETA package allows the generation of 2D graphs of the communication network. An interactive PyMOL plugin permits drawing of the communication pathways between chosen protein fragments or residues on a 3D representation. MONETA is a powerful tool for on-the-fly display of communication networks in proteins. We applied MONETA for the analysis of communication pathways (i) between the main regulatory fragments of receptors tyrosine kinases (RTKs), KIT and CSF-1R, in the native and mutated states and (ii) in proteins STAT5 (STAT5a and STAT5b) in the phosphorylated and the unphosphorylated forms. The description of the physical support for allosteric coupling by MONETA allowed a comparison of the mechanisms of (a) constitutive activation induced by equivalent mutations in two RTKs and (b) allosteric regulation in the activated and non

  7. The 3-D strain patterns in Turkey using geodetic velocity fields from the RTK-CORS (TR) network

    NASA Astrophysics Data System (ADS)

    Kutoglu, Hakan Senol; Toker, Mustafa; Mekik, Cetin

    2016-03-01

    This study presents our use of GPS data to obtain and quantify the full continuous strain tensor using a 3-D velocity field in Turkey. In this study, GPS velocities improve the estimation of short-term strain tensor fields for determining the seismic hazard of Turkey. The tensorial analysis presents different aspects of deformation, such as the normal and shear strains, including their directions, the compressional and extensional strains. This analysis is appropriate for the characterizing the state of the current seismic deformation. GPS velocity data from continuous measurements (2009-2012) to estimate deformations were processed using the GAMIT/GLOBK software. Using high-rate GPS data from permanent 146 GNSS stations (RTK-CORS-TR network), the strain distribution was determined and interpolated using a biharmonic spline technique. We show the strain field patterns within axial and plane form at several critical locations, and discuss these results within the context of the seismic and tectonic deformation of Turkey. We conclude that the knowledge of the crustal strain patterns provides important information on the location of the main faults and strain accumulation for the hazard assessment. The results show an agreement between the seismic and tectonic strains confirming that there are active crustal deformations in Turkey.

  8. A spiking neural network model of 3D perception for event-based neuromorphic stereo vision systems.

    PubMed

    Osswald, Marc; Ieng, Sio-Hoi; Benosman, Ryad; Indiveri, Giacomo

    2017-01-12

    Stereo vision is an important feature that enables machine vision systems to perceive their environment in 3D. While machine vision has spawned a variety of software algorithms to solve the stereo-correspondence problem, their implementation and integration in small, fast, and efficient hardware vision systems remains a difficult challenge. Recent advances made in neuromorphic engineering offer a possible solution to this problem, with the use of a new class of event-based vision sensors and neural processing devices inspired by the organizing principles of the brain. Here we propose a radically novel model that solves the stereo-correspondence problem with a spiking neural network that can be directly implemented with massively parallel, compact, low-latency and low-power neuromorphic engineering devices. We validate the model with experimental results, highlighting features that are in agreement with both computational neuroscience stereo vision theories and experimental findings. We demonstrate its features with a prototype neuromorphic hardware system and provide testable predictions on the role of spike-based representations and temporal dynamics in biological stereo vision processing systems.

  9. Liver Tumor Segmentation from MR Images Using 3D Fast Marching Algorithm and Single Hidden Layer Feedforward Neural Network.

    PubMed

    Le, Trong-Ngoc; Bao, Pham The; Huynh, Hieu Trung

    2016-01-01

    Objective. Our objective is to develop a computerized scheme for liver tumor segmentation in MR images. Materials and Methods. Our proposed scheme consists of four main stages. Firstly, the region of interest (ROI) image which contains the liver tumor region in the T1-weighted MR image series was extracted by using seed points. The noise in this ROI image was reduced and the boundaries were enhanced. A 3D fast marching algorithm was applied to generate the initial labeled regions which are considered as teacher regions. A single hidden layer feedforward neural network (SLFN), which was trained by a noniterative algorithm, was employed to classify the unlabeled voxels. Finally, the postprocessing stage was applied to extract and refine the liver tumor boundaries. The liver tumors determined by our scheme were compared with those manually traced by a radiologist, used as the "ground truth." Results. The study was evaluated on two datasets of 25 tumors from 16 patients. The proposed scheme obtained the mean volumetric overlap error of 27.43% and the mean percentage volume error of 15.73%. The mean of the average surface distance, the root mean square surface distance, and the maximal surface distance were 0.58 mm, 1.20 mm, and 6.29 mm, respectively.

  10. A spiking neural network model of 3D perception for event-based neuromorphic stereo vision systems

    PubMed Central

    Osswald, Marc; Ieng, Sio-Hoi; Benosman, Ryad; Indiveri, Giacomo

    2017-01-01

    Stereo vision is an important feature that enables machine vision systems to perceive their environment in 3D. While machine vision has spawned a variety of software algorithms to solve the stereo-correspondence problem, their implementation and integration in small, fast, and efficient hardware vision systems remains a difficult challenge. Recent advances made in neuromorphic engineering offer a possible solution to this problem, with the use of a new class of event-based vision sensors and neural processing devices inspired by the organizing principles of the brain. Here we propose a radically novel model that solves the stereo-correspondence problem with a spiking neural network that can be directly implemented with massively parallel, compact, low-latency and low-power neuromorphic engineering devices. We validate the model with experimental results, highlighting features that are in agreement with both computational neuroscience stereo vision theories and experimental findings. We demonstrate its features with a prototype neuromorphic hardware system and provide testable predictions on the role of spike-based representations and temporal dynamics in biological stereo vision processing systems. PMID:28079187

  11. A spiking neural network model of 3D perception for event-based neuromorphic stereo vision systems

    NASA Astrophysics Data System (ADS)

    Osswald, Marc; Ieng, Sio-Hoi; Benosman, Ryad; Indiveri, Giacomo

    2017-01-01

    Stereo vision is an important feature that enables machine vision systems to perceive their environment in 3D. While machine vision has spawned a variety of software algorithms to solve the stereo-correspondence problem, their implementation and integration in small, fast, and efficient hardware vision systems remains a difficult challenge. Recent advances made in neuromorphic engineering offer a possible solution to this problem, with the use of a new class of event-based vision sensors and neural processing devices inspired by the organizing principles of the brain. Here we propose a radically novel model that solves the stereo-correspondence problem with a spiking neural network that can be directly implemented with massively parallel, compact, low-latency and low-power neuromorphic engineering devices. We validate the model with experimental results, highlighting features that are in agreement with both computational neuroscience stereo vision theories and experimental findings. We demonstrate its features with a prototype neuromorphic hardware system and provide testable predictions on the role of spike-based representations and temporal dynamics in biological stereo vision processing systems.

  12. Liver Tumor Segmentation from MR Images Using 3D Fast Marching Algorithm and Single Hidden Layer Feedforward Neural Network

    PubMed Central

    2016-01-01

    Objective. Our objective is to develop a computerized scheme for liver tumor segmentation in MR images. Materials and Methods. Our proposed scheme consists of four main stages. Firstly, the region of interest (ROI) image which contains the liver tumor region in the T1-weighted MR image series was extracted by using seed points. The noise in this ROI image was reduced and the boundaries were enhanced. A 3D fast marching algorithm was applied to generate the initial labeled regions which are considered as teacher regions. A single hidden layer feedforward neural network (SLFN), which was trained by a noniterative algorithm, was employed to classify the unlabeled voxels. Finally, the postprocessing stage was applied to extract and refine the liver tumor boundaries. The liver tumors determined by our scheme were compared with those manually traced by a radiologist, used as the “ground truth.” Results. The study was evaluated on two datasets of 25 tumors from 16 patients. The proposed scheme obtained the mean volumetric overlap error of 27.43% and the mean percentage volume error of 15.73%. The mean of the average surface distance, the root mean square surface distance, and the maximal surface distance were 0.58 mm, 1.20 mm, and 6.29 mm, respectively. PMID:27597960

  13. Flexible, solid-state, ion-conducting membrane with 3D garnet nanofiber networks for lithium batteries.

    PubMed

    Fu, Kun Kelvin; Gong, Yunhui; Dai, Jiaqi; Gong, Amy; Han, Xiaogang; Yao, Yonggang; Wang, Chengwei; Wang, Yibo; Chen, Yanan; Yan, Chaoyi; Li, Yiju; Wachsman, Eric D; Hu, Liangbing

    2016-06-28

    Beyond state-of-the-art lithium-ion battery (LIB) technology with metallic lithium anodes to replace conventional ion intercalation anode materials is highly desirable because of lithium's highest specific capacity (3,860 mA/g) and lowest negative electrochemical potential (∼3.040 V vs. the standard hydrogen electrode). In this work, we report for the first time, to our knowledge, a 3D lithium-ion-conducting ceramic network based on garnet-type Li6.4La3Zr2Al0.2O12 (LLZO) lithium-ion conductor to provide continuous Li(+) transfer channels in a polyethylene oxide (PEO)-based composite. This composite structure further provides structural reinforcement to enhance the mechanical properties of the polymer matrix. The flexible solid-state electrolyte composite membrane exhibited an ionic conductivity of 2.5 × 10(-4) S/cm at room temperature. The membrane can effectively block dendrites in a symmetric Li | electrolyte | Li cell during repeated lithium stripping/plating at room temperature, with a current density of 0.2 mA/cm(2) for around 500 h and a current density of 0.5 mA/cm(2) for over 300 h. These results provide an all solid ion-conducting membrane that can be applied to flexible LIBs and other electrochemical energy storage systems, such as lithium-sulfur batteries.

  14. Flexible, solid-state, ion-conducting membrane with 3D garnet nanofiber networks for lithium batteries

    NASA Astrophysics Data System (ADS)

    Kun, Kelvin; Gong, Yunhui; Dai, Jiaqi; Gong, Amy; Han, Xiaogang; Yao, Yonggang; Wang, Chengwei; Wang, Yibo; Chen, Yanan; Yan, Chaoyi; Li, Yiju; Wachsman, Eric D.; Hu, Liangbing

    2016-06-01

    Beyond state-of-the-art lithium-ion battery (LIB) technology with metallic lithium anodes to replace conventional ion intercalation anode materials is highly desirable because of lithium's highest specific capacity (3,860 mA/g) and lowest negative electrochemical potential (˜3.040 V vs. the standard hydrogen electrode). In this work, we report for the first time, to our knowledge, a 3D lithium-ion-conducting ceramic network based on garnet-type Li6.4La3Zr2Al0.2O12 (LLZO) lithium-ion conductor to provide continuous Li+ transfer channels in a polyethylene oxide (PEO)-based composite. This composite structure further provides structural reinforcement to enhance the mechanical properties of the polymer matrix. The flexible solid-state electrolyte composite membrane exhibited an ionic conductivity of 2.5 × 10-4 S/cm at room temperature. The membrane can effectively block dendrites in a symmetric Li | electrolyte | Li cell during repeated lithium stripping/plating at room temperature, with a current density of 0.2 mA/cm2 for around 500 h and a current density of 0.5 mA/cm2 for over 300 h. These results provide an all solid ion-conducting membrane that can be applied to flexible LIBs and other electrochemical energy storage systems, such as lithium-sulfur batteries.

  15. Flexible, solid-state, ion-conducting membrane with 3D garnet nanofiber networks for lithium batteries

    PubMed Central

    Fu, Kun (Kelvin); Gong, Yunhui; Dai, Jiaqi; Gong, Amy; Han, Xiaogang; Yao, Yonggang; Wang, Chengwei; Wang, Yibo; Chen, Yanan; Yan, Chaoyi; Li, Yiju; Wachsman, Eric D.; Hu, Liangbing

    2016-01-01

    Beyond state-of-the-art lithium-ion battery (LIB) technology with metallic lithium anodes to replace conventional ion intercalation anode materials is highly desirable because of lithium’s highest specific capacity (3,860 mA/g) and lowest negative electrochemical potential (∼3.040 V vs. the standard hydrogen electrode). In this work, we report for the first time, to our knowledge, a 3D lithium-ion–conducting ceramic network based on garnet-type Li6.4La3Zr2Al0.2O12 (LLZO) lithium-ion conductor to provide continuous Li+ transfer channels in a polyethylene oxide (PEO)-based composite. This composite structure further provides structural reinforcement to enhance the mechanical properties of the polymer matrix. The flexible solid-state electrolyte composite membrane exhibited an ionic conductivity of 2.5 × 10−4 S/cm at room temperature. The membrane can effectively block dendrites in a symmetric Li | electrolyte | Li cell during repeated lithium stripping/plating at room temperature, with a current density of 0.2 mA/cm2 for around 500 h and a current density of 0.5 mA/cm2 for over 300 h. These results provide an all solid ion-conducting membrane that can be applied to flexible LIBs and other electrochemical energy storage systems, such as lithium–sulfur batteries. PMID:27307440

  16. A series of rare earth complexes with novel non-interpenetrating 3D networks: synthesis, structures, magnetic and optical properties.

    PubMed

    Wei, Xiao-Hua; Yang, Lin-Yan; Liao, Sheng-Yun; Zhang, Ming; Tian, Jin-Lei; Du, Pei-Yao; Gu, Wen; Liu, Xin

    2014-04-21

    A series of metal-organic framework {Ln(BCPBA)(H2O)}n {Ln = Nd (1), Sm (2), Eu (3), Tb (4), Dy (5)}; {[Ln(BCPBA)(H2O)](H2O)}n {Ln = Pr (6), Gd (7)} have been synthesized through the hydrothermal synthesis method. These compounds possess non-interpenetrating 3D networks with 10.1438 Å× 17.9149 Å rhombic channels along the [001] direction. The results of temperature-dependent magnetic susceptibility measurements indicate that compounds 4 and 7 exhibit Ln(III)Ln(III) antiferromagnetic interactions, while compound 5 exhibits Ln(III)Ln(III) ferromagnetic interactions. Frequency dependent out-of-phase signals were observed in alternating current (ac) magnetic susceptibility measurements which indicate that they have slow magnetic relaxation characteristics. The luminescent properties of 1, 2, 3, 4, and 5 are also discussed. Due to the good match between the lowest triplet state of the ligand and the resonant energy level of the lanthanide ion, compound 4 has longer fluorescence lifetime (τ1 = 400.0000 ms, τ2 = 1143.469 ms) and higher quantum yield (Φ = 42%) compared with other compounds.

  17. Cataloguing Seismic Waveform Properties Recorded With a 3D Network in a Gold Mine in South Africa

    NASA Astrophysics Data System (ADS)

    Julia, J.; Nyblade, A. A.; Gok, R.; Walter, W. R.; Linzer, L.; Durrheim, R. J.; Dirks, P.

    2007-12-01

    The SAVUKA gold mine is located in the northwestern edge of the Witwatersrand basin, a Late Archean (3.07- 2.71~Ga) intracratonic basin in South Africa that hosts the largest known gold-uranium-pyrite ore deposits in the world. Seismic events related to the mine activity span several orders of magnitude through a variety of sources that include mine blasts, pillar collapses, and faulting events. These events are systematically recorded and catalogued through an in-mine, 3D seismic network consisting of 20, three-component, short-period stations with natural frequencies ranging between 4.5 and 28.0~Hz and deployed as deep as ~3.5 km. After 5 months of seismic monitoring of the mine, we have been able to assemble a database of over 6000 events spanning magnitudes in the -2.5 < ML < 4.4 range. The potential of this unique data set for characterizing the detailed seismic properties of the basin and studying source properties of non-double couple events is explored through simple, first-pass analysis on the recorded waveforms. Moreover, the in-mine network is complemented by a small array of 4 broadband stations interspaced ~10~km apart on the surface of the mine, and by a number of AfricaArray stations in South Africa and neighboring countries located at regional distances (50- 1000~km) from the mine. The largest mine-induced events are clearly recorded at distances as far away from the mine as 450~km and provide a unique opportunity for studying the regional propagation of seismic phases as well as the structure of the cratonic crust underlying the basin.

  18. Evaluation and localization of an artificial drainage network by 3D time-lapse electrical resistivity tomography.

    PubMed

    Jouen, T; Clément, R; Henine, H; Chaumont, C; Vincent, B; Tournebize, J

    2016-08-26

    In France, 10 % of total arable land is equipped with subsurface drainage systems, to control winter and spring waterlogging due to a temporary perched water table. Most of these systems were installed in the1980s and have aged since then and may now need maintenance. Sometimes, the location of the systems is known, but the standard situation in France is that the original as-built master sketches are no longer available. Performance assessment of drainage systems and curative actions are complicated since drain location is unknown. In this article, the authors test the application of a non-destructive drain detection method which consists in water injection at the outfall of the drainage network combined with time-lapse electrical resistivity tomography (ERT) monitoring. To assess the performance of this methodology, which consists in measuring electrical resistivity from electrodes placed at the nodes of a 1.2-m regular mesh, the authors interpreted the signal using a two-step approach. The first step is based on 3D ERT numerical modelling during a scenario of surface infiltration processes (forward modelling followed by geophysical inversion); this step optimizes the ERT method for locating the infiltration at depths below 1 m. The second step is the validation of the results obtained by numerical modelling with an experimental data set, using water injection into the drainage network combined with time-lapse ERT monitoring on an experimental field site. The results showed the relevance of time-lapse ERT monitoring on a small agricultural plot for locating the drainage network. The numerical results also showed several limitations of the combined methodology: (i) it is necessary to use an electrode spacing unit less than 1.20 m, which does not facilitate investigation on large agriculture plots, (ii) measurements must be taken when resistivity contrast is the strongest between the infiltration area and the soil and (iii) the volume of water needed for

  19. Neural network system for 3-D object recognition and pose estimation from a single arbitrary 2-D view

    NASA Astrophysics Data System (ADS)

    Khotanzad, Alireza R.; Liou, James H.

    1992-09-01

    In this paper, a robust, and fast system for recognition as well as pose estimation of a 3-D object from a single 2-D perspective of it taken from an arbitrary viewpoint is developed. The approach is invariant to location, orientation, and scale of the object in the perspective. The silhouette of the object in the 2-D perspective is first normalized with respect to location and scale. A set of rotation invariant features derived from complex and orthogonal pseudo- Zernike moments of the image are then extracted. The next stage includes a bank of multilayer feed-forward neural networks (NN) each of which classifies the extracted features. The training set for these nets consists of perspective views of each object taken from several different viewing angles. The NNs in the bank differ in the size of their hidden layer nodes as well as their initial conditions but receive the same input. The classification decisions of all the nets are combined through a majority voting scheme. It is shown that this collective decision making yields better results compared to a single NN operating alone. After the object is classified, two of its pose parameters, namely elevation and aspect angles, are estimated by another module of NNs in a two-stage process. The first stage identifies the likely region of the space that the object is being viewed from. In the second stage, an NN estimator for the identified region is used to compute the pose angles. Extensive experimental studies involving clean and noisy images of seven military ground vehicles are carried out. The performance is compared to two other traditional methods, namely a nearest neighbor rule and a binary decision tree classifier and it is shown that our approach has major advantages over them.

  20. Preliminary 3d depth migration of a network of 2d seismic lines for fault imaging at a Pyramid Lake, Nevada geothermal prospect

    SciTech Connect

    Frary, R.; Louie, J.; Pullammanappallil, S.; Eisses, A.

    2016-08-01

    Roxanna Frary, John N. Louie, Sathish Pullammanappallil, Amy Eisses, 2011, Preliminary 3d depth migration of a network of 2d seismic lines for fault imaging at a Pyramid Lake, Nevada geothermal prospect: presented at American Geophysical Union Fall Meeting, San Francisco, Dec. 5-9, abstract T13G-07.

  1. 45S5-Bioglass(®)-based 3D-scaffolds seeded with human adipose tissue-derived stem cells induce in vivo vascularization in the CAM angiogenesis assay.

    PubMed

    Handel, Marina; Hammer, Timo R; Nooeaid, Patcharakamon; Boccaccini, Aldo R; Hoefer, Dirk

    2013-12-01

    Poor vascularization is the key limitation for long-term acceptance of large three-dimensional (3D) tissue engineering constructs in regenerative medicine. 45S5 Bioglass(®) was investigated given its potential for applications in bone engineering. Since native Bioglass(®) shows insufficient angiogenic properties, we used a collagen coating, to seed human adipose tissue-derived stem cells (hASC) confluently onto 3D 45S5 Bioglass(®)-based scaffolds. To investigate vascularization by semiquantitative analyses, these biofunctionalized scaffolds were then subjected to in vitro human umbilical vein endothelial cells formation assays, and were also investigated in the chorioallantoic membrane (CAM) angiogenesis model, an in vivo angiogenesis assay, which uses the CAM of the hen's egg. In their native, nonbiofunctionalized state, neither Bioglass(®)-based nor biologically inert fibrous polypropylene control scaffolds showed angiogenic properties. However, significant vascularization was induced by hASC-seeded scaffolds (Bioglass(®) and polypropylene) in the CAM angiogenesis assay. Biofunctionalized scaffolds also showed enhanced tube lengths, compared to unmodified scaffolds or constructs seeded with fibroblasts. In case of biologically inert hernia meshes, the quantification of vascular endothelial growth factor secretion as the key angiogenic stimulus strongly correlated to the tube lengths and vessel numbers in all models. This correlation proved the CAM angiogenesis assay to be a suitable semiquantitative tool to characterize angiogenic effects of larger 3D implants. In addition, our results suggest that combinations of suitable scaffold materials, such as 45S5 Bioglass(®), with hASC could be a promising approach for future tissue engineering applications.

  2. Cues for cellular assembly of vascular elastin networks

    NASA Astrophysics Data System (ADS)

    Kothapalli, Chandrasekhar R.

    LOX protein synthesis (2.5-fold); these cues also enhanced deposition of mature elastic fibers (˜1 mum diameter) within these cultures. Interestingly, instead of copper salt addition, even release of Cu 2+ ions (˜0.1 M) from copper nanoparticles (400 ng/mL), concurrent with HA oligomers, promoted crosslinking of elastin into mature matrix, with multiple bundles of highly-crosslinked elastin fiber formation observed (diameter ˜200-500 nm). These results strongly attest to the potential individual and combined benefits of these cues to faithful elastin matrix regeneration by healthy, patient-derived cells within tissue-engineered vascular constructs. When these cues (TGF-beta1 and HA oligomers) were added to TNF-alpha-stimulated SMC cultures, model cell culture systems mimicking phenotypically-altered cells within aneurysms, they upregulated elastin matrix production, organized elastin protein into fibers, and simultaneously stabilized this matrix by attenuating production of elastolytic enzymes. Similarly these cues also attenuated inflammatory cytokines release within cells isolated from induced-aortic aneurysms in rats, and significantly upregulated elastin synthesis and matrix formation by upregulating LOX and desmosine protein amounts. The cues were also highly effective in organizing the elastin into fibrous matrix structures mimicking the native elastin deposition process. The outcomes of this study might be of tremendous use in optimizing design of HA constructs to modulate vascular healing and matrix synthesis following revascularization, and in enabling repair of elastin networks within diseased or inflammatory (aneurysmal) adult vascular tissues.

  3. Do Vascular Networks Branch Optimally or Randomly across Spatial Scales?

    PubMed Central

    Newberry, Mitchell G.; Savage, Van M.

    2016-01-01

    Modern models that derive allometric relationships between metabolic rate and body mass are based on the architectural design of the cardiovascular system and presume sibling vessels are symmetric in terms of radius, length, flow rate, and pressure. Here, we study the cardiovascular structure of the human head and torso and of a mouse lung based on three-dimensional images processed via our software Angicart. In contrast to modern allometric theories, we find systematic patterns of asymmetry in vascular branching, potentially explaining previously documented mismatches between predictions (power-law or concave curvature) and observed empirical data (convex curvature) for the allometric scaling of metabolic rate. To examine why these systematic asymmetries in vascular branching might arise, we construct a mathematical framework to derive predictions based on local, junction-level optimality principles that have been proposed to be favored in the course of natural selection and development. The two most commonly used principles are material-cost optimizations (construction materials or blood volume) and optimization of efficient flow via minimization of power loss. We show that material-cost optimization solutions match with distributions for asymmetric branching across the whole network but do not match well for individual junctions. Consequently, we also explore random branching that is constrained at scales that range from local (junction-level) to global (whole network). We find that material-cost optimizations are the strongest predictor of vascular branching in the human head and torso, whereas locally or intermediately constrained random branching is comparable to material-cost optimizations for the mouse lung. These differences could be attributable to developmentally-programmed local branching for larger vessels and constrained random branching for smaller vessels. PMID:27902691

  4. Electrical Treeing Induced Vascular Networks for Fluid Transport

    NASA Astrophysics Data System (ADS)

    Behler, Kristopher; Wetzel, Eric

    2010-03-01

    Electrical treeing (ET) is a stepwise dielectric breakdown process in which partial discharges in a dielectric material generate a branched hollow network of tubules between the electrode and the ground. Overtime, exposure of dielectric materials to global electric fields which are lower than the dielectric strength results in electrical trees (ETs). This dielectric breakdown is exploited to induce a controlled growth of ETs in epoxies to demonstrate a fabrication technique of synthetic vascular systems in engineering materials. Both AC, ±20 kV at 100 Hz sine wave, and DC, up to -60 kV, voltages were used to grow ET in planar and volumetric systems. AC treeing induces a more bush-like highly branched structure, whereas DC treeing results in a more tree-like structure possessing mostly low ordered branches. In addition to voltage, the geometric arrangement of the electrode and ground, and the use of electrode surface treatments with multi-walled carbon nanotubes (MWCNTs) were investigated. Applications for vascular networks were demonstrated by filling the ETs with dyed liquids.

  5. Significant enhancement of power conversion efficiency for dye sensitized solar cell using 1D/3D network nanostructures as photoanodes

    PubMed Central

    Wang, Hao; Wang, Baoyuan; Yu, Jichao; Hu, Yunxia; Xia, Chen; Zhang, Jun; Liu, Rong

    2015-01-01

    The single–crystalline TiO2 nanorod arrays with rutile phase have attracted much attention in the dye sensitized solar cells (DSSCs) applications because of their superior chemical stability, better electron transport properties, higher refractive index and low production cost. However, it suffers from a low surface area as compared with TiO2 nanoparticle films. In order to enlarge the surface area of TiO2 nanorod arrays, the 1D nanorods/3D nanotubes sample was synthesized using a facile two-step hydrothermal process involving hydrothermal growth 1D/3D nanorods and followed by post-etching treatment. In such bi-layer structure, the oriented TiO2 nanorods layer could provide direct pathway for fast electron transportation, and the 3D nanotubes layer offers a higher surface area for dye loading, therefore, the 1D nanorods/3D nanotubes photoanode exhibited faster electron transport and higher surface area than either 1D or 3D nanostructures alone, and an highest efficiency of 7.68% was achieved for the DSSCs based on 1D nanorods/3D nanotubes photoanode with further TiCl4 treatment. PMID:25800933

  6. Sequential assembly of 3D perfusable microfluidic hydrogels.

    PubMed

    He, Jiankang; Zhu, Lin; Liu, Yaxiong; Li, Dichen; Jin, Zhongmin

    2014-11-01

    Bottom-up tissue engineering provides a promising way to recreate complex structural organizations of native organs in artificial constructs by assembling functional repeating modules. However, it is challenging for current bottom-up strategies to simultaneously produce a controllable and immediately perfusable microfluidic network in modularly assembled 3D constructs. Here we presented a bottom-up strategy to produce perfusable microchannels in 3D hydrogels by sequentially assembling microfluidic modules. The effects of agarose-collagen composition on microchannel replication and 3D assembly of hydrogel modules were investigated. The unique property of predefined microchannels in transporting fluids within 3D assemblies was evaluated. Endothelial cells were incorporated into the microfluidic network of 3D hydrogels for dynamic culture in a house-made bioreactor system. The results indicated that the sequential assembly method could produce interconnected 3D predefined microfluidic networks in optimized agarose-collagen hydrogels, which were fully perfusable and successfully functioned as fluid pathways to facilitate the spreading of endothelial cells. We envision that the presented method could be potentially used to engineer 3D vascularized parenchymal constructs by encapsulating primary cells in bulk hydrogels and incorporating endothelial cells in predefined microchannels.

  7. Mechanical Stress Induces Remodeling of Vascular Networks in Growing Leaves.

    PubMed

    Bar-Sinai, Yohai; Julien, Jean-Daniel; Sharon, Eran; Armon, Shahaf; Nakayama, Naomi; Adda-Bedia, Mokhtar; Boudaoud, Arezki

    2016-04-01

    Differentiation into well-defined patterns and tissue growth are recognized as key processes in organismal development. However, it is unclear whether patterns are passively, homogeneously dilated by growth or whether they remodel during tissue expansion. Leaf vascular networks are well-fitted to investigate this issue, since leaves are approximately two-dimensional and grow manyfold in size. Here we study experimentally and computationally how vein patterns affect growth. We first model the growing vasculature as a network of viscoelastic rods and consider its response to external mechanical stress. We use the so-called texture tensor to quantify the local network geometry and reveal that growth is heterogeneous, resembling non-affine deformations in composite materials. We then apply mechanical forces to growing leaves after veins have differentiated, which respond by anisotropic growth and reorientation of the network in the direction of external stress. External mechanical stress appears to make growth more homogeneous, in contrast with the model with viscoelastic rods. However, we reconcile the model with experimental data by incorporating randomness in rod thickness and a threshold in the rod growth law, making the rods viscoelastoplastic. Altogether, we show that the higher stiffness of veins leads to their reorientation along external forces, along with a reduction in growth heterogeneity. This process may lead to the reinforcement of leaves against mechanical stress. More generally, our work contributes to a framework whereby growth and patterns are coordinated through the differences in mechanical properties between cell types.

  8. Mechanical Stress Induces Remodeling of Vascular Networks in Growing Leaves

    PubMed Central

    Bar-Sinai, Yohai; Julien, Jean-Daniel; Sharon, Eran; Armon, Shahaf; Nakayama, Naomi; Adda-Bedia, Mokhtar; Boudaoud, Arezki

    2016-01-01

    Differentiation into well-defined patterns and tissue growth are recognized as key processes in organismal development. However, it is unclear whether patterns are passively, homogeneously dilated by growth or whether they remodel during tissue expansion. Leaf vascular networks are well-fitted to investigate this issue, since leaves are approximately two-dimensional and grow manyfold in size. Here we study experimentally and computationally how vein patterns affect growth. We first model the growing vasculature as a network of viscoelastic rods and consider its response to external mechanical stress. We use the so-called texture tensor to quantify the local network geometry and reveal that growth is heterogeneous, resembling non-affine deformations in composite materials. We then apply mechanical forces to growing leaves after veins have differentiated, which respond by anisotropic growth and reorientation of the network in the direction of external stress. External mechanical stress appears to make growth more homogeneous, in contrast with the model with viscoelastic rods. However, we reconcile the model with experimental data by incorporating randomness in rod thickness and a threshold in the rod growth law, making the rods viscoelastoplastic. Altogether, we show that the higher stiffness of veins leads to their reorientation along external forces, along with a reduction in growth heterogeneity. This process may lead to the reinforcement of leaves against mechanical stress. More generally, our work contributes to a framework whereby growth and patterns are coordinated through the differences in mechanical properties between cell types. PMID:27074136

  9. Modeling and Analysis of Granite Matrix Pore Structure and Hydraulic Characteristics in 2D and 3D Networks

    NASA Astrophysics Data System (ADS)

    Gvozdik, L.; Polak, M.; Zaruba, J.; Vanecek, M.

    2010-12-01

    A geological environment labeled as a Granite massif represents in terms of groundwater flow and transport a distinct hydrogeological environment from that of sedimentary basins, the characterisation of which is generally more complex and uncertain. Massifs are composed of hard crystalline rocks with the very low effective porosity. Due to their rheological properties such rocks are predisposed to brittle deformation resulting from changes in stress conditions. Our specific research project (Research on the influence of intergrangular porosity on deep geological disposal: geological formations, methodology and the development of measurement apparatus) is focussed on the problem of permeable zones within apparently undisturbed granitic rock matrix. The project including the both laboratory and in-situ tracer tests study migration along and through mineral grains in fresh and altered granite. The objective of the project is to assess whether intergranular porosity is a general characteristic of the granitic rock matrix or subject to significant evolution resulting from geochemical and/or hydrogeochemical processes, geotechnical and/or mechanical processes. Moreover, the research is focussed on evaluating methods quantifying intergranular porosity by both physical testing and mathematical modelling using verified standard hydrological software tools. Groundwater flow in microfractures and intergranular pores in granite rock matrix were simulated in three standard hydrogeological modeling programs with completely different conceptual approaches: MODFLOW (Equivalent Continuum concept), FEFLOW (Discrete Fracture and Equivalent Continuum concepts) and NAPSAC (Discrete Fracture Network concept). Specialized random fracture generators were used for creation of several 2D and 3D models in each of the chosen program. Percolation characteristics of these models were tested and analyzed. Several scenarios of laboratory tests of the rock samples permeability made in triaxial

  10. Vascular Dynamics Aid a Coupled Neurovascular Network Learn Sparse Independent Features: A Computational Model

    PubMed Central

    Philips, Ryan T.; Chhabria, Karishma; Chakravarthy, V. Srinivasa

    2016-01-01

    Cerebral vascular dynamics are generally thought to be controlled by neural activity in a unidirectional fashion. However, both computational modeling and experimental evidence point to the feedback effects of vascular dynamics on neural activity. Vascular feedback in the form of glucose and oxygen controls neuronal ATP, either directly or via the agency of astrocytes, which in turn modulates neural firing. Recently, a detailed model of the neuron-astrocyte-vessel system has shown how vasomotion can modulate neural firing. Similarly, arguing from known cerebrovascular physiology, an approach known as “hemoneural hypothesis” postulates functional modulation of neural activity by vascular feedback. To instantiate this perspective, we present a computational model in which a network of “vascular units” supplies energy to a neural network. The complex dynamics of the vascular network, modeled by a network of oscillators, turns neurons ON and OFF randomly. The informational consequence of such dynamics is explored in the context of an auto-encoder network. In the proposed model, each vascular unit supplies energy to a subset of hidden neurons of an autoencoder network, which constitutes its “projective field.” Neurons that receive adequate energy in a given trial have reduced threshold, and thus are prone to fire. Dynamics of the vascular network are governed by changes in the reconstruction error of the auto-encoder network, interpreted as the neuronal demand. Vascular feedback causes random inactivation of a subset of hidden neurons in every trial. We observe that, under conditions of desynchronized vascular dynamics, the output reconstruction error is low and the feature vectors learnt are sparse and independent. Our earlier modeling study highlighted the link between desynchronized vascular dynamics and efficient energy delivery in skeletal muscle. We now show that desynchronized vascular dynamics leads to efficient training in an auto-encoder neural

  11. Vascular Dynamics Aid a Coupled Neurovascular Network Learn Sparse Independent Features: A Computational Model.

    PubMed

    Philips, Ryan T; Chhabria, Karishma; Chakravarthy, V Srinivasa

    2016-01-01

    Cerebral vascular dynamics are generally thought to be controlled by neural activity in a unidirectional fashion. However, both computational modeling and experimental evidence point to the feedback effects of vascular dynamics on neural activity. Vascular feedback in the form of glucose and oxygen controls neuronal ATP, either directly or via the agency of astrocytes, which in turn modulates neural firing. Recently, a detailed model of the neuron-astrocyte-vessel system has shown how vasomotion can modulate neural firing. Similarly, arguing from known cerebrovascular physiology, an approach known as "hemoneural hypothesis" postulates functional modulation of neural activity by vascular feedback. To instantiate this perspective, we present a computational model in which a network of "vascular units" supplies energy to a neural network. The complex dynamics of the vascular network, modeled by a network of oscillators, turns neurons ON and OFF randomly. The informational consequence of such dynamics is explored in the context of an auto-encoder network. In the proposed model, each vascular unit supplies energy to a subset of hidden neurons of an autoencoder network, which constitutes its "projective field." Neurons that receive adequate energy in a given trial have reduced threshold, and thus are prone to fire. Dynamics of the vascular network are governed by changes in the reconstruction error of the auto-encoder network, interpreted as the neuronal demand. Vascular feedback causes random inactivation of a subset of hidden neurons in every trial. We observe that, under conditions of desynchronized vascular dynamics, the output reconstruction error is low and the feature vectors learnt are sparse and independent. Our earlier modeling study highlighted the link between desynchronized vascular dynamics and efficient energy delivery in skeletal muscle. We now show that desynchronized vascular dynamics leads to efficient training in an auto-encoder neural network.

  12. Multiquadric Spline-Based Interactive Segmentation of Vascular Networks

    PubMed Central

    Meena, Sachin; Surya Prasath, V. B.; Kassim, Yasmin M.; Maude, Richard J.; Glinskii, Olga V.; Glinsky, Vladislav V.; Huxley, Virginia H.; Palaniappan, Kannappan

    2016-01-01

    Commonly used drawing tools for interactive image segmentation and labeling include active contours or boundaries, scribbles, rectangles and other shapes. Thin vessel shapes in images of vascular networks are difficult to segment using automatic or interactive methods. This paper introduces the novel use of a sparse set of user-defined seed points (supervised labels) for precisely, quickly and robustly segmenting complex biomedical images. A multiquadric spline-based binary classifier is proposed as a unique approach for interactive segmentation using as features color values and the location of seed points. Epifluorescence imagery of the dura mater microvasculature are difficult to segment for quantitative applications due to challenging tissue preparation, imaging conditions, and thin, faint structures. Experimental results based on twenty epifluorescence images is used to illustrate the benefits of using a set of seed points to obtain fast and accurate interactive segmentation compared to four interactive and automatic segmentation approaches. PMID:28227856

  13. Multiquadric Spline-Based Interactive Segmentation of Vascular Networks.

    PubMed

    Meena, Sachin; Surya Prasath, V B; Kassim, Yasmin M; Maude, Richard J; Glinskii, Olga V; Glinsky, Vladislav V; Huxley, Virginia H; Palaniappan, Kannappan

    2016-08-01

    Commonly used drawing tools for interactive image segmentation and labeling include active contours or boundaries, scribbles, rectangles and other shapes. Thin vessel shapes in images of vascular networks are difficult to segment using automatic or interactive methods. This paper introduces the novel use of a sparse set of user-defined seed points (supervised labels) for precisely, quickly and robustly segmenting complex biomedical images. A multiquadric spline-based binary classifier is proposed as a unique approach for interactive segmentation using as features color values and the location of seed points. Epifluorescence imagery of the dura mater microvasculature are difficult to segment for quantitative applications due to challenging tissue preparation, imaging conditions, and thin, faint structures. Experimental results based on twenty epifluorescence images is used to illustrate the benefits of using a set of seed points to obtain fast and accurate interactive segmentation compared to four interactive and automatic segmentation approaches.

  14. Clean Synthesis of an Economical 3D Nanochain Network of PdCu Alloy with Enhanced Electrocatalytic Performance towards Ethanol Oxidation.

    PubMed

    Liu, Jiawei; Huang, Zhao; Cai, Kai; Zhang, Huan; Lu, Zhicheng; Li, Tingting; Zuo, Yunpeng; Han, Heyou

    2015-12-01

    A one-pot method for the fast synthesis of a 3D nanochain network (NNC) of PdCu alloy without any surfactants is described. The composition of the as-prepared PdCu alloy catalysts can be precisely controlled by changing the precursor ratio of Pd to Cu. First, the Cu content changes the electronic structure of Pd in the 3D NNC of PdCu alloy. Second, the 3D network structure offers large open pores, high surface areas, and self-supported properties. Third, the surfactant-free strategy results in a relatively clean surface. These factors all contribute to better electrocatalytic activity and durability towards ethanol oxidation. Moreover, the use of copper in the alloy lowers the price of the catalyst by replacing the noble metal palladium with non-noble metal copper. The composition-optimized Pd80 Cu20 alloy in the 3D NNC catalyst shows an increased electrochemically active surface area (80.95 m(2)  g(-1) ) and a 3.62-fold enhancement of mass activity (6.16 A mg(-1) ) over a commercial Pd/C catalyst.

  15. A Distributed Fiber Optic Sensor Network for Online 3-D Temperature and Neutron Fluence Mapping in a VHTR Environment

    SciTech Connect

    Tsvetkov, Pavel; Dickerson, Bryan; French, Joseph; McEachern, Donald; Ougouag, Abderrafi

    2014-04-30

    Robust sensing technologies allowing for 3D in-core performance monitoring in real time are of paramount importance for already established LWRs to enhance their reliability and availability per year, and therefore, to further facilitate their economic competitiveness via predictive assessment of the in-core conditions.

  16. Hydrogel based on interpenetrating polymer networks of dextran and gelatin for vascular tissue engineering.

    PubMed

    Liu, Yunxiao; Chan-Park, Mary B

    2009-01-01

    Hydrogel networks are highly desirable as three-dimensional (3-D) tissue engineering scaffolds for cell encapsulation due to the high water content and ability to mimick the native extracellular matrix. However, their application is limited by their nanometer-scale mesh size, which restricts the spreading and proliferation of encapsulated cells, and their poor mechanical properties. This study seeks to address both limitations through application of a novel cell-encapsulating hydrogel family based on the interpenetrating polymer network (IPN) of gelatin and dextran bifunctionalized with methacrylate (MA) and aldehyde (AD) (Dex-MA-AD). The chemical structure of the synthesized Dex-MA-AD was verified by (1)H-NMR and the degrees of substitution of MA and AD were found to be 14 and 13.9+/-1.3 respectively. The water contents in all these hydrogels were approximately 80%. Addition of 40 mg/ml to 60 mg/ml gelatin to neat Dex-MA-AD increased the compressive modulus from 15.4+/-3.0 kPa to around 51.9+/-0.1 kPa (about 3.4-fold). Further, our IPN hydrogels have higher dynamic storage moduli (i.e. on the order of 10(4)Pa) than polyethylene glycol-based hydrogels (around 10(2)-10(3)Pa) commonly used for smooth muscle cells (SMCs) encapsulation. Our dextran-based IPN hydrogels not only supported endothelial cells (ECs) adhesion and spreading on the surface, but also allowed encapsulated SMCs to proliferate and spread in the bulk interior of the hydrogel. These IPN hydrogels appear promising as 3-D scaffolds for vascular tissue engineering.

  17. Preparation of 3D network Na2Ti2O4(OH)2 nanotube film and study on formation mechanism of nanotubes and light absorption properties.

    PubMed

    Miao, Hui; Hu, Xiaoyun; Shang, Yibo; Zhang, Dekai; Ji, Ruonan; Liu, Enzhou; Zhang, Qian; Wang, Yue; Fan, Jun

    2012-10-01

    The 3D network Na2Ti2O4(OH)2 nanotube film was prepared by combining interface chemical reaction with hydrothermal reaction. It can be readily indexed based on an orthorhombic system Na2Ti2O4(OH)2 (JCPDS, 47-0124), corresponding with (200), (110), (600), and (020). The nanotubes are commonly multiwalled with a diameter about 40 nm, and a length more than 2000 nm. The interlamellar space of the nanotubes is about 0.9 nm, and these nanotubes loaded with silver exhibit a strong UV-Vis-NIR absorption from 200 nm to 1000 nm, with a resonance-absorption peak at 490 nm. In addition, the formation mechanism of 3D network Na2Ti2O4(OH)2 nanotube film was investigated, the formation mechanism can be expressed as follows: Ti --> TiCl3 --> TiO2(anatase) --> Na2Ti2O4(OH)2(nanotube).

  18. Molecular tectonics: control of pore size and polarity in 3-D hexagonal coordination networks based on porphyrins and a zinc cation.

    PubMed

    Kühn, Elisabeth; Bulach, Véronique; Hosseini, Mir Wais

    2008-11-07

    In the crystalline phase, porphyrin derivatives based on two 4-pyridyl units at the 5 and 15 meso positions and two 4-aryl moieties bearing various groups (CN, OMe, OH and CF(3)) at the 10 and 20 meso positions lead, in the presence of a zinc dication, to the formation of robust 3-D networks presenting hexagonal channels: both the size and the polarity of the pores were tuned by the nature of the substituents attached to the two aryl groups.

  19. Ultraviolet and Visible Photochemistry of Methanol at 3D Mesoporous Networks: TiO2 and Au-TiO2

    DTIC Science & Technology

    2013-05-23

    Y. Titania Aerogels as a Superior Mesoporous Structure for Photoanodes of Dye-Sensitized Solar Cells . Int. J. Electrochem. Sci. 2012, 7, 6910−6919...methanol photochemistry at three-dimensionally (3D) networked aerogels of TiO2 or Au– TiO2 reveals that incorporated Au nanoparticles strongly sensitize...the oxide nanoarchitecture to visible light. Methanol dissociatively adsorbs at the surfaces of TiO2 and Au– TiO2 aerogels under dark, high-vacuum

  20. Construction of a 3D porous network of copper film via a template-free deposition method with superior mechanical and electrical properties for micro-energy devices

    NASA Astrophysics Data System (ADS)

    Peng, Yuncheng; Wang, Yao; Deng, Yuan

    2016-08-01

    With the ever increasing level of performance of energy conversion micro-devices, such as thin-film solar cells and thermoelectric micro-generators or coolers, their reliability and stability still remain a challenge. The high electrical and mechanical stability of an electrode is two of the critical factors that affect the long-term life of devices. Here we show that these factors can be achieved by constructing a 3D porous network of nanostructures in copper film using facile magnetron sputtering technology without any templates. The constructed 3D porous network of nanostructures in Cu film provides not only the advantages of light weight, prominently high conductivity, and large elastic deformation, but also the ability to absorb stress, preventing crack propagation, which is crucial for electrodes to maintain stable electrical and mechanical properties under working conditions. The nanopores inside the 3D network are capable of unrestrained deformation under applied stress resulting in strong elastic recovery. This work puts forward a feasible solution for manufacturing electrodes with excellent electrical and mechanical properties for micro-energy devices.

  1. Characterization and preparation of bio-tubular scaffolds for fabricating artificial vascular grafts by combining electrospinning and a 3D printing system.

    PubMed

    Lee, Sang Jin; Heo, Dong Nyoung; Park, Ji Sun; Kwon, Seong Keun; Lee, Jin Ho; Lee, Jun Hee; Kim, Wan Doo; Kwon, Il Keun; Park, Su A

    2015-02-07

    The last decade has seen artificial blood vessels composed of natural polymer nanofibers grafted into human bodies to facilitate the recovery of damaged blood vessels. However, electrospun nanofibers (ENs) of biocompatible materials such as chitosan (CTS) suffer from poor mechanical properties. This study describes the design and fabrication of artificial blood vessels composed of a blend of CTS and PCL ENs and coated with PCL strands using rapid prototyping technology. The resulting tubular vessels exhibited excellent mechanical properties and showed that this process may be useful for vascular reconstruction.

  2. Use of 3D printer technology to facilitate surgical correction of a complex vascular anomaly with esophageal entrapment in a dog.

    PubMed

    Dundie, A; Hayes, G; Scrivani, P; Campoy, L; Fletcher, D; Ash, K; Oxford, E; Moïse, N S

    2017-04-01

    A 10 week old female intact Staffordshire terrier was presented with a total of five congenital cardio-thoracic vascular anomalies consisting of a patent ductus arteriosus (PDA) with an aneurysmic dilation, pulmonic stenosis, persistent right aortic arch, aberrant left subclavian artery and persistent left cranial vena cava. These abnormalities were identified with a combination of echocardiogram and computed tomography angiography (CTA). The abnormalities were associated with esophageal entrapment, regurgitation, and volume overload of the left heart with left atrial and ventricular enlargement. A 2 cm diameter aneurysmic dilation at the junction of the PDA, right aortic arch and aberrant left subclavian artery presented an unusual surgical challenge and precluded simple circumferential ligation and transection of the structure. A full scale three dimensional model of the heart and vasculature was constructed from the CTA and plasma sterilized. The model was used preoperatively to facilitate surgical planning and enhance intraoperative communication and coordination between the surgical and anesthesia teams. Intraoperatively the model facilitated spatial orientation, atraumatic vascular dissection, instrument sizing and positioning. A thoracoabdominal stapler was used to close the PDA aneurysm prior to transection. At the four-month postoperative follow-up the patient was doing well. This is the first reported application of new imaging and modeling technology to enhance surgical planning when approaching correction of complex cardiovascular anomalies in a dog.

  3. The SF3M approach to 3-D photo-reconstruction for non-expert users: application to a gully network

    NASA Astrophysics Data System (ADS)

    Castillo, C.; James, M. R.; Redel-Macías, M. D.; Pérez, R.; Gómez, J. A.

    2015-04-01

    3-D photo-reconstruction (PR) techniques have been successfully used to produce high resolution elevation models for different applications and over different spatial scales. However, innovative approaches are required to overcome some limitations that this technique may present in challenging scenarios. Here, we evaluate SF3M, a new graphical user interface for implementing a complete PR workflow based on freely available software (including external calls to VisualSFM and CloudCompare), in combination with a low-cost survey design for the reconstruction of a several-hundred-meters-long gully network. SF3M provided a semi-automated workflow for 3-D reconstruction requiring ~ 49 h (of which only 17% required operator assistance) for obtaining a final gully network model of > 17 million points over a gully plan area of 4230 m2. We show that a walking itinerary along the gully perimeter using two light-weight automatic cameras (1 s time-lapse mode) and a 6 m-long pole is an efficient method for 3-D monitoring of gullies, at a low cost (about EUR 1000 budget for the field equipment) and time requirements (~ 90 min for image collection). A mean error of 6.9 cm at the ground control points was found, mainly due to model deformations derived from the linear geometry of the gully and residual errors in camera calibration. The straightforward image collection and processing approach can be of great benefit for non-expert users working on gully erosion assessment.

  4. The role of the vascular dendritic cell network in atherosclerosis

    PubMed Central

    Alberts-Grill, Noah; Denning, Timothy L.; Rezvan, Amir

    2013-01-01

    A complex role has been described for dendritic cells (DCs) in the potentiation and control of vascular inflammation and atherosclerosis. Resident vascular DCs are found in the intima of atherosclerosis-prone vascular regions exposed to disturbed blood flow patterns. Several phenotypically and functionally distinct vascular DC subsets have been described. The functional heterogeneity of these cells and their contributions to vascular homeostasis, inflammation, and atherosclerosis are only recently beginning to emerge. Here, we review the available literature, characterizing the origin and function of known vascular DC subsets and their important role contributing to the balance of immune activation and immune tolerance governing vascular homeostasis under healthy conditions. We then discuss how homeostatic DC functions are disrupted during atherogenesis, leading to atherosclerosis. The effectiveness of DC-based “atherosclerosis vaccine” therapies in the treatment of atherosclerosis is also reviewed. We further provide suggestions for distinguishing DCs from macrophages and discuss important future directions for the field. PMID:23552284

  5. 3D coordination networks based on supramolecular chains as building units: synthesis and crystal structures of two silver(I) pyridyldiethynides.

    PubMed

    Zhang, Tianle; Kong, Jianxi; Hu, Yuejie; Meng, Xianggao; Yin, Hongbing; Hu, Dongshuang; Ji, Changpeng

    2008-04-21

    Two silver(I) pyridyldiethynides, [Ag2(3,5-C2PyC2).4CF3CO2Ag.4H2O] ( A) and [Ag 2(3,5-C2PyC2).3AgNO3.H2O](B), were synthesized by reactions of 3,5-diethynylpyridine with silver trifluoroacetate and silver nitrate in high yield, respectively. X-ray crystallographic studies revealed that in A pyridyldiethynide groups connect Ag 11 cluster units to generate 1D supramolecular chains as bridging ligands, where each ethynide group interacts with four silver atoms. These supramolecular chains bearing pyridyl groups are linked by silver ions to form wavelike layers, which are further connected by trifluoroacetate ligands to afford a 3D coordination network. However, B exhibits a different structural feature, where two ethynide groups in one pyridyldiethynide ligand coordinate to three and four silver atoms, respectively. These silver ethynide cluster units are linked through silver-ethynide and argentophilic interactions, leading to a double silver chain by sharing silver atoms in these units. In B, the silver double chains are further connected by bridging pyridyldiethynide groups to generate 2D networks, which interact through the Ag-N coordination bonds between silver atoms and pyridyl groups in the adjacent layers to generate a 3D coordination network. In these two compounds, trifluoroacetate and nitrate groups exhibit different bonding modes, indicating that the counterion is an important factor influencing the structures of supramolecular chains and coordination networks.

  6. Efficient generation of smooth muscle cells from adipose-derived stromal cells by 3D mechanical stimulation can substitute the use of growth factors in vascular tissue engineering.

    PubMed

    Parvizi, Mojtaba; Bolhuis-Versteeg, Lydia A M; Poot, André A; Harmsen, Martin C

    2016-07-01

    Occluding artery disease causes a high demand for bioartificial replacement vessels. We investigated the combined use of biodegradable and creep-free poly (1,3-trimethylene carbonate) (PTMC) with smooth muscle cells (SMC) derived by biochemical or mechanical stimulation of adipose tissue-derived stromal cells (ASC) to engineer bioartificial arteries. Biochemical induction of cultured ASC to SMC was done with TGF-β1 for 7d. Phenotype and function were assessed by qRT-PCR, immunodetection and collagen contraction assays. The influence of mechanical stimulation on non-differentiated and pre-differentiated ASC, loaded in porous tubular PTMC scaffolds, was assessed after culturing under pulsatile flow for 14d. Assays included qRT-PCR, production of extracellular matrix and scanning electron microscopy. ASC adhesion and TGF-β1-driven differentiation to contractile SMC on PTMC did not differ from tissue culture polystyrene controls. Mesenchymal and SMC markers were increased compared to controls. Interestingly, pre-differentiated ASC had only marginal higher contractility than controls. Moreover, in 3D PTMC scaffolds, mechanical stimulation yielded well-aligned ASC-derived SMC which deposited ECM. Under the same conditions, pre-differentiated ASC-derived SMC maintained their SMC phenotype. Our results show that mechanical stimulation can replace TGF-β1 pre-stimulation to generate SMC from ASC and that pre-differentiated ASC keep their SMC phenotype with increased expression of SMC markers.

  7. 3D Reconstruction of Chick Embryo Vascular Geometries Using Non-invasive High-Frequency Ultrasound for Computational Fluid Dynamics Studies.

    PubMed

    Tan, Germaine Xin Yi; Jamil, Muhammad; Tee, Nicole Gui Zhen; Zhong, Liang; Yap, Choon Hwai

    2015-11-01

    Recent animal studies have provided evidence that prenatal blood flow fluid mechanics may play a role in the pathogenesis of congenital cardiovascular malformations. To further these researches, it is important to have an imaging technique for small animal embryos with sufficient resolution to support computational fluid dynamics studies, and that is also non-invasive and non-destructive to allow for subject-specific, longitudinal studies. In the current study, we developed such a technique, based on ultrasound biomicroscopy scans on chick embryos. Our technique included a motion cancelation algorithm to negate embryonic body motion, a temporal averaging algorithm to differentiate blood spaces from tissue spaces, and 3D reconstruction of blood volumes in the embryo. The accuracy of the reconstructed models was validated with direct stereoscopic measurements. A computational fluid dynamics simulation was performed to model fluid flow in the generated construct of a Hamburger-Hamilton (HH) stage 27 embryo. Simulation results showed that there were divergent streamlines and a low shear region at the carotid duct, which may be linked to the carotid duct's eventual regression and disappearance by HH stage 34. We show that our technique has sufficient resolution to produce accurate geometries for computational fluid dynamics simulations to quantify embryonic cardiovascular fluid mechanics.

  8. 3D structure of macropore networks within natural and de-embarked estuary saltmarsh sediments: towards an improved understanding of network structural control over hydrologic function

    NASA Astrophysics Data System (ADS)

    Carr, Simon; Spencer, Kate; James, Tempest; Lucy, Diggens

    2015-04-01

    Saltmarshes are globally important environments which, though occupying < 4% of the Earth's surface, provide a range of ecosystem services. Yet, they are threatened by sea level rise, human population growth, urbanization and pollution resulting in degradation. To compensate for this habitat loss many coastal restoration projects have been implemented over the last few decades, largely driven by legislative requirements for improved biodiversity e.g. the EU Habitats Directive and Birds Directive. However, there is growing evidence that restored saltmarshes, recreated through the return to tidal inundation of previously drained and defended low-lying coastal land, do not have the same species composition even after 100 years and while environmental enhancement has been achieved, there may be consequences for ecosystem functioning This study presents the findings of a comparative analysis of detailed sediment structure and hydrological functioning of equivalent natural and de-embanked saltmarsh sediments at Orplands Farm, Essex, UK. 3D x-ray CT scanning of triplicate undisturbed sediment cores recovered in 2013 have been used to derive detailed volumetric reconstructions of macropore structure and networks, and to infer differences in bulk microporosity between natural and de-embanked saltmarshes. These volumes have been further visualised for qualitative analysis of the main sediment components, and extraction of key macropore space parameters for quantified analysis including total porosity and connectivity, as well as structure, organisation and efficiency (tortuosity) of macropore networks. Although total porosity was significantly greater within the de-embanked saltmarsh sediments, pore networks in these samples were less organised and more tortuous, and were also inferred to have significantly lower micro-porosity than those of the natural saltmarsh. These datasets are applied to explain significant differences in the hydraulic behaviour and functioning

  9. Nodule Detection in a Lung Region that's Segmented with Using Genetic Cellular Neural Networks and 3D Template Matching with Fuzzy Rule Based Thresholding

    PubMed Central

    Osman, Onur; Ucan, Osman N.

    2008-01-01

    Objective The purpose of this study was to develop a new method for automated lung nodule detection in serial section CT images with using the characteristics of the 3D appearance of the nodules that distinguish themselves from the vessels. Materials and Methods Lung nodules were detected in four steps. First, to reduce the number of region of interests (ROIs) and the computation time, the lung regions of the CTs were segmented using Genetic Cellular Neural Networks (G-CNN). Then, for each lung region, ROIs were specified with using the 8 directional search; +1 or -1 values were assigned to each voxel. The 3D ROI image was obtained by combining all the 2-Dimensional (2D) ROI images. A 3D template was created to find the nodule-like structures on the 3D ROI image. Convolution of the 3D ROI image with the proposed template strengthens the shapes that are similar to those of the template and it weakens the other ones. Finally, fuzzy rule based thresholding was applied and the ROI's were found. To test the system's efficiency, we used 16 cases with a total of 425 slices, which were taken from the Lung Image Database Consortium (LIDC) dataset. Results The computer aided diagnosis (CAD) system achieved 100% sensitivity with 13.375 FPs per case when the nodule thickness was greater than or equal to 5.625 mm. Conclusion Our results indicate that the detection performance of our algorithm is satisfactory, and this may well improve the performance of computer-aided detection of lung nodules. PMID:18253070

  10. Investigation of new 2-aryl substituted Benzothiopyrano[4,3-d]pyrimidines as kinase inhibitors targeting vascular endothelial growth factor receptor 2.

    PubMed

    Salerno, Silvia; Marini, Anna Maria; Fornaciari, Giacomo; Simorini, Francesca; La Motta, Concettina; Taliani, Sabrina; Sartini, Stefania; Da Settimo, Federico; García-Argáez, Aída Nelly; Gia, Ornella; Cosconati, Sandro; Novellino, Ettore; D'Ocon, Pilar; Fioravanti, Anna; Orlandi, Paola; Bocci, Guido; Dalla Via, Lisa

    2015-10-20

    Vascular Endothelial Growth Factor (VEGF) pathway has emerged as one of the most important positive modulators of Angiogenesis, a central process implicated in tumour growth and metastatic dissemination. This led to the design and development of anti-VEGF monoclonal antibodies and small-molecule ATP-competitive VEGFR-inhibitors. In this study, we describe the synthesis and the biological evaluation of novel 2-aryl substituted benzothiopyrano-fused pyrimidines 1a-i, 2a-i and 3a-i. The ability of the compounds to target the VEGF pathway was determined in vitro exploiting the compounds' antiproliferative efficacy against HUVEC cells. The VEGFR-2 inhibition was confirmed by enzymatic assays on recombinant human kinase insert domain receptor (KDR), by cell-based phospho-VEGFR-2 inhibition assays, and by ex vivo rat aortic ring tests. The selectivity profile of the best performing derivatives belonging to series 2 was further explored combining modeling studies and additional assays in a panel of human cell lines and other kinases.

  11. Investigating water transport through the xylem network in vascular plants.

    PubMed

    Kim, Hae Koo; Park, Joonghyuk; Hwang, Ildoo

    2014-04-01

    Our understanding of physical and physiological mechanisms depends on the development of advanced technologies and tools to prove or re-evaluate established theories, and test new hypotheses. Water flow in land plants is a fascinating phenomenon, a vital component of the water cycle, and essential for life on Earth. The cohesion-tension theory (CTT), formulated more than a century ago and based on the physical properties of water, laid the foundation for our understanding of water transport in vascular plants. Numerous experimental tools have since been developed to evaluate various aspects of the CTT, such as the existence of negative hydrostatic pressure. This review focuses on the evolution of the experimental methods used to study water transport in plants, and summarizes the different ways to investigate the diversity of the xylem network structure and sap flow dynamics in various species. As water transport is documented at different scales, from the level of single conduits to entire plants, it is critical that new results be subjected to systematic cross-validation and that findings based on different organs be integrated at the whole-plant level. We also discuss the functional trade-offs between optimizing hydraulic efficiency and maintaining the safety of the entire transport system. Furthermore, we evaluate future directions in sap flow research and highlight the importance of integrating the combined effects of various levels of hydraulic regulation.

  12. High compliance vascular grafts based on semi-interpenetrating networks

    PubMed Central

    Dempsey, David K.; Nezarati, Roya M.; Mackey, Calvin E.

    2014-01-01

    Current synthetic vascular grafts have poor patency rates in small diameter applications (<6 mm) due to intimal hyperplasia arising from a compliance mismatch between the graft and native vasculature. Enormous efforts have focused on improving biomechanical properties; however, polymeric grafts are often constrained by an inverse relationship between burst pressure and compliance. We have developed a new, semi-interpenetrating network (semi-IPN) approach to improve compliance without sacrificing burst pressure. The effects of heat treatment on graft morphology, fiber architecture, and resultant biomechanical properties are presented. In addition, biomechanical properties after equilibration at physiological temperature were investigated in relation to polyurethane microstructure to better predict in vivo performance. Compliance values as high as 9.2 ± 2.7 %/mmHg x 10−4 were observed for the semi-IPN graft while also maintaining high burst pressure, 1780 ± 230 mm Hg. The high compliance of these heat-treated poly(carbonate urethane) (PCU) and semi-IPN grafts is expected to improve long-term patency rates beyond even saphenous vein autografts by preventing intimal hyperplasia. The fundamental structure-property relationships gained from this work may also be utilized to advance biomedical device designs based on thermoplastic polyurethanes. PMID:25601822

  13. A heterogeneous sensor network simulation system with integrated terrain data for real-time target detection in 3D space

    NASA Astrophysics Data System (ADS)

    Lin, Hong; Tanner, Steve; Rushing, John; Graves, Sara; Criswell, Evans

    2008-03-01

    Large scale sensor networks composed of many low-cost small sensors networked together with a small number of high fidelity position sensors can provide a robust, fast and accurate air defense and warning system. The team has been developing simulations of such large networks, and is now adding terrain data in an effort to provide more realistic analysis of the approach. This work, a heterogeneous sensor network simulation system with integrated terrain data for real-time target detection in a three-dimensional environment is presented. The sensor network can be composed of large numbers of low fidelity binary and bearing-only sensors, and small numbers of high fidelity position sensors, such as radars. The binary and bearing-only sensors are randomly distributed over a large geographic region; while the position sensors are distributed evenly. The elevations of the sensors are determined through the use of DTED Level 0 dataset. The targets are located through fusing measurement information from all types of sensors modeled by the simulation. The network simulation utilizes the same search-based optimization algorithm as in our previous two-dimensional sensor network simulation with some significant modifications. The fusion algorithm is parallelized using spatial decomposition approach: the entire surveillance area is divided into small regions and each region is assigned to one compute node. Each node processes sensor measurements and terrain data only for the assigned sub region. A master process combines the information from all the compute nodes to get the overall network state. The simulation results have indicated that the distributed fusion algorithm is efficient enough so that an optimal solution can be reached before the arrival of the next sensor data with a reasonable time interval, and real-time target detection can be achieved. The simulation was performed on a Linux cluster with communication between nodes facilitated by the Message Passing Interface

  14. Tracer diffusion in a polymer gel: simulations of static and dynamic 3D networks using spherical boundary conditions.

    PubMed

    Kamerlin, Natasha; Elvingson, Christer

    2016-11-30

    We have investigated an alternative to the standard periodic boundary conditions for simulating the diffusion of tracer particles in a polymer gel by performing Brownian dynamics simulations using spherical boundary conditions. The gel network is constructed by randomly distributing tetravalent cross-linking nodes and connecting nearest pairs. The final gel structure is characterised by the radial distribution functions, chain lengths and end-to-end distances, and the pore size distribution. We have looked at the diffusion of tracer particles with a wide range of sizes, diffusing in both static and dynamic networks of two different volume fractions. It is quantitatively shown that the dynamical effect of the network becomes more important in facilitating the diffusional transport for larger particle sizes, and that one obtains a finite diffusion also for particle sizes well above the maximum in the pore size distribution.

  15. 3-D illustration of network orientations of interstitial cells of Cajal subgroups in human colon as revealed by deep-tissue imaging with optical clearing.

    PubMed

    Liu, Yuan-An; Chung, Yuan-Chiang; Pan, Shien-Tung; Hou, Yung-Chi; Peng, Shih-Jung; Pasricha, Pankaj J; Tang, Shiue-Cheng

    2012-05-15

    Morphological changes of interstitial cells of Cajal (ICC) have been proposed to characterize motility disorders. However, a global view of the network orientations of ICC subgroups has not been established to illustrate their three-dimensional (3-D) architectures in the human colon. In this research, we integrate c-kit immunostaining, 3-D microscopy with optical clearing, and image rendering to present the location-dependent network orientations with high definition. Full-depth colonic tissues were obtained from colectomies performed for nonobstructing carcinoma. Specimens of colon wall were prepared away from the tumor site. C-kit and nuclear fluorescent staining were used to identify the ICC processes and cell body. Optical clearing was used to generate transparent colon specimens, which led to panoramic visualization of the fluorescence-labeled ICC networks at the myenteric plexus (ICC-MY), longitudinal (ICC-LM) and circular (ICC-CM) muscles, and submucosal boundary (ICC-SM) up to 300 μm in depth via confocal microscopy with subcellular level resolution. We observed four distinct network patterns: 1) periganglionic ICC-MY that connect with ICC-LM and ICC-CM, 2) plexuses of ICC-LM within the longitudinal muscle and extending toward the serosa, 3) repetitive and organized ICC-CM layers running parallel to the circular muscle axis and extending toward the submucosa, and 4) a condensed ICC-SM layer lining the submucosal border. Among the four patterns, the orderly aligned ICC-CM layers provide an appropriate target for quantitation. Our results demonstrate the location-dependent network orientations of ICC subgroups and suggest a practical approach for in-depth imaging and quantitative analysis of ICC in the human colon specimen.

  16. 3-D ADI-FDTD modeling of GPR backscatter from complex targets for the training of artificial neural networks

    NASA Astrophysics Data System (ADS)

    Sassen, D. S.; Everett, M. E.

    2007-12-01

    Artificial neural networks can provide approximate solutions to ground-penetrating radar (GPR) problems in cases where real time performance is needed. Examples include discrimination of landmines or UXO's, and in circumstances that require a high number of successive forward problems, for example inversion or imaging. The training of neural networks to work within even a limited range of targets and electromagnetic properties requires a large set of successive examples generated from numerical methods such as finite difference time domain (FDTD). The traditional FDTD technique suffers from numerical dispersion unless time steps are kept below the Courant stability limit. The accurate modeling of electromagnetic scattering by complex targets require a refined grid, subgrids, or conformal grids that can significantly increase computation time, making neural network training inefficient. A relatively recent FDTD technique, ADI-FDTD, uses implicit equations that help to cancel numerical dispersion and allow for unconditionally stable modeling of EM propagation and therefore is not bound by the Courant stability limit. The technique is especially efficient for the accurate modeling of complex targets. Our ADI-FDTD code includes the ability to refine the model grid and to implement a conformal gridding to improve model accuracy without effecting the overall computation time. We will explore the tradeoff in computation time and accuracy in modeling the GPR backscatter of various targets using both the ADI-FDTD technique and the traditional FDTD technique for the purpose of neural network training.

  17. Design of AN Intelligent Individual Evacuation Model for High Rise Building Fires Based on Neural Network Within the Scope of 3d GIS

    NASA Astrophysics Data System (ADS)

    Atila, U.; Karas, I. R.; Turan, M. K.; Rahman, A. A.

    2013-09-01

    One of the most dangerous disaster threatening the high rise and complex buildings of today's world including thousands of occupants inside is fire with no doubt. When we consider high population and the complexity of such buildings it is clear to see that performing a rapid and safe evacuation seems hard and human being does not have good memories in case of such disasters like world trade center 9/11. Therefore, it is very important to design knowledge based realtime interactive evacuation methods instead of classical strategies which lack of flexibility. This paper presents a 3D-GIS implementation which simulates the behaviour of an intelligent indoor pedestrian navigation model proposed for a self -evacuation of a person in case of fire. The model is based on Multilayer Perceptron (MLP) which is one of the most preferred artificial neural network architecture in classification and prediction problems. A sample fire scenario following through predefined instructions has been performed on 3D model of the Corporation Complex in Putrajaya (Malaysia) and the intelligent evacuation process has been realized within a proposed 3D-GIS based simulation.

  18. Interaction network of vascular epiphytes and trees in a subtropical forest

    NASA Astrophysics Data System (ADS)

    Ceballos, Sergio Javier; Chacoff, Natacha Paola; Malizia, Agustina

    2016-11-01

    The commensalistic interaction between vascular epiphytes and host trees is a type of biotic interaction that has been recently analysed with a network approach. This approach is useful to describe the network structure with metrics such as nestedness, specialization and interaction evenness, which can be compared with other vascular epiphyte-host tree networks from different forests of the world. However, in several cases these comparisons showed different and inconsistent patterns between these networks, and their possible ecological and evolutionary determinants have been scarcely studied. In this study, the interactions between vascular epiphytes and host trees of a subtropical forest of sierra de San Javier (Tucuman, Argentina) were analysed with a network approach. We calculated metrics to characterize the network and we analysed factors such as the abundance of species, tree size, tree bark texture, and tree wood density in order to predict interaction frequencies and network structure. The interaction network analysed exhibited a nested structure, an even distribution of interactions, and low specialization, properties shared with other obligated vascular epiphyte-host tree networks with a different assemblage structure. Interaction frequencies were predicted by the abundance of species, tree size and tree bark texture. Species abundance and tree size also predicted nestedness. Abundance indicated that abundant species interact more frequently; and tree size was an important predictor, since larger-diameter trees hosted more vascular epiphyte species than small-diameter trees. This is one of the first studies analyzing interactions between vascular epiphytes and host trees using a network approach in a subtropical forest, and taking the whole vascular epiphyte assemblage of the sampled community into account.

  19. [Changes of the periodontal vascular network, periodontal fiber and alveolar bone incident to tooth extrusion].

    PubMed

    Kawato, F

    1989-06-01

    During the application of orthodontic force to a tooth, the surrounding tissues undergo changes of bone resorption and apposition, thereby resulting in tooth movement. The purpose of this study was to investigate the interrelationship between alveolar bone changes and the periodontal vascular network caused by extrusive orthodontic force using a scanning electron microscopy. Extrusive orthodontic force was applied to the mandibular 2nd and 3rd premolars of adult dogs. At the completion of the loading process, the inferior alveolar arteries were injected with a low viscosity MMA resin (Mercox). The following results were obtained. 1) At 3 days post-extrusion, various types of vascular network showing a loop pattern were seen along the direction of the tooth movement. 2) At 7 days post-extrusion, various types of vascular network with a hairpin loop pattern along the direction of the tooth movement were observed. Histologically, the fibers of periodontal ligament were stretched in the direction of the extrusion, Vascular hairpin loop formations were observed within the fibers of periodontal ligament. Bone apposition was not observed on the surface of alveolar bone. 3) At 14 days post-extrusion, a much more extensive and developed hairpin loop pattern occurred. Furthermore, new bone apposition was seen on the alveolar bone beneath under the hairpin loops. The periodontal ligament space was retained in the same width, even after bony apposition. 4) At 21 days post-extrusion, the tooth side microvascular network showed abundant low hairpin loops which anastomosed each other, and new spinous bony apposition was observed right below the periodontal vascular network. 5) At 30 days post-extrusion, the periodontal vascular network showed a almost normal appearance, with the rearrangement of vascular network. The surface of the spinous bony apposition became flat. The appositional bone had a lower degree of calcification than the alveolar bone in control group. 6) At 60 days

  20. Capturing 3D resistivity of semi-arid karstic subsurface in varying moisture conditions using a wireless sensor network

    NASA Astrophysics Data System (ADS)

    Barnhart, K.; Oden, C. P.

    2012-12-01

    The dissolution of soluble bedrock results in surface and subterranean karst channels, which comprise 7-10% of the dry earth's surface. Karst serves as a preferential conduit to focus surface and subsurface water but it is difficult to exploit as a water resource or protect from pollution because of irregular structure and nonlinear hydrodynamic behavior. Geophysical characterization of karst commonly employs resistivity and seismic methods, but difficulties arise due to low resistivity contrast in arid environments and insufficient resolution of complex heterogeneous structures. To help reduce these difficulties, we employ a state-of-the-art wireless geophysical sensor array, which combines low-power radio telemetry and solar energy harvesting to enable long-term in-situ monitoring. The wireless aspect removes topological constraints common with standard wired resistivity equipment, which facilitates better coverage and/or sensor density to help improve aspect ratio and resolution. Continuous in-situ deployment allows data to be recorded according to nature's time scale; measurements are made during infrequent precipitation events which can increase resistivity contrast. The array is coordinated by a smart wireless bridge that continuously monitors local soil moisture content to detect when precipitation occurs, schedules resistivity surveys, and periodically relays data to the cloud via 3G cellular service. Traditional 2/3D gravity and seismic reflection surveys have also been conducted to clarify and corroborate results.

  1. A neural network-based 2D/3D image registration quality evaluator for pediatric patient setup in external beam radiotherapy.

    PubMed

    Wu, Jian; Su, Zhong; Li, Zuofeng

    2016-01-01

    Our purpose was to develop a neural network-based registration quality evaluator (RQE) that can improve the 2D/3D image registration robustness for pediatric patient setup in external beam radiotherapy. Orthogonal daily setup X-ray images of six pediatric patients with brain tumors receiving proton therapy treatments were retrospectively registered with their treatment planning computed tomography (CT) images. A neural network-based pattern classifier was used to determine whether a registration solution was successful based on geometric features of the similarity measure values near the point-of-solution. Supervised training and test datasets were generated by rigidly registering a pair of orthogonal daily setup X-ray images to the treatment planning CT. The best solution for each registration task was selected from 50 optimizing attempts that differed only by the randomly generated initial transformation parameters. The distance from each individual solution to the best solution in the normalized parametrical space was compared to a user-defined error tolerance to determine whether that solution was acceptable. A supervised training was then used to train the RQE. Performance of the RQE was evaluated using test dataset consisting of registration results that were not used in training. The RQE was integrated with our in-house 2D/3D registration system and its performance was evaluated using the same patient dataset. With an optimized sampling step size (i.e., 5 mm) in the feature space, the RQE has the sensitivity and the specificity in the ranges of 0.865-0.964 and 0.797-0.990, respectively, when used to detect registration error with mean voxel displacement (MVD) greater than 1 mm. The trial-to-acceptance ratio of the integrated 2D/3D registration system, for all patients, is equal to 1.48. The final acceptance ratio is 92.4%. The proposed RQE can potentially be used in a 2D/3D rigid image registration system to improve the overall robustness by rejecting

  2. Development and Optimization of Viable Human Platforms through 3D Printing

    SciTech Connect

    Parker, Paul R.; Moya, Monica L.; Wheeler, Elizabeth K.

    2015-08-21

    3D printing technology offers a unique method for creating cell cultures in a manner far more conducive to accurate representation of human tissues and systems. Here we print cellular structures capable of forming vascular networks and exhibiting qualities of natural tissues and human systems. This allows for cheaper and readily available sources for further study of biological and pharmaceutical agents.

  3. The impact of including spatially longitudinal heterogeneities of vessel oxygen content and vascular fraction in 3D tumor oxygenation models on predicted radiation sensitivity

    SciTech Connect

    Lagerlöf, Jakob H.; Kindblom, Jon; Bernhardt, Peter

    2014-04-15

    Purpose: Oxygen distribution models have been used to analyze the influences of oxygen tensions on tissue response after radiotherapy. These distributions are often generated assuming constant oxygen tension in the blood vessels. However, as red blood cells progress through the vessels, oxygen is continuously released into the plasma and the surrounding tissue, resulting in longitudinally varying oxygen levels in the blood vessels. In the present study, the authors investigated whether a tumor oxygenation model that incorporated longitudinally varying oxygen levels would provide different predictions of necrotic fractions and radiosensitivity compared to commonly used models with a constant oxygen pressure. Methods: Our models simulated oxygen diffusion based on a Green's function approach and oxygen consumption according to the Michaelis-Menten equation. The authors constructed tumor models with different vascular fractions (VFs), from which they generated depth oxygenation curves and a look-up table of oxygen pressure gradients. The authors evaluated models of spherical tumors of various sizes, from 1 to 10{sup 4} mg. The authors compared the results from a model with constant vessel oxygen (CVO) pressure to those from models with longitudinal variations in oxygen saturation and either a constant VF (CVF) or variable VF (VVF) within the tumor tissue. The authors monitored the necrotic fractions, defined as tumor regions with an oxygen pressure below 1 mmHg. Tumor radiation sensitivity was expressed as D{sub 99,} the homogeneous radiation dose required for a tumor control probability of 0.99. Results: In the CVO saturation model, no necrosis was observed, and decreasing the VF could only decrease the D{sub 99} by up to 10%. Furthermore, the D{sub 99} vs VF dependence was similar for different tumor masses. Compared to the CVO model, the extended CVF and VVF models provided clearly different results, including pronounced effects of VF and tumor size on the necrotic

  4. 3D carotid plaque MR Imaging

    PubMed Central

    Parker, Dennis L.

    2015-01-01

    SYNOPSIS There has been significant progress made in 3D carotid plaque magnetic resonance imaging techniques in recent years. 3D plaque imaging clearly represents the future in clinical use. With effective flow suppression techniques, choices of different contrast weighting acquisitions, and time-efficient imaging approaches, 3D plaque imaging offers flexible imaging plane and view angle analysis, large coverage, multi-vascular beds capability, and even can be used in fast screening. PMID:26610656

  5. Identifying High-Traffic Patterns in the Workplace with Radio Tomographic Imaging in 3D Wireless Sensor Networks

    DTIC Science & Technology

    2014-03-27

    monitored. The sensor network used in this research employs a token ring protocol, where each receiver reports respective RSS values to a base station...USAF AFIT-ENG-14-M-24 DEPARTMENT OF THE AIR FORCE AIR UNIVERSITY AIR FORCE INSTITUTE OF TECHNOLOGY Wright-Patterson Air Force Base, Ohio DISTRIBUTION...Graduate School of Engineering and Management Air Force Institute of Technology Air University Air Education and Training Command in Partial Fulfillment

  6. High-throughput compound evaluation on 3D networks of neurons and glia in a microfluidic platform

    PubMed Central

    Wevers, Nienke R.; van Vught, Remko; Wilschut, Karlijn J.; Nicolas, Arnaud; Chiang, Chiwan; Lanz, Henriette L.; Trietsch, Sebastiaan J.; Joore, Jos; Vulto, Paul

    2016-01-01

    With great advances in the field of in vitro brain modelling, the challenge is now to implement these technologies for development and evaluation of new drug candidates. Here we demonstrate a method for culturing three-dimensional networks of spontaneously active neurons and supporting glial cells in a microfluidic platform. The high-throughput nature of the platform in combination with its compatibility with all standard laboratory equipment allows for parallel evaluation of compound effects. PMID:27934939

  7. Self-organizing task modules and explicit coordinate systems in a neural network model for 3-D saccades.

    PubMed

    Smith, M A; Crawford, J D

    2001-01-01

    The goal of this study was to train an artificial neural network to generate accurate saccades in Listing's plane and then determine how the hidden units performed the visuomotor transformation. A three-layer neural network was successfully trained, using back-prop, to take in oculocentric retinal error vectors and three-dimensional eye orientation and to generate the correct head-centric motor error vector within Listing's plane. Analysis of the hidden layer of trained networks showed that explicit representations of desired target direction and eye orientation were not employed. Instead, the hidden-layer units consistently divided themselves into four parallel modules: a dominant "vector-propagation" class (approximately 50% of units) with similar visual and motor tuning but negligible position sensitivity and three classes with specific spatial relations between position, visual, and motor tuning. Surprisingly, the vector-propagation units, and only these, formed a highly precise and consistent orthogonal coordinate system aligned with Listing's plane. Selective "lesions" confirmed that the vector-propagation module provided the main drive for saccade magnitude and direction, whereas a balance between activity in the other modules was required for the correct eye-position modulation. Thus, contrary to popular expectation, error-driven learning in itself was sufficient to produce a "neural" algorithm with discrete functional modules and explicit coordinate systems, much like those observed in the real saccade generator.

  8. A vascular anatomical network model of the spatio-temporal response to brain activation

    PubMed Central

    Boas, David A.; Jones, Stephanie R.; Devor, Anna; Huppert, Theodore J.; Dale, Anders M.

    2008-01-01

    Neuronal activity-induced changes in vascular tone and oxygen consumption result in a dynamic evolution of blood flow, volume, and oxygenation. Functional neuroimaging techniques, such as functional magnetic resonance imaging, optical imaging, and PET, provide indirect measures of the neural-induced vascular dynamics driving the blood parameters. Models connecting changes in vascular tone and oxygen consumption to observed changes in the blood parameters are needed to guide more quantitative physiological interpretation of these functional neuroimaging modalities. Effective lumped-parameter vascular balloon and Windkessel models have been developed for this purpose, but the lumping of the complex vascular network into a series of arterioles, capillaries, and venules allows only qualitative interpretation. We have therefore developed a parallel vascular anatomical network (VAN) model based on microscopically measurable properties to improve quantitative interpretation of the vascular response. The model, derived from measured physical properties, predicts baseline blood pressure and oxygen saturation distributions and dynamic responses consistent with literature. Furthermore, the VAN model allows investigation of spatial features of the dynamic vascular and oxygen response to neuronal activity. We find that a passive surround negative vascular response (“negative BOLD”) is predicted, but that it underestimates recently observed surround negativity suggesting that additional active surround vasoconstriction is required to explain the experimental data. PMID:18289880

  9. Transdermal regulation of vascular network bioengineering using a photopolymerizable methacrylated gelatin hydrogel

    PubMed Central

    Lin, Ruei-Zeng; Chen, Ying-Chieh; Moreno-Luna, Rafael; Khademhosseini, Ali; Melero-Martin, Juan M.

    2013-01-01

    The search for hydrogel materials compatible with vascular morphogenesis is an active area of investigation in tissue engineering. One candidate material is methacrylated gelatin (GelMA), a UV-photocrosslinkable hydrogel that is synthesized by adding methacrylate groups to the amine-containing side-groups of gelatin. GelMA hydrogels containing human endothelial colony-forming cells (ECFCs) and mesenchymal stem cells (MSCs) can be photopolymerized ex vivo and then surgically transplanted in vivo as a means to generate vascular networks. However, the full clinical potential of GelMA will be best captured by enabling minimally invasive implantation and in situ polymerization. In this study, we demonstrated the feasibility of bioengineering human vascular networks inside GelMA constructs that were first subcutaneously injected into immunodeficient mice while in liquid form, and then rapidly crosslinked via transdermal exposure to UV light. These bioengineered vascular networks developed within 7 days, formed functional anastomoses with the host vasculature, and were uniformly distributed throughout the constructs. Most notably, we demonstrated that the vascularization process can be directly modulated by adjusting the initial exposure time to UV light (15–45 s range), with constructs displaying progressively less vascular density and smaller average lumen size as the degree of GelMA crosslinking was increased. Our studies support the use of GelMA in its injectable form, followed by in situ transdermal photopolymerization, as a preferable means to deliver cells in applications that require the formation of vascular networks in vivo. PMID:23773819

  10. A monolithic 3D-0D coupled closed-loop model of the heart and the vascular system: Experiment-based parameter estimation for patient-specific cardiac mechanics.

    PubMed

    Hirschvogel, Marc; Bassilious, Marina; Jagschies, Lasse; Wildhirt, Stephen M; Gee, Michael W

    2016-10-15

    A model for patient-specific cardiac mechanics simulation is introduced, incorporating a 3-dimensional finite element model of the ventricular part of the heart, which is coupled to a reduced-order 0-dimensional closed-loop vascular system, heart valve, and atrial chamber model. The ventricles are modeled by a nonlinear orthotropic passive material law. The electrical activation is mimicked by a prescribed parameterized active stress acting along a generic muscle fiber orientation. Our activation function is constructed such that the start of ventricular contraction and relaxation as well as the active stress curve's slope are parameterized. The imaging-based patient-specific ventricular model is prestressed to low end-diastolic pressure to account for the imaged, stressed configuration. Visco-elastic Robin boundary conditions are applied to the heart base and the epicardium to account for the embedding surrounding. We treat the 3D solid-0D fluid interaction as a strongly coupled monolithic problem, which is consistently linearized with respect to 3D solid and 0D fluid model variables to allow for a Newton-type solution procedure. The resulting coupled linear system of equations is solved iteratively in every Newton step using 2  ×  2 physics-based block preconditioning. Furthermore, we present novel efficient strategies for calibrating active contractile and vascular resistance parameters to experimental left ventricular pressure and stroke volume data gained in porcine experiments. Two exemplary states of cardiovascular condition are considered, namely, after application of vasodilatory beta blockers (BETA) and after injection of vasoconstrictive phenylephrine (PHEN). The parameter calibration to the specific individual and cardiovascular state at hand is performed using a 2-stage nonlinear multilevel method that uses a low-fidelity heart model to compute a parameter correction for the high-fidelity model optimization problem. We discuss 2 different low

  11. 3-D components of a biological neural network visualized in computer generated imagery. I - Macular receptive field organization

    NASA Technical Reports Server (NTRS)

    Ross, Muriel D.; Cutler, Lynn; Meyer, Glenn; Lam, Tony; Vaziri, Parshaw

    1990-01-01

    Computer-assisted, 3-dimensional reconstructions of macular receptive fields and of their linkages into a neural network have revealed new information about macular functional organization. Both type I and type II hair cells are included in the receptive fields. The fields are rounded, oblong, or elongated, but gradations between categories are common. Cell polarizations are divergent. Morphologically, each calyx of oblong and elongated fields appears to be an information processing site. Intrinsic modulation of information processing is extensive and varies with the kind of field. Each reconstructed field differs in detail from every other, suggesting that an element of randomness is introduced developmentally and contributes to endorgan adaptability.

  12. A generative modeling approach to connectivity-Electrical conduction in vascular networks.

    PubMed

    Hald, Bjørn Olav

    2016-06-21

    The physiology of biological structures is inherently dynamic and emerges from the interaction and assembly of large collections of small entities. The extent of coupled entities complicates modeling and increases computational load. Here, microvascular networks are used to present a novel generative approach to connectivity based on the observation that biological organization is hierarchical and composed of a limited set of building blocks, i.e. a vascular network consists of blood vessels which in turn are composed by one or more cell types. Fast electrical communication is crucial to synchronize vessel tone across the vast distances within a network. We hypothesize that electrical conduction capacity is delimited by the size of vascular structures and connectivity of the network. Generation and simulation of series of dynamical models of electrical spread within vascular networks of different size and composition showed that (1) Conduction is enhanced in models harboring long and thin endothelial cells that couple preferentially along the longitudinal axis. (2) Conduction across a branch point depends on endothelial connectivity between branches. (3) Low connectivity sub-networks are more sensitive to electrical perturbations. In summary, the capacity for electrical signaling in microvascular networks is strongly shaped by the morphology and connectivity of vascular (particularly endothelial) cells. While the presented software can be used by itself or as a starting point for more sophisticated models of vascular dynamics, the generative approach can be applied to other biological systems, e.g. nervous tissue, the lymphatics, or the biliary system.

  13. A coupled 3D-1D numerical monodomain solver for cardiac electrical activation in the myocardium with detailed Purkinje network

    NASA Astrophysics Data System (ADS)

    Vergara, Christian; Lange, Matthias; Palamara, Simone; Lassila, Toni; Frangi, Alejandro F.; Quarteroni, Alfio

    2016-03-01

    We present a model for the electrophysiology in the heart to handle the electrical propagation through the Purkinje system and in the myocardium, with two-way coupling at the Purkinje-muscle junctions. In both the subproblems the monodomain model is considered, whereas at the junctions a resistor element is included that induces an orthodromic propagation delay from the Purkinje network towards the heart muscle. We prove a sufficient condition for convergence of a fixed-point iterative algorithm to the numerical solution of the coupled problem. Numerical comparison of activation patterns is made with two different combinations of models for the coupled Purkinje network/myocardium system, the eikonal/eikonal and the monodomain/monodomain models. Test cases are investigated for both physiological and pathological activation of a model left ventricle. Finally, we prove the reliability of the monodomain/monodomain coupling on a realistic scenario. Our results underlie the importance of using physiologically realistic Purkinje-trees with propagation solved using the monodomain model for simulating cardiac activation.

  14. Architectural improvements and 28 nm FPGA implementation of the APEnet+ 3D Torus network for hybrid HPC systems

    NASA Astrophysics Data System (ADS)

    Ammendola, Roberto; Biagioni, Andrea; Frezza, Ottorino; Lo Cicero, Francesca; Stanislao Paolucci, Pier; Lonardo, Alessandro; Rossetti, Davide; Simula, Francesco; Tosoratto, Laura; Vicini, Piero

    2014-06-01

    Modern Graphics Processing Units (GPUs) are now considered accelerators for general purpose computation. A tight interaction between the GPU and the interconnection network is the strategy to express the full potential on capability computing of a multi-GPU system on large HPC clusters; that is the reason why an efficient and scalable interconnect is a key technology to finally deliver GPUs for scientific HPC. In this paper we show the latest architectural and performance improvement of the APEnet+ network fabric, a FPGA-based PCIe board with 6 fully bidirectional off-board links with 34 Gbps of raw bandwidth per direction, and X8 Gen2 bandwidth towards the host PC. The board implements a Remote Direct Memory Access (RDMA) protocol that leverages upon peer-to-peer (P2P) capabilities of Fermi- and Kepler-class NVIDIA GPUs to obtain real zero-copy, low-latency GPU-to-GPU transfers. Finally, we report on the development activities for 2013 focusing on the adoption of the latest generation 28 nm FPGAs and the preliminary tests performed on this new platform.

  15. Europeana and 3D

    NASA Astrophysics Data System (ADS)

    Pletinckx, D.

    2011-09-01

    The current 3D hype creates a lot of interest in 3D. People go to 3D movies, but are we ready to use 3D in our homes, in our offices, in our communication? Are we ready to deliver real 3D to a general public and use interactive 3D in a meaningful way to enjoy, learn, communicate? The CARARE project is realising this for the moment in the domain of monuments and archaeology, so that real 3D of archaeological sites and European monuments will be available to the general public by 2012. There are several aspects to this endeavour. First of all is the technical aspect of flawlessly delivering 3D content over all platforms and operating systems, without installing software. We have currently a working solution in PDF, but HTML5 will probably be the future. Secondly, there is still little knowledge on how to create 3D learning objects, 3D tourist information or 3D scholarly communication. We are still in a prototype phase when it comes to integrate 3D objects in physical or virtual museums. Nevertheless, Europeana has a tremendous potential as a multi-facetted virtual museum. Finally, 3D has a large potential to act as a hub of information, linking to related 2D imagery, texts, video, sound. We describe how to create such rich, explorable 3D objects that can be used intuitively by the generic Europeana user and what metadata is needed to support the semantic linking.

  16. Euro3D Science Conference

    NASA Astrophysics Data System (ADS)

    Walsh, J. R.

    2004-02-01

    The Euro3D RTN is an EU funded Research Training Network to foster the exploitation of 3D spectroscopy in Europe. 3D spectroscopy is a general term for spectroscopy of an area of the sky and derives its name from its two spatial + one spectral dimensions. There are an increasing number of instruments which use integral field devices to achieve spectroscopy of an area of the sky, either using lens arrays, optical fibres or image slicers, to pack spectra of multiple pixels on the sky (``spaxels'') onto a 2D detector. On account of the large volume of data and the special methods required to reduce and analyse 3D data, there are only a few centres of expertise and these are mostly involved with instrument developments. There is a perceived lack of expertise in 3D spectroscopy spread though the astronomical community and its use in the armoury of the observational astronomer is viewed as being highly specialised. For precisely this reason the Euro3D RTN was proposed to train young researchers in this area and develop user tools to widen the experience with this particular type of data in Europe. The Euro3D RTN is coordinated by Martin M. Roth (Astrophysikalisches Institut Potsdam) and has been running since July 2002. The first Euro3D science conference was held in Cambridge, UK from 22 to 23 May 2003. The main emphasis of the conference was, in keeping with the RTN, to expose the work of the young post-docs who are funded by the RTN. In addition the team members from the eleven European institutes involved in Euro3D also presented instrumental and observational developments. The conference was organized by Andy Bunker and held at the Institute of Astronomy. There were over thirty participants and 26 talks covered the whole range of application of 3D techniques. The science ranged from Galactic planetary nebulae and globular clusters to kinematics of nearby galaxies out to objects at high redshift. Several talks were devoted to reporting recent observations with newly

  17. N-Body Classical Systems and Neural Networks on a 3d SIMD Massive Parallel Processor:. APE100/QUADRICS

    NASA Astrophysics Data System (ADS)

    Paolucci, P. S.

    A number of physical systems (e.g., N body Newtonian, Coulombian or Lennard-Jones systems) can be described by N2 interaction terms. Completely connected neural networks are characterised by the same kind of connections: Each neuron sends signals to all the other neurons via synapses. The APE100/Quadricsmassive parallel architecture, with processing power in excess of 100 Gigaflops and a central memory of 8 Gigabytes seems to have processing power and memory adequate to simulate systems formed by more than 1 billion synapses or interaction terms. On the other hand the processing nodes of APE100/Quadrics are organised in a tridimensional cubic lattice; each processing node has a direct communication path only toward the first neighboring nodes. Here we describe a convenient way to map systems with global connectivity onto the first-neighbors connectivity of the APE100/Quadrics architecture. Some numeric criteria, which are useful for matching SIMD tridimensional architectures with globally connected simulations, are introduced.

  18. 3D modelling of the active normal fault network in the Apulian Ridge (Eastern Mediterranean Sea): Integration of seismic and bathymetric data with implicit surface methods

    NASA Astrophysics Data System (ADS)

    Bistacchi, Andrea; Pellegrini, Caludio; Savini, Alessandra; Marchese, Fabio

    2016-04-01

    The Apulian ridge (North-eastern Ionian Sea, Mediterranean), interposed between the facing Apennines and Hellenides subduction zones (to the west and east respectively), is characterized by thick cretaceous carbonatic sequences and discontinuous tertiary deposits crosscut by a penetrative network of NNW-SSE normal faults. These are exposed onshore in Puglia, and are well represented offshore in a dataset composed of 2D seismics and wells collected by oil companies from the '60s to the '80s, more recent seismics collected during research projects in the '90s, recent very high resolution seismics (VHRS - Sparker and Chirp-sonar data), multibeam echosounder bathymetry, and sedimentological and geo-chronological analyses of sediment samples collected on the seabed. Faults are evident in 2D seismics at all scales, and their along-strike geometry and continuity can be characterized with multibeam bathymetric data, which show continuous fault scarps on the seabed (only partly reworked by currents and covered by landslides). Fault scarps also reveal the finite displacement accumulated in the Holocene-Pleistocene. We reconstructed a 3D model of the fault network and suitable geological boundaries (mainly unconformities due to the discontinuous distribution of quaternary and tertiary sediments) with implicit surface methods implemented in SKUA/GOCAD. This approach can be considered very effective and allowed reconstructing in details complex structures, like the frequent relay zones that are particularly well imaged by seafloor geomorphology. Mutual cross-cutting relationships have been recognized between fault scarps and submarine mass-wasting deposits (Holocene-Pleistocene), indicating that, at least in places, these features are coeval, hence the fault network should be considered active. At the regional scale, the 3D model allowed measuring the horizontal WSW-ENE stretching, which can be associated to the bending moment applied to the Apulian Plate by the combined effect

  19. Templated assembly of BiFeO3 nanocrystals into 3D mesoporous networks for catalytic applications

    NASA Astrophysics Data System (ADS)

    Papadas, I. T.; Subrahmanyam, K. S.; Kanatzidis, M. G.; Armatas, G. S.

    2015-03-01

    The self-assembly of uniform nanocrystals into large porous architectures is currently of immense interest for nanochemistry and nanotechnology. These materials combine the respective advantages of discrete nanoparticles and mesoporous structures. In this article, we demonstrate a facile nanoparticle templating process to synthesize a three-dimensional mesoporous BiFeO3 material. This approach involves the polymer-assisted aggregating assembly of 3-aminopropanoic acid-stabilized bismuth ferrite (BiFeO3) nanocrystals followed by thermal decomposition of the surfactant. The resulting material consists of a network of tightly connected BiFeO3 nanoparticles (~6-7 nm in diameter) and has a moderately high surface area (62 m2 g-1) and uniform pores (ca. 6.3 nm). As a result of the unique mesostructure, the porous assemblies of BiFeO3 nanoparticles show an excellent catalytic activity and chemical stability for the reduction of p-nitrophenol to p-aminophenol with NaBH4.The self-assembly of uniform nanocrystals into large porous architectures is currently of immense interest for nanochemistry and nanotechnology. These materials combine the respective advantages of discrete nanoparticles and mesoporous structures. In this article, we demonstrate a facile nanoparticle templating process to synthesize a three-dimensional mesoporous BiFeO3 material. This approach involves the polymer-assisted aggregating assembly of 3-aminopropanoic acid-stabilized bismuth ferrite (BiFeO3) nanocrystals followed by thermal decomposition of the surfactant. The resulting material consists of a network of tightly connected BiFeO3 nanoparticles (~6-7 nm in diameter) and has a moderately high surface area (62 m2 g-1) and uniform pores (ca. 6.3 nm). As a result of the unique mesostructure, the porous assemblies of BiFeO3 nanoparticles show an excellent catalytic activity and chemical stability for the reduction of p-nitrophenol to p-aminophenol with NaBH4. Electronic supplementary information (ESI

  20. Base structure consisting of an endothelialized vascular-tree network and hepatocytes for whole liver engineering.

    PubMed

    Shirakigawa, Nana; Takei, Takayuki; Ijima, Hiroyuki

    2013-12-01

    Reconstructed liver has been desired as a liver substitute for transplantation. However, reconstruction of a whole liver has not been achieved because construction of a vascular network at an organ scale is very difficult. We focused on decellularized liver (DC-liver) as an artificial scaffold for the construction of a hierarchical vascular network. In this study, we obtained DC-liver and the tubular network structure in which both portal vein and hepatic vein systems remained intact. Furthermore, endothelialization of the tubular structure in DC-liver was achieved, which prevented blood leakage from the tubular structure. In addition, hepatocytes suspended in a collagen sol were injected from the surroundings using a syringe as a suitable procedure for liver cell inoculation. In summary, we developed a base structure consisting of an endothelialized vascular-tree network and hepatocytes for whole liver engineering.

  1. Artificial neural networks to predict 3D spinal posture in reaching and lifting activities; Applications in biomechanical models.

    PubMed

    Gholipour, A; Arjmand, N

    2016-09-06

    Spinal posture is a crucial input in biomechanical models and an essential factor in ergonomics investigations to evaluate risk of low back injury. In vivo measurement of spinal posture through the common motion capture techniques is limited to equipped laboratories and thus impractical for workplace applications. Posture prediction models are therefore considered indispensable tools. This study aims to investigate the capability of artificial neural networks (ANNs) in predicting the three-dimensional posture of the spine (S1, T12 and T1 orientations) in various activities. Two ANNs were trained and tested using measurements from spinal postures of 40 male subjects by an inertial tracking device in various static reaching and lifting (of 5kg) activities. Inputs of each ANN were position of the hand load and body height, while outputs were rotations of the three foregoing segments relative to their initial orientation in the neutral upright posture. Effect of posture prediction errors on the estimated spinal loads in symmetric reaching activities was also investigated using a biomechanical model. Results indicated that both trained ANNs could generate outputs (three-dimensional orientations of the segments) from novel sets of inputs that were not included in the training processes (root-mean-squared-error (RMSE)<11° and coefficient-of-determination (R(2))>0.95). A graphic user interface was designed and made available to facilitate use of the ANNs. The difference between the mean of each measured angle in a reaching task and the corresponding angle in a lifting task remained smaller than 8°. Spinal loads estimated by the biomechanical model based on the predicted postures were on average different by < 12% from those estimated based on the exact measured postures (RMSE=173 and 35N for the L5-S1 compression and shear loads, respectively).

  2. Particle tracking approach for transport in three-dimensional discrete fracture networks: Particle tracking in 3-D DFNs

    SciTech Connect

    Makedonska, Nataliia; Painter, Scott L.; Bui, Quan M.; Gable, Carl W.; Karra, Satish

    2015-09-16

    The discrete fracture network (DFN) model is a method to mimic discrete pathways for fluid flow through a fractured low-permeable rock mass, and may be combined with particle tracking simulations to address solute transport. However, experience has shown that it is challenging to obtain accurate transport results in three-dimensional DFNs because of the high computational burden and difficulty in constructing a high-quality unstructured computational mesh on simulated fractures. We present a new particle tracking capability, which is adapted to control volume (Voronoi polygons) flow solutions on unstructured grids (Delaunay triangulations) on three-dimensional DFNs. The locally mass-conserving finite-volume approach eliminates mass balance-related problems during particle tracking. The scalar fluxes calculated for each control volume face by the flow solver are used to reconstruct a Darcy velocity at each control volume centroid. The groundwater velocities can then be continuously interpolated to any point in the domain of interest. The control volumes at fracture intersections are split into four pieces, and the velocity is reconstructed independently on each piece, which results in multiple groundwater velocities at the intersection, one for each fracture on each side of the intersection line. This technique enables detailed particle transport representation through a complex DFN structure. Verified for small DFNs, the new simulation capability enables numerical experiments on advective transport in large DFNs to be performed. As a result, we demonstrate this particle transport approach on a DFN model using parameters similar to those of crystalline rock at a proposed geologic repository for spent nuclear fuel in Forsmark, Sweden.

  3. Particle tracking approach for transport in three-dimensional discrete fracture networks: Particle tracking in 3-D DFNs

    DOE PAGES

    Makedonska, Nataliia; Painter, Scott L.; Bui, Quan M.; ...

    2015-09-16

    The discrete fracture network (DFN) model is a method to mimic discrete pathways for fluid flow through a fractured low-permeable rock mass, and may be combined with particle tracking simulations to address solute transport. However, experience has shown that it is challenging to obtain accurate transport results in three-dimensional DFNs because of the high computational burden and difficulty in constructing a high-quality unstructured computational mesh on simulated fractures. We present a new particle tracking capability, which is adapted to control volume (Voronoi polygons) flow solutions on unstructured grids (Delaunay triangulations) on three-dimensional DFNs. The locally mass-conserving finite-volume approach eliminates massmore » balance-related problems during particle tracking. The scalar fluxes calculated for each control volume face by the flow solver are used to reconstruct a Darcy velocity at each control volume centroid. The groundwater velocities can then be continuously interpolated to any point in the domain of interest. The control volumes at fracture intersections are split into four pieces, and the velocity is reconstructed independently on each piece, which results in multiple groundwater velocities at the intersection, one for each fracture on each side of the intersection line. This technique enables detailed particle transport representation through a complex DFN structure. Verified for small DFNs, the new simulation capability enables numerical experiments on advective transport in large DFNs to be performed. As a result, we demonstrate this particle transport approach on a DFN model using parameters similar to those of crystalline rock at a proposed geologic repository for spent nuclear fuel in Forsmark, Sweden.« less

  4. Synthesis of chitin nanofibers, MWCNTs and MnO2 nanoflakes 3D porous network flexible gel-film for high supercapacitive performance electrodes

    NASA Astrophysics Data System (ADS)

    Liu, Shengnan; Li, Dagang

    2017-03-01

    As the porous structure and conductivity result in improvement of electrochemical properties, the chitin nanofibers (ChNFs), multi-walled carbon nanotubes (MWCNTs) and MnO2 (manganese dioxide) nanoflakes 3D porous network core-shell structure gel-film was fabricated for flexible free-standing supercapacitor electrodes. The electrodes were characterized by various techniques and the results demonstrate that the as-synthesized ChNFs/MWCNTs/MnO2 gel-film electrodes exhibits excellent supercapacitive behaviours. The ChNFs/MWCNTs/MnO2 gel-film electrode shows a high capacitance of 295.2 mF/cm2 at 0.1 mA/cm2 in 1 M Na2SO4 aqueous electrolyte because of its 3D porous structure. Furthermore, the electrodes also showed surprising cycling stability for 5000 cycles with retention rate up to 157.14% at 1 mA/cm2. The data presents great promise in the application of high-performance flexible supercapacitors with the low cost, light-weight and excellent cycling ability.

  5. 3D Interconnected Carbon Fiber Network-Enabled Ultralong Life Na3 V2 (PO4 )3 @Carbon Paper Cathode for Sodium-Ion Batteries.

    PubMed

    Kretschmer, Katja; Sun, Bing; Zhang, Jinqiang; Xie, Xiuqiang; Liu, Hao; Wang, Guoxiu

    2017-03-01

    Sodium-ion batteries (NIBs) are an emerging technology, which can meet increasing demands for large-scale energy storage. One of the most promising cathode material candidates for sodium-ion batteries is Na3 V2 (PO4 )3 due to its high capacity, thermal stability, and sodium (Na) Superionic Conductor 3D (NASICON)-type framework. In this work, the authors have significantly improved electrochemical performance and cycling stability of Na3 V2 (PO4 )3 by introducing a 3D interconnected conductive network in the form of carbon fiber derived from ordinary paper towel. The free-standing Na3 V2 (PO4 )3 -carbon paper (Na3 V2 (PO4 )3 @CP) hybrid electrodes do not require a metallic current collector, polymeric binder, or conducting additives to function as a cathode material in an NIB system. The Na3 V2 (PO4 )3 @CP cathode demonstrates extraordinary long term cycling stability for 30 000 deep charge-discharge cycles at a current density of 2.5 mA cm(-2) . Such outstanding cycling stability can meet the stringent requirements for renewable energy storage.

  6. On the integration of protein-protein interaction networks with gene expression and 3D structural data: What can be gained?

    NASA Astrophysics Data System (ADS)

    Bertolazzi, Paola; Bock, Mary Ellen; Guerra, Concettina; Paci, Paola; Santoni, Daniele

    2014-06-01

    The biological role of proteins has been analyzed from different perspectives, initially by considering proteins as isolated biological entities, then as cooperating entities that perform their function by interacting with other molecules. There are other dimensions that are important for the complete understanding of the biological processes: time and location. However a protein is rarely annotated with temporal and spatial information. Experimental Protein-Proteins Interaction (PPI) data are static; furthermore they generally do not include transient interactions which are a considerable fraction of the interactome of many organisms. One way to incorporate temporal and condition information is to use other sources of information, such as gene expression data and 3D structural data. Here we review work done to understand the insight that can be gained by enriching PPI data with gene expression and 3D structural data. In particular, we address the following questions: Can the dynamics of a single protein or of an interaction be accurately derived from these data? Can the assembly-disassembly of protein complexes be traced over time? What type of topological changes occur in a PPI network architecture over time?

  7. Late rectal bleeding after 3D-CRT for prostate cancer: development of a neural-network-based predictive model

    NASA Astrophysics Data System (ADS)

    Tomatis, S.; Rancati, T.; Fiorino, C.; Vavassori, V.; Fellin, G.; Cagna, E.; Mauro, F. A.; Girelli, G.; Monti, A.; Baccolini, M.; Naldi, G.; Bianchi, C.; Menegotti, L.; Pasquino, M.; Stasi, M.; Valdagni, R.

    2012-03-01

    The aim of this study was to develop a model exploiting artificial neural networks (ANNs) to correlate dosimetric and clinical variables with late rectal bleeding in prostate cancer patients undergoing radical radiotherapy and to compare the ANN results with those of a standard logistic regression (LR) analysis. 718 men included in the AIROPROS 0102 trial were analyzed. This multicenter protocol was characterized by the prospective evaluation of rectal toxicity, with a minimum follow-up of 36 months. Radiotherapy doses were between 70 and 80 Gy. Information was recorded for comorbidity, previous abdominal surgery, use of drugs and hormonal therapy. For each patient, a rectal dose-volume histogram (DVH) of the whole treatment was recorded and the equivalent uniform dose (EUD) evaluated as an effective descriptor of the whole DVH. Late rectal bleeding of grade ≥ 2 was considered to define positive events in this study (52 of 718 patients). The overall population was split into training and verification sets, both of which were involved in model instruction, and a test set, used to evaluate the predictive power of the model with independent data. Fourfold cross-validation was also used to provide realistic results for the full dataset. The LR was performed on the same data. Five variables were selected to predict late rectal bleeding: EUD, abdominal surgery, presence of hemorrhoids, use of anticoagulants and androgen deprivation. Following a receiver operating characteristic analysis of the independent test set, the areas under the curves (AUCs) were 0.704 and 0.655 for ANN and LR, respectively. When evaluated with cross-validation, the AUC was 0.714 for ANN and 0.636 for LR, which differed at a significance level of p = 0.03. When a practical discrimination threshold was selected, ANN could classify data with sensitivity and specificity both equal to 68.0%, whereas these values were 61.5% for LR. These data provide reasonable evidence that results obtained with

  8. 3d-3d correspondence revisited

    DOE PAGES

    Chung, Hee -Joong; Dimofte, Tudor; Gukov, Sergei; ...

    2016-04-21

    In fivebrane compactifications on 3-manifolds, we point out the importance of all flat connections in the proper definition of the effective 3d N = 2 theory. The Lagrangians of some theories with the desired properties can be constructed with the help of homological knot invariants that categorify colored Jones polynomials. Higgsing the full 3d theories constructed this way recovers theories found previously by Dimofte-Gaiotto-Gukov. As a result, we also consider the cutting and gluing of 3-manifolds along smooth boundaries and the role played by all flat connections in this operation.

  9. Development of hydraulic fracture network propagation model in shale gas reservoirs: 2D, single-phase and 3D, multi-phase model development, parametric studies, and verification

    NASA Astrophysics Data System (ADS)

    Ahn, Chong Hyun

    The most effective method for stimulating shale gas reservoirs is a massive hydraulic fracture treatment. Recent analysis using microseismic technology have shown that complex fracture networks are commonly created in the field as a result of the stimulation of shale wells. The interaction between pre-existing natural fractures and the propagating hydraulic fracture is a critical factor affecting the created complex fracture network; however, many existing numerical models simulate only planar hydraulic fractures without considering the pre-existing fractures in the formation. The shale formations already contain a large number of natural fractures, so an accurate fracture propagation model needs to be developed to optimize the fracturing process. In this research, we first characterized the mechanics of hydraulic fracturing and fluid flow in the shale gas reservoir. Then, a 2D, single-phase numerical model and a 3D, 2-phase coupled model were developed, which integrate dynamic fracture propagation, interactions between hydraulic fractures and pre-existing natural fractures, fracture fluid leakoff, and fluid flow in a petroleum reservoir. By using the developed model, we conducted parametric studies to quantify the effects of treatment rate, treatment size, fracture fluid viscosity, differential horizontal stress, natural fracture spacing, fracture toughness, matrix permeability, and proppant size on the geometry of the hydraulic fracture network. The findings elucidate important trends in hydraulic fracturing of shale reservoirs that are useful in improving the design of treatments for specific reservoir settings.

  10. SF3M software: 3-D photo-reconstruction for non-expert users and its application to a gully network

    NASA Astrophysics Data System (ADS)

    Castillo, C.; James, M. R.; Redel-Macías, M. D.; Pérez, R.; Gómez, J. A.

    2015-08-01

    Three-dimensional photo-reconstruction (PR) techniques have been successfully used to produce high-resolution surface models for different applications and over different spatial scales. However, innovative approaches are required to overcome some limitations that this technique may present for field image acquisition in challenging scene geometries. Here, we evaluate SF3M, a new graphical user interface for implementing a complete PR workflow based on freely available software (including external calls to VisualSFM and CloudCompare), in combination with a low-cost survey design for the reconstruction of a several-hundred-metres-long gully network. SF3M provided a semi-automated workflow for 3-D reconstruction requiring ~ 49 h (of which only 17 % required operator assistance) for obtaining a final gully network model of > 17 million points over a gully plan area of 4230 m2. We show that a walking itinerary along the gully perimeter using two lightweight automatic cameras (1 s time-lapse mode) and a 6 m long pole is an efficient method for 3-D monitoring of gullies, at a low cost (~ EUR 1000 budget for the field equipment) and the time requirements (~ 90 min for image collection). A mean error of 6.9 cm at the ground control points was found, mainly due to model deformations derived from the linear geometry of the gully and residual errors in camera calibration. The straightforward image collection and processing approach can be of great benefit for non-expert users working on gully erosion assessment.

  11. 3-D RESERVOIR AND STOCHASTIC FRACTURE NETWORK MODELING FOR ENHANCED OIL RECOVERY, CIRCLE RIDGE PHOSPHORIA/TENSLEEP RESERVOIR, WIND RIVER RESERVATION, ARAPAHO AND SHOSHONE TRIBES, WYOMING

    SciTech Connect

    Paul La Pointe; Jan Hermanson; Robert Parney; Thorsten Eiben; Mike Dunleavy; Ken Steele; John Whitney; Darrell Eubanks; Roger Straub

    2002-11-18

    This report describes the results made in fulfillment of contract DE-FG26-00BC15190, ''3-D Reservoir and Stochastic Fracture Network Modeling for Enhanced Oil Recovery, Circle Ridge Phosphoria/Tensleep Reservoir, Wind River Reservation, Arapaho and Shoshone Tribes, Wyoming''. The goal of this project is to improve the recovery of oil from the Tensleep and Phosphoria Formations in Circle Ridge Oilfield, located on the Wind River Reservation in Wyoming, through an innovative integration of matrix characterization, structural reconstruction, and the characterization of the fracturing in the reservoir through the use of discrete fracture network models. Fields in which natural fractures dominate reservoir permeability, such as the Circle Ridge Field, often experience sub-optimal recovery when recovery processes are designed and implemented that do not take advantage of the fracture systems. For example, a conventional waterflood in a main structural block of the Field was implemented and later suspended due to unattractive results. It is estimated that somewhere less than 20% of the OOIP in the Circle Ridge Field have been recovered after more than 50 years' production. Marathon Oil Company identified the Circle Ridge Field as an attractive candidate for several advanced IOR processes that explicitly take advantage of the natural fracture system. These processes require knowledge of the distribution of matrix porosity, permeability and oil saturations; and understanding of where fracturing is likely to be well-developed or poorly developed; how the fracturing may compartmentalize the reservoir; and how smaller, relatively untested subthrust fault blocks may be connected to the main overthrust block. For this reason, the project focused on improving knowledge of the matrix properties, the fault block architecture and to develop a model that could be used to predict fracture intensity, orientation and fluid flow/connectivity properties. Knowledge of matrix properties was

  12. Indian-ink perfusion based method for reconstructing continuous vascular networks in whole mouse brain.

    PubMed

    Xue, Songchao; Gong, Hui; Jiang, Tao; Luo, Weihua; Meng, Yuanzheng; Liu, Qian; Chen, Shangbin; Li, Anan

    2014-01-01

    The topology of the cerebral vasculature, which is the energy transport corridor of the brain, can be used to study cerebral circulatory pathways. Limited by the restrictions of the vascular markers and imaging methods, studies on cerebral vascular structure now mainly focus on either observation of the macro vessels in a whole brain or imaging of the micro vessels in a small region. Simultaneous vascular studies of arteries, veins and capillaries have not been achieved in the whole brain of mammals. Here, we have combined the improved gelatin-Indian ink vessel perfusion process with Micro-Optical Sectioning Tomography for imaging the vessel network of an entire mouse brain. With 17 days of work, an integral dataset for the entire cerebral vessels was acquired. The voxel resolution is 0.35×0.4×2.0 µm(3) for the whole brain. Besides the observations of fine and complex vascular networks in the reconstructed slices and entire brain views, a representative continuous vascular tracking has been demonstrated in the deep thalamus. This study provided an effective method for studying the entire macro and micro vascular networks of mouse brain simultaneously.

  13. Indian-Ink Perfusion Based Method for Reconstructing Continuous Vascular Networks in Whole Mouse Brain

    PubMed Central

    Xue, Songchao; Gong, Hui; Jiang, Tao; Luo, Weihua; Meng, Yuanzheng; Liu, Qian; Chen, Shangbin; Li, Anan

    2014-01-01

    The topology of the cerebral vasculature, which is the energy transport corridor of the brain, can be used to study cerebral circulatory pathways. Limited by the restrictions of the vascular markers and imaging methods, studies on cerebral vascular structure now mainly focus on either observation of the macro vessels in a whole brain or imaging of the micro vessels in a small region. Simultaneous vascular studies of arteries, veins and capillaries have not been achieved in the whole brain of mammals. Here, we have combined the improved gelatin-Indian ink vessel perfusion process with Micro-Optical Sectioning Tomography for imaging the vessel network of an entire mouse brain. With 17 days of work, an integral dataset for the entire cerebral vessels was acquired. The voxel resolution is 0.35×0.4×2.0 µm3 for the whole brain. Besides the observations of fine and complex vascular networks in the reconstructed slices and entire brain views, a representative continuous vascular tracking has been demonstrated in the deep thalamus. This study provided an effective method for studying the entire macro and micro vascular networks of mouse brain simultaneously. PMID:24498247

  14. 3D and Education

    NASA Astrophysics Data System (ADS)

    Meulien Ohlmann, Odile

    2013-02-01

    Today the industry offers a chain of 3D products. Learning to "read" and to "create in 3D" becomes an issue of education of primary importance. 25 years professional experience in France, the United States and Germany, Odile Meulien set up a personal method of initiation to 3D creation that entails the spatial/temporal experience of the holographic visual. She will present some different tools and techniques used for this learning, their advantages and disadvantages, programs and issues of educational policies, constraints and expectations related to the development of new techniques for 3D imaging. Although the creation of display holograms is very much reduced compared to the creation of the 90ies, the holographic concept is spreading in all scientific, social, and artistic activities of our present time. She will also raise many questions: What means 3D? Is it communication? Is it perception? How the seeing and none seeing is interferes? What else has to be taken in consideration to communicate in 3D? How to handle the non visible relations of moving objects with subjects? Does this transform our model of exchange with others? What kind of interaction this has with our everyday life? Then come more practical questions: How to learn creating 3D visualization, to learn 3D grammar, 3D language, 3D thinking? What for? At what level? In which matter? for whom?

  15. Photoacoustic imaging of vascular networks in transgenic mice

    NASA Astrophysics Data System (ADS)

    Laufer, J. G.; Cleary, J. O.; Zhang, E. Z.; Lythgoe, M. F.; Beard, P. C.

    2010-02-01

    The preferential absorption of near infrared light by blood makes photoacoustic imaging well suited to visualising vascular structures in soft tissue. In addition, the spectroscopic specificity of tissue chromophores can be exploited by acquiring images at multiple excitation wavelengths. This allows the quantification of endogenous chromophores, such as oxy- and deoxyhaemoglobin, and hence blood oxygenation, and the detection of exogenous chromophores, such as functionalised contrast agents. More importantly, this approach has the potential to visualise the spatial distribution of low concentrations of functionalised contrast agents against the strong background absorption of the endogenous chromophores. This has a large number of applications in the life sciences. One example is the structural and functional phenotyping of transgenic mice for the study of the genetic origins of vascular malformations, such as heart defects. In this study, photoacoustic images of mouse embryos have been acquired to study the development of the vasculature following specific genetic knockouts.

  16. Tropoelastin coated PLLA-PLGA scaffolds promote vascular network formation.

    PubMed

    Landau, Shira; Szklanny, Ariel A; Yeo, Giselle C; Shandalov, Yulia; Kosobrodova, Elena; Weiss, Anthony S; Levenberg, Shulamit

    2017-04-01

    The robust repair of large wounds and tissue defects relies on blood flow. This vascularization is the major challenge faced by tissue engineering on the path to forming thick, implantable tissue constructs. Without this vasculature, oxygen and nutrients cannot reach the cells located far from host blood vessels. To make viable constructs, tissue engineering takes advantage of the mechanical properties of synthetic materials, while combining them with ECM proteins to create a natural environment for the tissue-specific cells. Tropoelastin, the precursor of the elastin, is the ECM protein responsible for elasticity in diverse tissues, including robust blood vessels. Here, we seeded endothelial cells with supporting cells on PLLA/PLGA scaffolds treated with tropoelastin, and examined the morphology, expansion and maturity of the newly formed vessels. Our results demonstrate that the treated scaffolds elicit a more expanded, complex and developed vascularization in comparison to the untreated group. Implantation of tropoelastin-treated scaffolds into mouse abdominal muscle resulted in enhanced perfusion of the penetrating vasculature and improved integration. This study points to the great potential of these combined materials in promoting the vascularization of implanted engineered constructs, which can be further exploited in the fabrication of clinically relevant engineered tissues.

  17. Horizontal structure and propagation characteristics of mesospheric gravity waves observed by Antarctic Gravity Wave Imaging/Instrument Network (ANGWIN), using a 3-D spectral analysis technique

    NASA Astrophysics Data System (ADS)

    Matsuda, Takashi S.; Nakamura, Takuji; Murphy, Damian; Tsutsumi, Masaki; Moffat-Griffin, Tracy; Zhao, Yucheng; Pautet, Pierre-Dominique; Ejiri, Mitsumu K.; Taylor, Michael

    2016-07-01

    ANGWIN (Antarctic Gravity Wave Imaging/Instrument Network) is an international airglow imager/instrument network in the Antarctic, which commenced observations in 2011. It seeks to reveal characteristics of mesospheric gravity waves, and to study sources, propagation, breaking of the gravity waves over the Antarctic and the effects on general circulation and upper atmosphere. In this study, we compared distributions of horizontal phase velocity of the gravity waves at around 90 km altitude observed in the mesospheric airglow imaging over different locations using our new statistical analysis method of 3-D Fourier transform, developed by Matsuda et al. (2014). Results from the airglow imagers at four stations at Syowa (69S, 40E), Halley (76S, 27W), Davis (69S, 78E) and McMurdo (78S, 156E) out of the ANGWIN imagers have been compared, for the observation period between April 6 and May 21 in 2013. In addition to the horizontal distribution of propagation and phase speed, gravity wave energies have been quantitatively compared, indicating a smaller GW activity in higher latitude stations. We further investigated frequency dependence of gravity wave propagation direction, as well as nightly variation of the gravity wave direction and correlation with the background wind variations. We found that variation of propagation direction is partly due to the effect of background wind in the middle atmosphere, but variation of wave sources could play important role as well. Secondary wave generation is also needed to explain the observed results.

  18. Single-Crystal to Single-Crystal Phase Transition and Segmented Thermochromic Luminescence in a Dynamic 3D Interpenetrated Ag(I) Coordination Network.

    PubMed

    Yan, Zhi-Hao; Li, Xiao-Yu; Liu, Li-Wei; Yu, Si-Qi; Wang, Xing-Po; Sun, Di

    2016-02-01

    A new 3D Ag(I)-based coordination network, [Ag2(pz)(bdc)·H2O]n (1; pz = pyrazine and H2bdc = benzene-1,3-dicarboxylic acid), was constructed by one-pot assembly and structurally established by single-crystal X-ray diffraction at different temperatures. Upon cooling from 298 to 93 K, 1 undergo an interesting single-crystal to single-crystal phase transition from orthorhombic Ibca (Z = 16) to Pccn (Z = 32) at around 148 K. Both phases show a rare 2-fold-interpenetrated 4-connected lvt network but incorporate different [Ag2(COO)2] dimeric secondary building units. It is worth mentioning that complex 1 shows red- and blue-shifted luminescences in the 290-170 and 140-80 K temperature ranges, respectively. The variable-temperature single-crystal X-ray crystallographic studies suggest that the argentophilic interactions and rigidity of the structure dominated the luminescence chromism trends at the respective temperature ranges. Upon being mechanically ground, 1 exhibits a slight mechanoluminescence red shift from 589 to 604 nm at 298 K.

  19. Development of Embedded Vascular Networks in FRP for Active/Passive Thermal Management

    DTIC Science & Technology

    2015-04-01

    turbine compressor blade. The vascular network topology in a structural component requires careful consideration to balance thermal efficiency between...to   heat   transfer   properties   for   a   gas   turbine   compressor   blade.   The   vascular   network   topology... turbine ].  This  includes  modeling  the   fluid  mechanics  and  thermodynamics  of   the  air   flow  within   the

  20. Extracting vascular networks under physiological constraints via integer programming.

    PubMed

    Rempfler, Markus; Schneider, Matthias; Ielacqua, Giovanna D; Xiao, Xianghui; Stock, Stuart R; Klohs, Jan; Székely, Gábor; Andres, Bjoern; Menze, Bjoern H

    2014-01-01

    We introduce an integer programming-based approach to vessel network extraction that enforces global physiological constraints on the vessel structure and learn this prior from a high-resolution reference network. The method accounts for both image evidence and geometric relationships between vessels by formulating and solving an integer programming problem. Starting from an over-connected network, it is pruning vessel stumps and spurious connections by evaluating bifurcation angle and connectivity of the graph. We utilize a high-resolution micro computed tomography (μCT) dataset of a cerebrovascular corrosion cast to obtain a reference network, perform experiments on micro magnetic resonance angiography (μMRA) images of mouse brains and discuss properties of the networks obtained under different tracking and pruning approaches.

  1. Functional organization of the vascular network of Physarum polycephalum

    NASA Astrophysics Data System (ADS)

    Baumgarten, Werner; Hauser, Marcus J. B.

    2013-04-01

    The plasmodium of the slime mould Physarum polycephalum forms a transportation network of veins, in which protoplasm is transported due to peristaltic pumping. This network forms a planar, weighted, undirected graph that, for the first time, can be extracted automatically from photographs or movies. Thus, data from real transportation networks have now become available for the investigation of network properties. We determine the local drag of the vein segments and use these data to calculate the transport efficiency. We unravel which veins form the backbone of the transportation network by using a centrality measure from graph theory. The principal vein segments lie on relatively ample cycles of veins, and the most important segments are those that belong simultaneously to two of these principal cycles. Each principal cycle contains a series of smaller cycles of veins of lower transport efficiency, thus reflecting the hierarchical and self-similar structure of the transportation network. Finally, we calculate accessibility maps that show how easily different nodes of the network may be reached from a given reference node.

  2. 3D Imaging.

    ERIC Educational Resources Information Center

    Hastings, S. K.

    2002-01-01

    Discusses 3 D imaging as it relates to digital representations in virtual library collections. Highlights include X-ray computed tomography (X-ray CT); the National Science Foundation (NSF) Digital Library Initiatives; output peripherals; image retrieval systems, including metadata; and applications of 3 D imaging for libraries and museums. (LRW)

  3. Insertion of a single-molecule magnet inside a ferromagnetic lattice based on a 3D bimetallic oxalate network: towards molecular analogues of permanent magnets.

    PubMed

    Clemente-León, Miguel; Coronado, Eugenio; Gómez-García, Carlos J; López-Jordà, Maurici; Camón, Agustín; Repollés, Ana; Luis, Fernando

    2014-02-03

    The insertion of the single-molecule magnet (SMM) [Mn(III)(salen)(H2O)]2(2+) (salen(2-) = N,N'-ethylenebis-(salicylideneiminate)) into a ferromagnetic bimetallic oxalate network affords the hybrid compound [Mn(III)(salen)(H2O)]2[Mn(II)Cr(III)(ox)3]2⋅(CH3OH)⋅(CH3CN)2 (1). This cationic Mn2 cluster templates the growth of crystals formed by an unusual achiral 3D oxalate network. The magnetic properties of this hybrid magnet are compared with those of the analogous compounds [Mn(III)(salen)(H2O)]2[Zn(II)Cr(III)(ox)3]2⋅(CH3OH)⋅(CH3CN)2 (2) and [In(III)(sal2-trien)][Mn(II)Cr(III)(ox)3]⋅(H2O)0.25⋅(CH3OH)0.25⋅(CH3CN)0.25 (3), which are used as reference compounds. In 2 it has been shown that the magnetic isolation of the Mn2 clusters provided by their insertion into a paramagnetic oxalate network of Cr(III) affords a SMM behavior, albeit with blocking temperatures well below 500 mK even for frequencies as high as 160 kHz. In 3 the onset of ferromagnetism in the bimetallic Mn(II) Cr(III) network is observed at Tc = 5 K. Finally, in the hybrid compound 1 the interaction between the two magnetic networks leads to the antiparallel arrangement of their respective magnetizations, that is, to a ferrimagnetic phase. This coupling induces also important changes on the magnetic properties of 1 with respect to those of the reference compounds 2 and 3. In particular, compound 1 shows a large magnetization hysteresis below 1 K, which is in sharp contrast with the near-reversible magnetizations that the SMMs and the oxalate ferromagnetic lattice show under the same conditions.

  4. 3D Subharmonic Ultrasound Imaging In Vitro and In Vivo

    PubMed Central

    Eisenbrey, John R.; Sridharan, Anush; Machado, Priscilla; Zhao, Hongjia; Halldorsdottir, Valgerdur G.; Dave, Jaydev K.; Liu, Ji-Bin; Park, Suhyun; Dianis, Scott; Wallace, Kirk; Thomenius, Kai E.; Forsberg, F.

    2012-01-01

    Rationale and Objectives While contrast-enhanced ultrasound imaging techniques such as harmonic imaging (HI) have evolved to reduce tissue signals using the nonlinear properties of the contrast agent, levels of background suppression have been mixed. Subharmonic imaging (SHI) offers near-complete tissue suppression by centering the receive bandwidth at half the transmitting frequency. In this work we demonstrate the feasibility of 3D SHI and compare it to 3D HI. Materials and Methods 3D HI and SHI were implemented on a Logiq 9 ultrasound scanner (GE Healthcare, Milwaukee, Wisconsin) with a 4D10L probe. Four-cycle SHI was implemented to transmit at 5.8 MHz and receive at 2.9 MHz, while 2-cycle HI was implemented to transmit at 5 MHz and receive at 10 MHz. The ultrasound contrast agent Definity (Lantheus Medical Imaging, North Billerica, MA) was imaged within a flow phantom and the lower pole of two canine kidneys in both HI and SHI modes. Contrast to tissue ratios (CTR) and rendered images were compared offline. Results SHI resulted in significant improvement in CTR levels relative to HI both in vitro (12.11±0.52 vs. 2.67±0.77, p<0.001) and in vivo (5.74±1.92 vs. 2.40±0.48, p=0.04). Rendered 3D SHI images provided better tissue suppression and a greater overall view of vessels in a flow phantom and canine renal vasculature. Conclusions The successful implementation of SHI in 3D allows imaging of vascular networks over a heterogeneous sample volume and should improve future diagnostic accuracy. Additionally, 3D SHI provides improved CTR values relative to 3D HI. PMID:22464198

  5. Individual 3D region-of-interest atlas of the human brain: automatic training point extraction for neural-network-based classification of brain tissue types

    NASA Astrophysics Data System (ADS)

    Wagenknecht, Gudrun; Kaiser, Hans-Juergen; Obladen, Thorsten; Sabri, Osama; Buell, Udalrich

    2000-04-01

    Individual region-of-interest atlas extraction consists of two main parts: T1-weighted MRI grayscale images are classified into brain tissues types (gray matter (GM), white matter (WM), cerebrospinal fluid (CSF), scalp/bone (SB), background (BG)), followed by class image analysis to define automatically meaningful ROIs (e.g., cerebellum, cerebral lobes, etc.). The purpose of this algorithm is the automatic detection of training points for neural network-based classification of brain tissue types. One transaxial slice of the patient data set is analyzed. Background separation is done by simple region growing. A random generator extracts spatially uniformly distributed training points of class BG from that region. For WM training point extraction (TPE), the homogeneity operator is the most important. The most homogeneous voxels define the region for WM TPE. They are extracted by analyzing the cumulative histogram of the homogeneity operator response. Assuming a Gaussian gray value distribution in WM, a random number is used as a probabilistic threshold for TPE. Similarly, non-white matter and non-background regions are analyzed for GM and CSF training points. For SB TPE, the distance from the BG region is an additional feature. Simulated and real 3D MRI images are analyzed and error rates for TPE and classification calculated.

  6. Real-time and in situ enzyme inhibition assay for the flux of hydrogen sulfide based on 3D interwoven AuPd-reduced graphene oxide network.

    PubMed

    Yang, Hongmei; Zhang, Yan; Li, Li; Sun, Guoqiang; Zhang, Lina; Ge, Shenguang; Yu, Jinghua

    2017-01-15

    A highly sensitive enzyme inhibition analytical platform was established firstly based on paper-supported 3D interwoven AuPd-reduced graphene oxide (rGO) network (NW) for real-time and in situ analysis of H2S released from cancer cells. The novel paper working electrode (PWE) with large electric conductivity, effective surface area and unusual biocompatibility, was fabricated via controllably assembling rGO and AuPd alloy nanoparticles onto the surface of cellulose fibers and into the macropores of paper, which was employed as affinity matrix for horseradish peroxidase (HRP) loading and cells capture. It was the superior performances of AuPd-rGO-NW-PWE that made the loaded HRP exhibit excellent electrocatalytic behavior to H2O2, bring the rapid enhancement of current response. After releasing H2S, the current response would be obviously decreased due to the efficient inhibition effect of H2S on HRP activity. The inhibition degree of HRP was directly proportional to the amount of H2S, and so, the flux of H2S released from cells could be recorded availably. Thus, this proposed enzyme inhibition cyto-sensor could be applied for efficient recording of the release of H2S, which had potential utility to cellular biology and pathophysiology.

  7. Artificial Neural Networks as a powerful numerical tool to classify specific features of a tooth based on 3D scan data.

    PubMed

    Raith, Stefan; Vogel, Eric Per; Anees, Naeema; Keul, Christine; Güth, Jan-Frederik; Edelhoff, Daniel; Fischer, Horst

    2017-01-01

    Chairside manufacturing based on digital image acquisition is gainingincreasing importance in dentistry. For the standardized application of these methods, it is paramount to have highly automated digital workflows that can process acquired 3D image data of dental surfaces. Artificial Neural Networks (ANNs) arenumerical methods primarily used to mimic the complex networks of neural connections in the natural brain. Our hypothesis is that an ANNcan be developed that is capable of classifying dental cusps with sufficient accuracy. This bears enormous potential for an application in chairside manufacturing workflows in the dental field, as it closes the gap between digital acquisition of dental geometries and modern computer-aided manufacturing techniques.Three-dimensional surface scans of dental casts representing natural full dental arches were transformed to range image data. These data were processed using an automated algorithm to detect candidates for tooth cusps according to salient geometrical features. These candidates were classified following common dental terminology and used as training data for a tailored ANN.For the actual cusp feature description, two different approaches were developed and applied to the available data: The first uses the relative location of the detected cusps as input data and the second method directly takes the image information given in the range images. In addition, a combination of both was implemented and investigated.Both approaches showed high performance with correct classifications of 93.3% and 93.5%, respectively, with improvements by the combination shown to be minor.This article presents for the first time a fully automated method for the classification of teeththat could be confirmed to work with sufficient precision to exhibit the potential for its use in clinical practice,which is a prerequisite for automated computer-aided planning of prosthetic treatments with subsequent automated chairside manufacturing.

  8. Imaging and 3D reconstruction of cerebrovascular structures in embryonic zebrafish.

    PubMed

    Ethell, Douglas W; Cameron, D Joshua

    2014-04-22

    Zebrafish are a powerful tool to study developmental biology and pathology in vivo. The small size and relative transparency of zebrafish embryos make them particularly useful for the visual examination of processes such as heart and vascular development. In several recent studies transgenic zebrafish that express EGFP in vascular endothelial cells were used to image and analyze complex vascular networks in the brain and retina, using confocal microscopy. Descriptions are provided to prepare, treat and image zebrafish embryos that express enhanced green fluorescent protein (EGFP), and then generate comprehensive 3D renderings of the cerebrovascular system. Protocols include the treatment of embryos, confocal imaging, and fixation protocols that preserve EGFP fluorescence. Further, useful tips on obtaining high-quality images of cerebrovascular structures, such as removal the eye without damaging nearby neural tissue are provided. Potential pitfalls with confocal imaging are discussed, along with the steps necessary to generate 3D reconstructions from confocal image stacks using freely available open source software.

  9. AE3D

    SciTech Connect

    Spong, Donald A

    2016-06-20

    AE3D solves for the shear Alfven eigenmodes and eigenfrequencies in a torodal magnetic fusion confinement device. The configuration can be either 2D (e.g. tokamak, reversed field pinch) or 3D (e.g. stellarator, helical reversed field pinch, tokamak with ripple). The equations solved are based on a reduced MHD model and sound wave coupling effects are not currently included.

  10. Real-time prediction and gating of respiratory motion in 3D space using extended Kalman filters and Gaussian process regression network.

    PubMed

    Bukhari, W; Hong, S-M

    2016-03-07

    The prediction as well as the gating of respiratory motion have received much attention over the last two decades for reducing the targeting error of the radiation treatment beam due to respiratory motion. In this article, we present a real-time algorithm for predicting respiratory motion in 3D space and realizing a gating function without pre-specifying a particular phase of the patient's breathing cycle. The algorithm, named EKF-GPRN(+) , first employs an extended Kalman filter (EKF) independently along each coordinate to predict the respiratory motion and then uses a Gaussian process regression network (GPRN) to correct the prediction error of the EKF in 3D space. The GPRN is a nonparametric Bayesian algorithm for modeling input-dependent correlations between the output variables in multi-output regression. Inference in GPRN is intractable and we employ variational inference with mean field approximation to compute an approximate predictive mean and predictive covariance matrix. The approximate predictive mean is used to correct the prediction error of the EKF. The trace of the approximate predictive covariance matrix is utilized to capture the uncertainty in EKF-GPRN(+) prediction error and systematically identify breathing points with a higher probability of large prediction error in advance. This identification enables us to pause the treatment beam over such instances. EKF-GPRN(+) implements a gating function by using simple calculations based on the trace of the predictive covariance matrix. Extensive numerical experiments are performed based on a large database of 304 respiratory motion traces to evaluate EKF-GPRN(+) . The experimental results show that the EKF-GPRN(+) algorithm reduces the patient-wise prediction error to 38%, 40% and 40% in root-mean-square, compared to no prediction, at lookahead lengths of 192 ms, 384 ms and 576 ms, respectively. The EKF-GPRN(+) algorithm can further reduce the prediction error by employing the gating

  11. 3D-calibration of three- and four-sensor hot-film probes based on collocated sonic using neural networks

    NASA Astrophysics Data System (ADS)

    Kit, Eliezer; Liberzon, Dan

    2016-09-01

    High resolution measurements of turbulence in the atmospheric boundary layer (ABL) are critical to the understanding of physical processes and parameterization of important quantities, such as the turbulent kinetic energy dissipation. Low spatio-temporal resolution of standard atmospheric instruments, sonic anemometers and LIDARs, limits their suitability for fine-scale measurements of ABL. The use of miniature hot-films is an alternative technique, although such probes require frequent calibration, which is logistically untenable in field setups. Accurate and truthful calibration is crucial for the multi-hot-films applications in atmospheric studies, because the ability to conduct calibration in situ ultimately determines the turbulence measurements quality. Kit et al (2010 J. Atmos. Ocean. Technol. 27 23-41) described a novel methodology for calibration of hot-film probes using a collocated sonic anemometer combined with a neural network (NN) approach. An important step in the algorithm is the generation of a calibration set for NN training by an appropriate low-pass filtering of the high resolution voltages, measured by the hot-film-sensors and low resolution velocities acquired by the sonic. In Kit et al (2010 J. Atmos. Ocean. Technol. 27 23-41), Kit and Grits (2011 J. Atmos. Ocean. Technol. 28 104-10) and Vitkin et al (2014 Meas. Sci. Technol. 25 75801), the authors reported on successful use of this approach for in situ calibration, but also on the method’s limitations and restricted range of applicability. In their earlier work, a jet facility and a probe, comprised of two orthogonal x-hot-films, were used for calibration and for full dataset generation. In the current work, a comprehensive laboratory study of 3D-calibration of two multi-hot-film probes (triple- and four-sensor) using a grid flow was conducted. The probes were embedded in a collocated sonic, and their relative pitch and yaw orientation to the mean flow was changed by means of motorized

  12. Decellularized liver as a practical scaffold with a vascular network template for liver tissue engineering.

    PubMed

    Shirakigawa, Nana; Ijima, Hiroyuki; Takei, Takayuki

    2012-11-01

    The construction of a functional liver-tissue equivalent using tissue engineering is a very important goal because the liver is a central organ in the body. However, the construction of functional organ-scale liver tissue is impossible because it requires a high-density blood vessel network. In this study, we focused on decellularization technology to solve this problem. Decellularized liver tissue with a fine vascular tree network template was obtained using Triton X-100. The distance between each vascular structure was less than 1 mm. Endothelialization of the blood vessel network with human umbilical vein endothelial cells (HUVECs) was successfully performed without any leakage of HUVECs to the outside of the vessel structure. Furthermore, hepatocytes/spheroids could be located around the blood vessel structure. This study indicates that decellularized liver tissue is a potential scaffold for creating a practical liver tissue using tissue engineering technology.

  13. Engineering Robust and Functional Vascular Networks in Vivo with Human Adult and Cord Blood-Derived Progenitor Cells

    DTIC Science & Technology

    2008-12-01

    endothelial progenitor cells (EPCs) have the required proliferative and vasculogenic activity to create vascular networks in vivo. To test this...networks in vivo. To test this, EPCs isolated from human umbilical cord blood or from adult peripheral blood as described(Melero-Martin et al. 2007...hypothesized that abEPCs combined with bmMPCs at an optimized ratio would yield high density vascular networks. Therefore, we tested abEPCs + bmMPCs in

  14. A 3D oxalate-based network as a precursor for the CoMn₂O₄ spinel: synthesis and structural and magnetic studies.

    PubMed

    Habjanič, Jelena; Jurić, Marijana; Popović, Jasminka; Molčanov, Krešimir; Pajić, Damir

    2014-09-15

    A novel heterometallic oxalate-based compound of the formula {[Co(bpy)3][Mn2(C2O4)3]·H2O}n (1; bpy = 2,2'-bipyridine) was synthesized and characterized by elemental analysis, IR spectroscopy, single-crystal X-ray diffraction (XRD), and magnetization measurement. The molecular structure of 1 is made of a three-dimensional (3D) anionic network, [Mn2(C2O4)3]n(2n-), and tris-chelated cations [Co(bpy)3](2+) occupying the vacancies of the framework. Splitting between the zero-field-cooled (ZFC) and field-cooled (FC) branches of susceptibility below the small peak at 13 K indicates magnetic ordering. Compound 1 was used as a single-source precursor for the formation of the mixed-metal oxide CoMn2O4. This conversion via thermal decomposition was explored by thermal analysis (TGA and DTA), IR spectroscopy, powder XRD, and magnetic susceptibility measurement. From refined structural parameters, it could be seen that the spinel obtained by the thermal treatment of 1 at 800 °C is characterized by the inversion parameter δ = 21%, and therefore the structural formula at room temperature can be written as (tet)[Co(0.79)Mn(0.21)](oct)[Co(0.105)Mn(0.895)]2O4. The temperature dependence of magnetization for CoMn2O4 points to at least three magnetic phases: the ferrimagnetic state is observed below 83 K, and up to 180 K blocking of the magnetic moments of nanocrystallites of 31 nm appears, transforming to paramagnetic-like behavior above 180 K. Microstructural characterization of the CoMn2O4 sample was carried out by means of XRD line-broadening analysis.

  15. Encapsulated discrete octameric water cluster, 1D water tape, and 3D water aggregate network in diverse MOFs based on bisimidazolium ligands

    NASA Astrophysics Data System (ADS)

    Shi, Ruo-Bing; Pi, Min; Jiang, Shuang-Shuang; Wang, Yuan-Yuan; Jin, Chuan-Ming

    2014-08-01

    Four new metal-organic frameworks, [Zn(2-mBIM)2(SO3CF3)2·(H2O)4] (1), [Zn(BMIE)(1,4-BDC)]·(H2O)3 (2), [Cd(BIM)2(OH)(H2O)2(PF6)]·(H2O)4 (3), and [Cd(PA-BIM)2 (ClO4)2]·11.33H2O (4) (2-mBIM = bis(2-methylimidazol-1-yl)methane, BMIE = 1,2-bis[1-(2-methylimidazole)-diethoxy]ethane, BIM = bis(imidazol-1-yl)methane, and PA-BIM = 1,1-bis [(2-phenylazo)imidazol-1-yl]methane) have been prepared and structurally characterized. Complex 1 exhibits an infinite 1D cationic beaded-chain structure, which encapsulated discrete octameric water clusters that are comprised of a chair-like hexameric water cluster with two extra water molecules dangling on two diagonal vertices of the chair. Complex 2 forms a 1D infinite zigzag metal-organic chain structure with a 1D T4(0)A(4) water tape. Complexes 3 show a 2D grid-like sheet structure with the 1D water tape T4(0)A(0)2(0) motif. Complex 4 is a porous 3D MOF with tetrahedron-coordinated Cd(II) centers and trans-conformation PA-BIM ligands. These holes are occupied by a fascinating three-dimensional water clathrate network, which consists of cage-shaped structural tetradecameric water cluster (H2O)14 units and six independent bridged water molecules. The results suggest that the bisimidazolium ligands and anions play crucial roles in the formation of the different host structures and different guest water aggregations. Additionally, the thermal stabilities and photoluminescence spectra of the complexes have been discussed.

  16. 3-D imaging and illustration of mouse intestinal neurovascular complex.

    PubMed

    Fu, Ya-Yuan; Peng, Shih-Jung; Lin, Hsin-Yao; Pasricha, Pankaj J; Tang, Shiue-Cheng

    2013-01-01

    Because of the dispersed nature of nerves and blood vessels, standard histology cannot provide a global and associated observation of the enteric nervous system (ENS) and vascular network. We prepared transparent mouse intestine and combined vessel painting and three-dimensional (3-D) neurohistology for joint visualization of the ENS and vasculature. Cardiac perfusion of the fluorescent wheat germ agglutinin (vessel painting) was used to label the ileal blood vessels. The pan-neuronal marker PGP9.5, sympathetic neuronal marker tyrosine hydroxylase (TH), serotonin, and glial markers S100B and GFAP were used as the immunostaining targets of neural tissues. The fluorescently labeled specimens were immersed in the optical clearing solution to improve photon penetration for 3-D confocal microscopy. Notably, we simultaneously revealed the ileal microstructure, vasculature, and innervation with micrometer-level resolution. Four examples are given: 1) the morphology of the TH-labeled sympathetic nerves: sparse in epithelium, perivascular at the submucosa, and intraganglionic at myenteric plexus; 2) distinct patterns of the extrinsic perivascular and intrinsic pericryptic innervation at the submucosal-mucosal interface; 3) different associations of serotonin cells with the mucosal neurovascular elements in the villi and crypts; and 4) the periganglionic capillary network at the myenteric plexus and its contact with glial fibers. Our 3-D imaging approach provides a useful tool to simultaneously reveal the nerves and blood vessels in a space continuum for panoramic illustration and analysis of the neurovascular complex to better understand the intestinal physiology and diseases.

  17. Corrigendum to "The 3-D strain patterns in Turkey using geodetic velocity fields from the RTK-CORS (TR) network" [J. African Earth Sci. 115 (2016) 246-270

    NASA Astrophysics Data System (ADS)

    Kutoglu, Hakan Senol; Toker, Mustafa; Mekik, Cetin

    2016-12-01

    In the article titled "The 3-D Strain patterns in Turkey using Geodetic velocity fields from the RTK-CORS (TR) Network" published in Journal of African Earth Sciences Vol. 11, pp.246-270, the black arrows on the Figs. 10 and 12 are shifted due to printing error to undesired places. The correct form of Figs. 10 and 12 are given below:

  18. 3-D Seismic Interpretation

    NASA Astrophysics Data System (ADS)

    Moore, Gregory F.

    2009-05-01

    This volume is a brief introduction aimed at those who wish to gain a basic and relatively quick understanding of the interpretation of three-dimensional (3-D) seismic reflection data. The book is well written, clearly illustrated, and easy to follow. Enough elementary mathematics are presented for a basic understanding of seismic methods, but more complex mathematical derivations are avoided. References are listed for readers interested in more advanced explanations. After a brief introduction, the book logically begins with a succinct chapter on modern 3-D seismic data acquisition and processing. Standard 3-D acquisition methods are presented, and an appendix expands on more recent acquisition techniques, such as multiple-azimuth and wide-azimuth acquisition. Although this chapter covers the basics of standard time processing quite well, there is only a single sentence about prestack depth imaging, and anisotropic processing is not mentioned at all, even though both techniques are now becoming standard.

  19. Radiochromic 3D Detectors

    NASA Astrophysics Data System (ADS)

    Oldham, Mark

    2015-01-01

    Radiochromic materials exhibit a colour change when exposed to ionising radiation. Radiochromic film has been used for clinical dosimetry for many years and increasingly so recently, as films of higher sensitivities have become available. The two principle advantages of radiochromic dosimetry include greater tissue equivalence (radiologically) and the lack of requirement for development of the colour change. In a radiochromic material, the colour change arises direct from ionising interactions affecting dye molecules, without requiring any latent chemical, optical or thermal development, with important implications for increased accuracy and convenience. It is only relatively recently however, that 3D radiochromic dosimetry has become possible. In this article we review recent developments and the current state-of-the-art of 3D radiochromic dosimetry, and the potential for a more comprehensive solution for the verification of complex radiation therapy treatments, and 3D dose measurement in general.

  20. Bootstrapping 3D fermions

    DOE PAGES

    Iliesiu, Luca; Kos, Filip; Poland, David; ...

    2016-03-17

    We study the conformal bootstrap for a 4-point function of fermions <ψψψψ> in 3D. We first introduce an embedding formalism for 3D spinors and compute the conformal blocks appearing in fermion 4-point functions. Using these results, we find general bounds on the dimensions of operators appearing in the ψ × ψ OPE, and also on the central charge CT. We observe features in our bounds that coincide with scaling dimensions in the GrossNeveu models at large N. Finally, we also speculate that other features could coincide with a fermionic CFT containing no relevant scalar operators.

  1. Bootstrapping 3D fermions

    SciTech Connect

    Iliesiu, Luca; Kos, Filip; Poland, David; Pufu, Silviu S.; Simmons-Duffin, David; Yacoby, Ran

    2016-03-17

    We study the conformal bootstrap for a 4-point function of fermions <ψψψψ> in 3D. We first introduce an embedding formalism for 3D spinors and compute the conformal blocks appearing in fermion 4-point functions. Using these results, we find general bounds on the dimensions of operators appearing in the ψ × ψ OPE, and also on the central charge CT. We observe features in our bounds that coincide with scaling dimensions in the GrossNeveu models at large N. Finally, we also speculate that other features could coincide with a fermionic CFT containing no relevant scalar operators.

  2. 3D measurement for rapid prototyping

    NASA Astrophysics Data System (ADS)

    Albrecht, Peter; Lilienblum, Tilo; Sommerkorn, Gerd; Michaelis, Bernd

    1996-08-01

    Optical 3-D measurement is an interesting approach for rapid prototyping. On one hand it's necessary to get the 3-D data of an object and on the other hand it's necessary to check the manufactured object (quality checking). Optical 3-D measurement can realize both. Classical 3-D measurement procedures based on photogrammetry cause systematic errors at strongly curved surfaces or steps in surfaces. One possibility to reduce these errors is to calculate the 3-D coordinates from several successively taken images. Thus it's possible to get higher spatial resolution and to reduce the systematic errors at 'problem surfaces.' Another possibility is to process the measurement values by neural networks. A modified associative memory smoothes and corrects the calculated 3-D coordinates using a-priori knowledge about the measurement object.

  3. Venus in 3D

    NASA Technical Reports Server (NTRS)

    Plaut, Jeffrey J.

    1993-01-01

    Stereographic images of the surface of Venus which enable geologists to reconstruct the details of the planet's evolution are discussed. The 120-meter resolution of these 3D images make it possible to construct digital topographic maps from which precise measurements can be made of the heights, depths, slopes, and volumes of geologic structures.

  4. 3D Printing for Tissue Engineering.

    PubMed

    Richards, Dylan Jack; Tan, Yu; Jia, Jia; Yao, Hai; Mei, Ying

    2013-10-01

    Tissue engineering aims to fabricate functional tissue for applications in regenerative medicine and drug testing. More recently, 3D printing has shown great promise in tissue fabrication with a structural control from micro- to macro-scale by using a layer-by-layer approach. Whether through scaffold-based or scaffold-free approaches, the standard for 3D printed tissue engineering constructs is to provide a biomimetic structural environment that facilitates tissue formation and promotes host tissue integration (e.g., cellular infiltration, vascularization, and active remodeling). This review will cover several approaches that have advanced the field of 3D printing through novel fabrication methods of tissue engineering constructs. It will also discuss the applications of synthetic and natural materials for 3D printing facilitated tissue fabrication.

  5. 3D Printing for Tissue Engineering

    PubMed Central

    Jia, Jia; Yao, Hai; Mei, Ying

    2016-01-01

    Tissue engineering aims to fabricate functional tissue for applications in regenerative medicine and drug testing. More recently, 3D printing has shown great promise in tissue fabrication with a structural control from micro- to macro-scale by using a layer-by-layer approach. Whether through scaffold-based or scaffold-free approaches, the standard for 3D printed tissue engineering constructs is to provide a biomimetic structural environment that facilitates tissue formation and promotes host tissue integration (e.g., cellular infiltration, vascularization, and active remodeling). This review will cover several approaches that have advanced the field of 3D printing through novel fabrication methods of tissue engineering constructs. It will also discuss the applications of synthetic and natural materials for 3D printing facilitated tissue fabrication. PMID:26869728

  6. 3D photoacoustic imaging

    NASA Astrophysics Data System (ADS)

    Carson, Jeffrey J. L.; Roumeliotis, Michael; Chaudhary, Govind; Stodilka, Robert Z.; Anastasio, Mark A.

    2010-06-01

    Our group has concentrated on development of a 3D photoacoustic imaging system for biomedical imaging research. The technology employs a sparse parallel detection scheme and specialized reconstruction software to obtain 3D optical images using a single laser pulse. With the technology we have been able to capture 3D movies of translating point targets and rotating line targets. The current limitation of our 3D photoacoustic imaging approach is its inability ability to reconstruct complex objects in the field of view. This is primarily due to the relatively small number of projections used to reconstruct objects. However, in many photoacoustic imaging situations, only a few objects may be present in the field of view and these objects may have very high contrast compared to background. That is, the objects have sparse properties. Therefore, our work had two objectives: (i) to utilize mathematical tools to evaluate 3D photoacoustic imaging performance, and (ii) to test image reconstruction algorithms that prefer sparseness in the reconstructed images. Our approach was to utilize singular value decomposition techniques to study the imaging operator of the system and evaluate the complexity of objects that could potentially be reconstructed. We also compared the performance of two image reconstruction algorithms (algebraic reconstruction and l1-norm techniques) at reconstructing objects of increasing sparseness. We observed that for a 15-element detection scheme, the number of measureable singular vectors representative of the imaging operator was consistent with the demonstrated ability to reconstruct point and line targets in the field of view. We also observed that the l1-norm reconstruction technique, which is known to prefer sparseness in reconstructed images, was superior to the algebraic reconstruction technique. Based on these findings, we concluded (i) that singular value decomposition of the imaging operator provides valuable insight into the capabilities of

  7. The logic of plant vascular patterning. Polarity, continuity and plasticity in the formation of the veins and of their networks.

    PubMed

    Scarpella, Enrico

    2017-03-02

    The problem of long-distance transport is solved in many multicellular organisms by tissue networks such as the vascular networks of plants. Because tissue networks transport from one tissue area to another, they are polar and continuous; most of them, including plant vascular networks, are also plastic. Surprisingly, the formation of tissue networks is in most cases just as polar, continuous and plastic. Available evidence suggests that the polarity, continuity and plasticity of plant vascular networks and their formation could be accounted for by a patterning process that combines: (i) excess of developmental alternatives competing for a limiting cell-polarizing signal; (ii) positive feedback between cell polarization and continuous, cell-to-cell transport of the cell-polarizing signal; and (iii) gradual restriction of differentiation that increasingly removes the cell-polarizing signal.

  8. 3D bioprinting of tissues and organs.

    PubMed

    Murphy, Sean V; Atala, Anthony

    2014-08-01

    Additive manufacturing, otherwise known as three-dimensional (3D) printing, is driving major innovations in many areas, such as engineering, manufacturing, art, education and medicine. Recent advances have enabled 3D printing of biocompatible materials, cells and supporting components into complex 3D functional living tissues. 3D bioprinting is being applied to regenerative medicine to address the need for tissues and organs suitable for transplantation. Compared with non-biological printing, 3D bioprinting involves additional complexities, such as the choice of materials, cell types, growth and differentiation factors, and technical challenges related to the sensitivities of living cells and the construction of tissues. Addressing these complexities requires the integration of technologies from the fields of engineering, biomaterials science, cell biology, physics and medicine. 3D bioprinting has already been used for the generation and transplantation of several tissues, including multilayered skin, bone, vascular grafts, tracheal splints, heart tissue and cartilaginous structures. Other applications include developing high-throughput 3D-bioprinted tissue models for research, drug discovery and toxicology.

  9. Quon 3D language for quantum information

    PubMed Central

    Liu, Zhengwei; Wozniakowski, Alex; Jaffe, Arthur M.

    2017-01-01

    We present a 3D topological picture-language for quantum information. Our approach combines charged excitations carried by strings, with topological properties that arise from embedding the strings in the interior of a 3D manifold with boundary. A quon is a composite that acts as a particle. Specifically, a quon is a hemisphere containing a neutral pair of open strings with opposite charge. We interpret multiquons and their transformations in a natural way. We obtain a type of relation, a string–genus “joint relation,” involving both a string and the 3D manifold. We use the joint relation to obtain a topological interpretation of the C∗-Hopf algebra relations, which are widely used in tensor networks. We obtain a 3D representation of the controlled NOT (CNOT) gate that is considerably simpler than earlier work, and a 3D topological protocol for teleportation. PMID:28167790

  10. Surgeon-Based 3D Printing for Microvascular Bone Flaps.

    PubMed

    Taylor, Erin M; Iorio, Matthew L

    2017-03-04

    Background Three-dimensional (3D) printing has developed as a revolutionary technology with the capacity to design accurate physical models in preoperative planning. We present our experience in surgeon-based design of 3D models, using home 3D software and printing technology for use as an adjunct in vascularized bone transfer. Methods Home 3D printing techniques were used in the design and execution of vascularized bone flap transfers to the upper extremity. Open source imaging software was used to convert preoperative computed tomography scans and create 3D models. These were printed in the surgeon's office as 3D models for the planned reconstruction. Vascularized bone flaps were designed intraoperatively based on the 3D printed models. Results Three-dimensional models were created for intraoperative use in vascularized bone flaps, including (1) medial femoral trochlea (MFT) flap for scaphoid avascular necrosis and nonunion, (2) MFT flap for lunate avascular necrosis and nonunion, (3) medial femoral condyle (MFC) flap for wrist arthrodesis, and (4) free fibula osteocutaneous flap for distal radius septic nonunion. Templates based on the 3D models allowed for the precise and rapid contouring of well-vascularized bone flaps in situ, prior to ligating the donor pedicle. Conclusions Surgeon-based 3D printing is a feasible, innovative technology that allows for the precise and rapid contouring of models that can be created in various configurations for pre- and intraoperative planning. The technology is easy to use, convenient, and highly economical as compared with traditional send-out manufacturing. Surgeon-based 3D printing is a useful adjunct in vascularized bone transfer. Level of Evidence Level IV.

  11. Twin Peaks - 3D

    NASA Technical Reports Server (NTRS)

    1997-01-01

    The two hills in the distance, approximately one to two kilometers away, have been dubbed the 'Twin Peaks' and are of great interest to Pathfinder scientists as objects of future study. 3D glasses are necessary to identify surface detail. The white areas on the left hill, called the 'Ski Run' by scientists, may have been formed by hydrologic processes.

    The IMP is a stereo imaging system with color capability provided by 24 selectable filters -- twelve filters per 'eye.

    Click below to see the left and right views individually. [figure removed for brevity, see original site] Left [figure removed for brevity, see original site] Right

  12. 3D and beyond

    NASA Astrophysics Data System (ADS)

    Fung, Y. C.

    1995-05-01

    This conference on physiology and function covers a wide range of subjects, including the vasculature and blood flow, the flow of gas, water, and blood in the lung, the neurological structure and function, the modeling, and the motion and mechanics of organs. Many technologies are discussed. I believe that the list would include a robotic photographer, to hold the optical equipment in a precisely controlled way to obtain the images for the user. Why are 3D images needed? They are to achieve certain objectives through measurements of some objects. For example, in order to improve performance in sports or beauty of a person, we measure the form, dimensions, appearance, and movements.

  13. 3D Audio System

    NASA Technical Reports Server (NTRS)

    1992-01-01

    Ames Research Center research into virtual reality led to the development of the Convolvotron, a high speed digital audio processing system that delivers three-dimensional sound over headphones. It consists of a two-card set designed for use with a personal computer. The Convolvotron's primary application is presentation of 3D audio signals over headphones. Four independent sound sources are filtered with large time-varying filters that compensate for motion. The perceived location of the sound remains constant. Possible applications are in air traffic control towers or airplane cockpits, hearing and perception research and virtual reality development.

  14. 3D visualization of the human cerebral vasculature

    NASA Astrophysics Data System (ADS)

    Zrimec, Tatjana; Mander, Tom; Lambert, Timothy; Parker, Geoffrey

    1995-04-01

    Computer assisted 3D visualization of the human cerebro-vascular system can help to locate blood vessels during diagnosis and to approach them during treatment. Our aim is to reconstruct the human cerebro-vascular system from the partial information collected from a variety of medical imaging instruments and to generate a 3D graphical representation. This paper describes a tool developed for 3D visualization of cerebro-vascular structures. It also describes a symbolic approach to modeling vascular anatomy. The tool, called Ispline, is used to display the graphical information stored in a symbolic model of the vasculature. The vascular model was developed to assist image processing and image fusion. The model consists of a structural symbolic representation using frames and a geometrical representation of vessel shapes and vessel topology. Ispline has proved to be useful for visualizing both the synthetically constructed vessels of the symbolic model and the vessels extracted from a patient's MR angiograms.

  15. Oxygen Advection and Diffusion in a Three Dimensional Vascular Anatomical Network

    PubMed Central

    Fang, Qianqian; Sakadžić, Sava; Ruvinskaya, Lana; Devor, Anna; Dale, Anders M.; Boas, David A.

    2008-01-01

    There is an increasing need for quantitative and computationally affordable models for analyzing tissue metabolism and hemodynamics in microvascular networks. In this work, we develop a hybrid model to solve for the time-varying oxygen advection-diffusion equation in the vessels and tissue. To obtain a three-dimensional temporal evolution of tissue oxygen concentration for realistic complex vessel networks, we used a graph-based advection model combined with a finite-element based diffusion model and an implicit time-advancing scheme. We validated this algorithm for both static and dynamic conditions. We also applied it to a complex vascular network obtained from a rodent somatosensory cortex. Qualitative agreement was found with in-vivo experiments. PMID:18958033

  16. Preferential Effect of Synchrotron Microbeam Radiation Therapy on Intracerebral 9L Gliosarcoma Vascular Networks

    SciTech Connect

    Bouchet, Audrey; Lemasson, Benjamin; Le Duc, Geraldine; Maisin, Cecile; Braeuer-Krisch, Elke; Siegbahn, Erik Albert; Renaud, Luc; Khalil, Enam; Remy, Chantal; Poillot, Cathy; Bravin, Alberto; Laissue, Jean A.; Barbier, Emmanuel L.; Serduc, Raphael

    2010-12-01

    Purpose: Synchrotron microbeam radiation therapy (MRT) relies on spatial fractionation of the incident photon beam into parallel micron-wide beams. Our aim was to analyze the effects of MRT on normal brain and 9L gliosarcoma tissues, particularly on blood vessels. Methods and Materials: Responses to MRT (two arrays, one lateral, one anteroposterior (2 x 400 Gy), intersecting orthogonally in the tumor region) were studied during 6 weeks using MRI, immunohistochemistry, and vascular endothelial growth factor Western blot. Results: MRT increased the median survival time of irradiated rats (x3.25), significantly increased blood vessel permeability, and inhibited tumor growth; a cytotoxic effect on 9L cells was detected 5 days after irradiation. Significant decreases in tumoral blood volume fraction and vessel diameter were measured from 8 days after irradiation, due to loss of endothelial cells in tumors as detected by immunochemistry. Edema was observed in the normal brain exposed to both crossfired arrays about 6 weeks after irradiation. This edema was associated with changes in blood vessel morphology and an overexpression of vascular endothelial growth factor. Conversely, vascular parameters and vessel morphology in brain regions exposed to one of the two arrays were not damaged, and there was no loss of vascular endothelia. Conclusions: We show for the first time that preferential damage of MRT to tumor vessels versus preservation of radioresistant normal brain vessels contributes to the efficient palliation of 9L gliosarcomas in rats. Molecular pathways of repair mechanisms in normal and tumoral vascular networks after MRT may be essential for the improvement of such differential effects on the vasculature.

  17. High-efficiency solid-state dye-sensitized solar cells: fast charge extraction through self-assembled 3D fibrous network of crystalline TiO2 nanowires.

    PubMed

    Tétreault, Nicolas; Horváth, Endre; Moehl, Thomas; Brillet, Jérémie; Smajda, Rita; Bungener, Stéphane; Cai, Ning; Wang, Peng; Zakeeruddin, Shaik M; Forró, László; Magrez, Arnaud; Grätzel, Michael

    2010-12-28

    Herein, we present a novel morphology for solid-state dye-sensitized solar cells based on the simple and straightforward self-assembly of nanorods into a 3D fibrous network of fused single-crystalline anatase nanowires. This architecture offers a high roughness factor, significant light scattering, and up to several orders of magnitude faster electron transport to reach a near-record-breaking conversion efficiency of 4.9%.

  18. 3D Surgical Simulation

    PubMed Central

    Cevidanes, Lucia; Tucker, Scott; Styner, Martin; Kim, Hyungmin; Chapuis, Jonas; Reyes, Mauricio; Proffit, William; Turvey, Timothy; Jaskolka, Michael

    2009-01-01

    This paper discusses the development of methods for computer-aided jaw surgery. Computer-aided jaw surgery allows us to incorporate the high level of precision necessary for transferring virtual plans into the operating room. We also present a complete computer-aided surgery (CAS) system developed in close collaboration with surgeons. Surgery planning and simulation include construction of 3D surface models from Cone-beam CT (CBCT), dynamic cephalometry, semi-automatic mirroring, interactive cutting of bone and bony segment repositioning. A virtual setup can be used to manufacture positioning splints for intra-operative guidance. The system provides further intra-operative assistance with the help of a computer display showing jaw positions and 3D positioning guides updated in real-time during the surgical procedure. The CAS system aids in dealing with complex cases with benefits for the patient, with surgical practice, and for orthodontic finishing. Advanced software tools for diagnosis and treatment planning allow preparation of detailed operative plans, osteotomy repositioning, bone reconstructions, surgical resident training and assessing the difficulties of the surgical procedures prior to the surgery. CAS has the potential to make the elaboration of the surgical plan a more flexible process, increase the level of detail and accuracy of the plan, yield higher operative precision and control, and enhance documentation of cases. Supported by NIDCR DE017727, and DE018962 PMID:20816308

  19. Martian terrain - 3D

    NASA Technical Reports Server (NTRS)

    1997-01-01

    An area of rocky terrain near the landing site of the Sagan Memorial Station can be seen in this image, taken in stereo by the Imager for Mars Pathfinder (IMP) on Sol 3. 3D glasses are necessary to identify surface detail. This image is part of a 3D 'monster' panorama of the area surrounding the landing site.

    Mars Pathfinder is the second in NASA's Discovery program of low-cost spacecraft with highly focused science goals. The Jet Propulsion Laboratory, Pasadena, CA, developed and manages the Mars Pathfinder mission for NASA's Office of Space Science, Washington, D.C. JPL is an operating division of the California Institute of Technology (Caltech). The Imager for Mars Pathfinder (IMP) was developed by the University of Arizona Lunar and Planetary Laboratory under contract to JPL. Peter Smith is the Principal Investigator.

    Click below to see the left and right views individually. [figure removed for brevity, see original site] Left [figure removed for brevity, see original site] Right

  20. 3D bioprinting and its in vivo applications.

    PubMed

    Hong, Nhayoung; Yang, Gi-Hoon; Lee, JaeHwan; Kim, GeunHyung

    2017-01-20

    The purpose of 3D bioprinting technology is to design and create functional 3D tissues or organs in situ for in vivo applications. 3D cell-printing, or additive biomanufacturing, allows the selection of biomaterials and cells (bioink), and the fabrication of cell-laden structures in high resolution. 3D cell-printed structures have also been used for applications such as research models, drug delivery and discovery, and toxicology. Recently, numerous attempts have been made to fabricate tissues and organs by using various 3D printing techniques. However, challenges such as vascularization are yet to be solved. This article reviews the most commonly used 3D cell-printing techniques with their advantages and drawbacks. Furthermore, up-to-date achievements of 3D bioprinting in in vivo applications are introduced, and prospects for the future of 3D cell-printing technology are discussed. © 2017 Wiley Periodicals, Inc. J Biomed Mater Res Part B: Appl Biomater, 2017.

  1. 3D MI-DRAGON: new model for the reconstruction of US FDA drug- target network and theoretical-experimental studies of inhibitors of rasagiline derivatives for AChE.

    PubMed

    Prado-Prado, Francisco; García-Mera, Xerardo; Escobar, Manuel; Alonso, Nerea; Caamaño, Olga; Yañez, Matilde; González-Díaz, Humberto

    2012-01-01

    The number of neurodegenerative diseases has been increasing in recent years. Many of the drug candidates to be used in the treatment of neurodegenerative diseases present specific 3D structural features. An important protein in this sense is the acetylcholinesterase (AChE), which is the target of many Alzheimer's dementia drugs. Consequently, the prediction of Drug-Protein Interactions (DPIs/nDPIs) between new drug candidates and specific 3D structure and targets is of major importance. To this end, we can use Quantitative Structure-Activity Relationships (QSAR) models to carry out a rational DPIs prediction. Unfortunately, many previous QSAR models developed to predict DPIs take into consideration only 2D structural information and codify the activity against only one target. To solve this problem we can develop some 3D multi-target QSAR (3D mt-QSAR) models. In this study, using the 3D MI-DRAGON technique, we have introduced a new predictor for DPIs based on two different well-known software. We have used the MARCH-INSIDE (MI) and DRAGON software to calculate 3D structural parameters for drugs and targets respectively. Both classes of 3D parameters were used as input to train Artificial Neuronal Network (ANN) algorithms using as benchmark dataset the complex network (CN) made up of all DPIs between US FDA approved drugs and their targets. The entire dataset was downloaded from the DrugBank database. The best 3D mt-QSAR predictor found was an ANN of Multi-Layer Perceptron-type (MLP) with profile MLP 37:37-24-1:1. This MLP classifies correctly 274 out of 321 DPIs (Sensitivity = 85.35%) and 1041 out of 1190 nDPIs (Specificity = 87.48%), corresponding to training Accuracy = 87.03%. We have validated the model with external predicting series with Sensitivity = 84.16% (542/644 DPIs; Specificity = 87.51% (2039/2330 nDPIs) and Accuracy = 86.78%. The new CNs of DPIs reconstructed from US FDA can be used to explore large DPI databases in order to discover both new drugs

  2. Anodization control for barrier-oxide thinning and 3D interconnected pores and direct electrodeposition of nanowire networks on native aluminium substrates.

    PubMed

    Gillette, Eleanor; Wittenberg, Stefanie; Graham, Lauren; Lee, Kwijong; Rubloff, Gary; Banerjee, Parag; Lee, Sang Bok

    2015-02-07

    Here we report a strategy for combining techniques for pore branching and barrier layer thinning to produce 3D porous anodized aluminum oxide films with direct ohmic contact to the native aluminum. This method provides an example of a rationally designed template which need not be removed from the aluminum, but which is also not constrained to traditional 2D pore geometry. We first demonstrate the barrier layer removal and pore branching techniques independently, and then combine them to produce free standing arrays of interconnected Ni nanostructures. Nickel nanostructures are deposited directly onto the aluminum to demonstrate the success of the structural modification, and showcase the potential for these films to be used as templates. This approach is the first to demonstrate the design and execution of multiple pore modification techniques in the same membrane, and demonstrates the first directly deposited 3D structures on aluminum substrates.

  3. Traumatic brain injury results in acute rarefication of the vascular network.

    PubMed

    Obenaus, Andre; Ng, Michelle; Orantes, Amanda M; Kinney-Lang, Eli; Rashid, Faisal; Hamer, Mary; DeFazio, Richard A; Tang, Jiping; Zhang, John H; Pearce, William J

    2017-03-22

    The role of the cerebrovascular network and its acute response to TBI is poorly defined and emerging evidence suggests that cerebrovascular reactivity is altered. We explored how cortical vessels are physically altered following TBI using a newly developed technique, vessel painting. We tested our hypothesis that a focal moderate TBI results in global decrements to structural aspects of the vasculature. Rats (naïve, sham-operated, TBI) underwent a moderate controlled cortical impact. Animals underwent vessel painting perfusion to label the entire cortex at 1 day post TBI followed by whole brain axial and coronal images using a wide-field fluorescence microscope. Cortical vessel network characteristics were analyzed for classical angiographic features (junctions, lengths) wherein we observed significant global (both hemispheres) reductions in vessel junctions and vessel lengths of 33% and 22%, respectively. Biological complexity can be quantified using fractal geometric features where we observed that fractal measures were also reduced significantly by 33%, 16% and 13% for kurtosis, peak value frequency and skewness, respectively. Acutely after TBI there is a reduction in vascular network and vascular complexity that are exacerbated at the lesion site and provide structural evidence for the bilateral hemodynamic alterations that have been reported in patients after TBI.

  4. A Hybrid 3D Indoor Space Model

    NASA Astrophysics Data System (ADS)

    Jamali, Ali; Rahman, Alias Abdul; Boguslawski, Pawel

    2016-10-01

    GIS integrates spatial information and spatial analysis. An important example of such integration is for emergency response which requires route planning inside and outside of a building. Route planning requires detailed information related to indoor and outdoor environment. Indoor navigation network models including Geometric Network Model (GNM), Navigable Space Model, sub-division model and regular-grid model lack indoor data sources and abstraction methods. In this paper, a hybrid indoor space model is proposed. In the proposed method, 3D modeling of indoor navigation network is based on surveying control points and it is less dependent on the 3D geometrical building model. This research proposes a method of indoor space modeling for the buildings which do not have proper 2D/3D geometrical models or they lack semantic or topological information. The proposed hybrid model consists of topological, geometrical and semantical space.

  5. 3D field harmonics

    SciTech Connect

    Caspi, S.; Helm, M.; Laslett, L.J.

    1991-03-30

    We have developed an harmonic representation for the three dimensional field components within the windings of accelerator magnets. The form by which the field is presented is suitable for interfacing with other codes that make use of the 3D field components (particle tracking and stability). The field components can be calculated with high precision and reduced cup time at any location (r,{theta},z) inside the magnet bore. The same conductor geometry which is used to simulate line currents is also used in CAD with modifications more readily available. It is our hope that the format used here for magnetic fields can be used not only as a means of delivering fields but also as a way by which beam dynamics can suggest correction to the conductor geometry. 5 refs., 70 figs.

  6. Neonatal Brain Hemorrhage (NBH) of Prematurity: Translational Mechanisms of the Vascular-Neural Network

    PubMed Central

    Lekic, Tim; Klebe, Damon; Poblete, Roy; Krafft, Paul R.; Rolland, William B.; Tang, Jiping; Zhang, John H.

    2015-01-01

    Neonatal brain hemorrhage (NBH) of prematurity is an unfortunate consequence of preterm birth. Complications result in shunt dependence and long-term structural changes such as post-hemorrhagic hydrocephalus, periventricular leukomalacia, gliosis, and neurological dysfunction. Several animal models are available to study this condition, and many basic mechanisms, etiological factors, and outcome consequences, are becoming understood. NBH is an important clinical condition, of which treatment may potentially circumvent shunt complication, and improve functional recovery (cerebral palsy, and cognitive impairments). This review highlights key pathophysiological findings of the neonatal vascular-neural network in the context of molecular mechanisms targeting the post-hemorrhagic hydrocephalus affecting this vulnerable infant population. PMID:25620100

  7. Finite element micro-modelling of a human ankle bone reveals the importance of the trabecular network to mechanical performance: new methods for the generation and comparison of 3D models.

    PubMed

    Parr, W C H; Chamoli, U; Jones, A; Walsh, W R; Wroe, S

    2013-01-04

    Most modelling of whole bones does not incorporate trabecular geometry and treats bone as a solid non-porous structure. Some studies have modelled trabecular networks in isolation. One study has modelled the performance of whole human bones incorporating trabeculae, although this required considerable computer resources and purpose-written code. The difference between mechanical behaviour in models that incorporate trabecular geometry and non-porous models has not been explored. The ability to easily model trabecular networks may shed light on the mechanical consequences of bone loss in osteoporosis and remodelling after implant insertion. Here we present a Finite Element Analysis (FEA) of a human ankle bone that includes trabecular network geometry. We compare results from this model with results from non-porous models and introduce protocols achievable on desktop computers using widely available softwares. Our findings show that models including trabecular geometry are considerably stiffer than non-porous whole bone models wherein the non-cortical component has the same mass as the trabecular network, suggesting inclusion of trabecular geometry is desirable. We further present new methods for the construction and analysis of 3D models permitting: (1) construction of multi-property, non-porous models wherein cortical layer thickness can be manipulated; (2) maintenance of the same triangle network for the outer cortical bone surface in both 3D reconstruction and non-porous models allowing exact replication of load and restraint cases; and (3) creation of an internal landmark point grid allowing direct comparison between 3D FE Models (FEMs).

  8. Ultra-high-resolution 3D digitalized imaging of the cerebral angioarchitecture in rats using synchrotron radiation

    PubMed Central

    Zhang, Meng-Qi; Zhou, Luo; Deng, Qian-Fang; Xie, Yuan-Yuan; Xiao, Ti-Qiao; Cao, Yu-Ze; Zhang, Ji-Wen; Chen, Xu-Meng; Yin, Xian-Zhen; Xiao, Bo

    2015-01-01

    The angioarchitecture is a fundamental aspect of brain development and physiology. However, available imaging tools are unsuited for non-destructive cerebral mapping of the functionally important three-dimensional (3D) vascular microstructures. To address this issue, we developed an ultra-high resolution 3D digitalized angioarchitectural map for rat brain, based on synchrotron radiation phase contrast imaging (SR-PCI) with pixel size of 5.92 μm. This approach provides a systematic and detailed view of the cerebrovascular anatomy at the micrometer level without any need for contrast agents. From qualitative and quantitative perspectives, the present 3D data provide a considerable insight into the spatial vascular network for whole rodent brain, particularly for functionally important regions of interest, such as the hippocampus, pre-frontal cerebral cortex and the corpus striatum. We extended these results to synchrotron-based virtual micro-endoscopy, thus revealing the trajectory of targeted vessels in 3D. The SR-PCI method for systematic visualization of cerebral microvasculature holds considerable promise for wider application in life sciences, including 3D micro-imaging in experimental models of neurodevelopmental and vascular disorders. PMID:26443231

  9. Objective assessment of the contribution of the RECOPESCA network to the monitoring of 3D coastal ocean variables in the Bay of Biscay and the English Channel

    NASA Astrophysics Data System (ADS)

    Lamouroux, Julien; Charria, Guillaume; De Mey, Pierre; Raynaud, Stéphane; Heyraud, Catherine; Craneguy, Philippe; Dumas, Franck; Le Hénaff, Matthieu

    2016-04-01

    In the Bay of Biscay and the English Channel, in situ observations represent a key element to monitor and to understand the wide range of processes in the coastal ocean and their direct impacts on human activities. An efficient way to measure the hydrological content of the water column over the main part of the continental shelf is to consider ships of opportunity as the surface to cover is wide and could be far from the coast. In the French observation strategy, the RECOPESCA programme, as a component of the High frequency Observation network for the environment in coastal SEAs (HOSEA), aims to collect environmental observations from sensors attached to fishing nets. In the present study, we assess that network using the Array Modes (ArM) method (a stochastic implementation of Le Hénaff et al. Ocean Dyn 59: 3-20. doi: 10.1007/s10236-008-0144-7, 2009). That model ensemble-based method is used here to compare model and observation errors and to quantitatively evaluate the performance of the observation network at detecting prior (model) uncertainties, based on hypotheses on error sources. A reference network, based on fishing vessel observations in 2008, is assessed using that method. Considering the various seasons, we show the efficiency of the network at detecting the main model uncertainties. Moreover, three scenarios, based on the reference network, a denser network in 2010 and a fictive network aggregated from a pluri-annual collection of profiles, are also analysed. Our sensitivity study shows the importance of the profile positions with respect to the sheer number of profiles for ensuring the ability of the network to describe the main error modes. More generally, we demonstrate the capacity of this method, with a low computational cost, to assess and to design new in situ observation networks.

  10. Intraoral 3D scanner

    NASA Astrophysics Data System (ADS)

    Kühmstedt, Peter; Bräuer-Burchardt, Christian; Munkelt, Christoph; Heinze, Matthias; Palme, Martin; Schmidt, Ingo; Hintersehr, Josef; Notni, Gunther

    2007-09-01

    Here a new set-up of a 3D-scanning system for CAD/CAM in dental industry is proposed. The system is designed for direct scanning of the dental preparations within the mouth. The measuring process is based on phase correlation technique in combination with fast fringe projection in a stereo arrangement. The novelty in the approach is characterized by the following features: A phase correlation between the phase values of the images of two cameras is used for the co-ordinate calculation. This works contrary to the usage of only phase values (phasogrammetry) or classical triangulation (phase values and camera image co-ordinate values) for the determination of the co-ordinates. The main advantage of the method is that the absolute value of the phase at each point does not directly determine the coordinate. Thus errors in the determination of the co-ordinates are prevented. Furthermore, using the epipolar geometry of the stereo-like arrangement the phase unwrapping problem of fringe analysis can be solved. The endoscope like measurement system contains one projection and two camera channels for illumination and observation of the object, respectively. The new system has a measurement field of nearly 25mm × 15mm. The user can measure two or three teeth at one time. So the system can by used for scanning of single tooth up to bridges preparations. In the paper the first realization of the intraoral scanner is described.

  11. 'Diamond' in 3-D

    NASA Technical Reports Server (NTRS)

    2004-01-01

    This 3-D, microscopic imager mosaic of a target area on a rock called 'Diamond Jenness' was taken after NASA's Mars Exploration Rover Opportunity ground into the surface with its rock abrasion tool for a second time.

    Opportunity has bored nearly a dozen holes into the inner walls of 'Endurance Crater.' On sols 177 and 178 (July 23 and July 24, 2004), the rover worked double-duty on Diamond Jenness. Surface debris and the bumpy shape of the rock resulted in a shallow and irregular hole, only about 2 millimeters (0.08 inch) deep. The final depth was not enough to remove all the bumps and leave a neat hole with a smooth floor. This extremely shallow depression was then examined by the rover's alpha particle X-ray spectrometer.

    On Sol 178, Opportunity's 'robotic rodent' dined on Diamond Jenness once again, grinding almost an additional 5 millimeters (about 0.2 inch). The rover then applied its Moessbauer spectrometer to the deepened hole. This double dose of Diamond Jenness enabled the science team to examine the rock at varying layers. Results from those grindings are currently being analyzed.

    The image mosaic is about 6 centimeters (2.4 inches) across.

  12. Prominent rocks - 3D

    NASA Technical Reports Server (NTRS)

    1997-01-01

    Many prominent rocks near the Sagan Memorial Station are featured in this image, taken in stereo by the Imager for Mars Pathfinder (IMP) on Sol 3. 3D glasses are necessary to identify surface detail. Wedge is at lower left; Shark, Half-Dome, and Pumpkin are at center. Flat Top, about four inches high, is at lower right. The horizon in the distance is one to two kilometers away.

    Mars Pathfinder is the second in NASA's Discovery program of low-cost spacecraft with highly focused science goals. The Jet Propulsion Laboratory, Pasadena, CA, developed and manages the Mars Pathfinder mission for NASA's Office of Space Science, Washington, D.C. JPL is an operating division of the California Institute of Technology (Caltech). The Imager for Mars Pathfinder (IMP) was developed by the University of Arizona Lunar and Planetary Laboratory under contract to JPL. Peter Smith is the Principal Investigator.

    Click below to see the left and right views individually. [figure removed for brevity, see original site] Left [figure removed for brevity, see original site] Right

  13. 3D bioprinting for engineering complex tissues.

    PubMed

    Mandrycky, Christian; Wang, Zongjie; Kim, Keekyoung; Kim, Deok-Ho

    2016-01-01

    Bioprinting is a 3D fabrication technology used to precisely dispense cell-laden biomaterials for the construction of complex 3D functional living tissues or artificial organs. While still in its early stages, bioprinting strategies have demonstrated their potential use in regenerative medicine to generate a variety of transplantable tissues, including skin, cartilage, and bone. However, current bioprinting approaches still have technical challenges in terms of high-resolution cell deposition, controlled cell distributions, vascularization, and innervation within complex 3D tissues. While no one-size-fits-all approach to bioprinting has emerged, it remains an on-demand, versatile fabrication technique that may address the growing organ shortage as well as provide a high-throughput method for cell patterning at the micrometer scale for broad biomedical engineering applications. In this review, we introduce the basic principles, materials, integration strategies and applications of bioprinting. We also discuss the recent developments, current challenges and future prospects of 3D bioprinting for engineering complex tissues. Combined with recent advances in human pluripotent stem cell technologies, 3D-bioprinted tissue models could serve as an enabling platform for high-throughput predictive drug screening and more effective regenerative therapies.

  14. 3D culture for cardiac cells.

    PubMed

    Zuppinger, Christian

    2016-07-01

    This review discusses historical milestones, recent developments and challenges in the area of 3D culture models with cardiovascular cell types. Expectations in this area have been raised in recent years, but more relevant in vitro research, more accurate drug testing results, reliable disease models and insights leading to bioartificial organs are expected from the transition to 3D cell culture. However, the construction of organ-like cardiac 3D models currently remains a difficult challenge. The heart consists of highly differentiated cells in an intricate arrangement.Furthermore, electrical “wiring”, a vascular system and multiple cell types act in concert to respond to the rapidly changing demands of the body. Although cardiovascular 3D culture models have been predominantly developed for regenerative medicine in the past, their use in drug screening and for disease models has become more popular recently. Many sophisticated 3D culture models are currently being developed in this dynamic area of life science. This article is part of a Special Issue entitled: Cardiomyocyte Biology: Integration of Developmental and Environmental Cues in the Heart edited by Marcus Schaub and Hughes Abriel.

  15. Vascular smooth muscle contraction evoked by cell volume modulation: role of the cytoskeleton network.

    PubMed

    Koltsova, Svetlana V; Gusakova, Svetlana V; Anfinogenova, Yana J; Baskakov, Mikhail B; Orlov, Sergei N

    2008-01-01

    Previously, we reported that hyposmotic swelling evoked transient vascular smooth muscle cell (SMC) contraction that was completely abolished by L-type Ca(2+) channel blockers. In contrast, sustained contraction revealed in hyper- and isoosmotically-shrunken SMCs was insensitive to L-type channel blockers and was diminished in Ca(2+)-free medium by only 30-50%. Several research groups reported cell volume-dependent cytoskeleton network rearrangements. This study examines the role of cytoskeleton proteins in cell volume-dependent contraction of endothelium-denuded vascular smooth muscle rings (VSMR) from the rat thoracic aorta. Hyperosmotic shrinkage and hyposmotic swelling were triggered by modulation of medium osmolality; isosmotic shrinkage was induced by VSMR transfer from hypo- to isosmotic medium. The relative content of globular (G) and fibrillar (F) actin was estimated by fluorescence microscopy. Hyperosmotic shrinkage and hyposmotic swelling led to elevation of the F-actin/G-actin ratio by 2.5- and 1.8-fold respectively. Contraction of shrunken and swollen VSMR was insensitive to modulators of microtubules such as vinblastine, colchicine and docetaxel. Microfilament disassembly by cytochalasin B resulted in dramatic attenuation of the maximal amplitude of contraction of hyperosmotically-shrunken and hyposmotically-swollen VSMR, and almost completely abolished the contraction triggered by isosmotic shrinkage. These data suggest that both L-type Ca(2+) channel-mediated contraction of swollen vascular SMC and Ca(2+)(o)-insensitive contractions of shrunken cells are triggered by reorganization of the microfilament network caused by elevation of the F-actin/G-actin ratio.

  16. Two-dimensional segmentation of the retinal vascular network from optical coherence tomography

    NASA Astrophysics Data System (ADS)

    Rodrigues, Pedro; Guimarães, Pedro; Santos, Torcato; Simão, Sílvia; Miranda, Telmo; Serranho, Pedro; Bernardes, Rui

    2013-12-01

    The automatic segmentation of the retinal vascular network from ocular fundus images has been performed by several research groups. Although different approaches have been proposed for traditional imaging modalities, only a few have addressed this problem for optical coherence tomography (OCT). Furthermore, these approaches were focused on the optic nerve head region. Compared to color fundus photography and fluorescein angiography, two-dimensional ocular fundus reference images computed from three-dimensional OCT data present additional problems related to system lateral resolution, image contrast, and noise. Specifically, the combination of system lateral resolution and vessel diameter in the macular region renders the process particularly complex, which might partly explain the focus on the optic disc region. In this report, we describe a set of features computed from standard OCT data of the human macula that are used by a supervised-learning process (support vector machines) to automatically segment the vascular network. For a set of macular OCT scans of healthy subjects and diabetic patients, the proposed method achieves 98% accuracy, 99% specificity, and 83% sensitivity. This method was also tested on OCT data of the optic nerve head region achieving similar results.

  17. Nitrogen impacts on vascular plants in Britain: an analysis of two national observation networks

    NASA Astrophysics Data System (ADS)

    Henrys, P. A.; Stevens, C. J.; Smart, S. M.; Maskell, L. C.; Walker, K. J.; Preston, C. D.; Crowe, A.; Rowe, E.; Gowing, D. J.; Emmett, B. A.

    2011-07-01

    Large areas of the United Kingdom currently have nitrogen (N) deposition at rates which exceed the thresholds above which there is risk of damage to sensitive components of the ecosystem (critical loads), and are predicted to continue to do so. Previous studies have shown that this excess N can be very damaging to semi-natural ecosystems. However, such studies have focussed primarily on the relationship of species richness to nitrogen, possibly missing the risk that increased deposition can have on individual plant species. To address this gap in knowledge, we used data from two national observation networks over Great Britain: the vascular plant database and the Botanical Society of the British Isles local change network to examine the response of individual vascular plant species to nitrogen in acid grasslands, calcareous grasslands and heathlands. Presence absence records of individual species, along with mean Ellenberg scores, within 10 km hectads were modelled against N deposition whilst at the same time controlling for the effects of climate, land use and sulphur deposition using generalised additive models. Ellenberg N showed a significant increase with increasing N deposition in almost all habitats across both surveys. Many individual species showed strong relationships with N deposition and clear negative trends in species prevalence to increasing nitrogen were found in all habitats. Species that showed negative relationships to N showed signs of decline at low levels, far below the current critical load levels.

  18. Construction of three-dimensional vascularized cardiac tissue with cell sheet engineering.

    PubMed

    Sakaguchi, Katsuhisa; Shimizu, Tatsuya; Okano, Teruo

    2015-05-10

    Construction of three-dimensional (3D) tissues with pre-isolated cells is a promising achievement for novel medicine and drug-discovery research. Our laboratory constructs 3D tissues with an innovative and unique method for layering multiple cell sheets. Cell sheets maintain a high-efficiently regenerating function, because of the higher cell density and higher transplantation efficiency, compared to other cell-delivery methods. Cell sheets have already been applied in clinical applications for regenerative medicine in treating patients with various diseases. Therefore, in our search to develop a more efficient treatment with cell sheets, we are constructing 3D tissues by layering cell sheets. Native animal tissues and organs have an abundance of capillaries to supply oxygen and nutrients, and to remove waste molecules. In our investigation of vascularized cardiac cell sheets, we have found that endothelial cells within cell sheets spontaneously form blood vessel networks as in vivo capillaries. To construct even thicker 3D tissues by layering multiple cell sheets, it is critical to have a medium or blood flow within the vascular networks of the cell sheets. Therefore, to perfuse medium or blood in the cell sheet vascular network to maintain the viability of all cells, we developed two types of vascular beds; (1) a femoral muscle-based vascular bed, and (2) a synthetic collagen gel-based vascular bed. Both vascular beds successfully provide the critical flow of culture medium, which allows 12-layer cell sheets to survive. Such bioreactor systems, when combined with cell sheet engineering techniques, have produced functional vascularized 3D tissues. Here we explain and discuss the various processes to obtain vascular networks by properly connecting cell sheets and the engineering of 3D tissues.

  19. Small-World Brain Network and Dynamic Functional Distribution in Patients with Subcortical Vascular Cognitive Impairment

    PubMed Central

    Yu, Yongqiang; Zhou, Xia; Wang, Haibao; Hu, Xiaopeng; Zhu, Xiaoqun; Xu, Liyan; Zhang, Chao; Sun, Zhongwu

    2015-01-01

    To investigate the topological properties of the functional connectivity and their relationships with cognition impairment in subcortical vascular cognitive impairment (SVCI) patients, resting-state fMRI and graph theory approaches were employed in 23 SVCI patients and 20 healthy controls. Functional connectivity between 90 brain regions was estimated using bivariate correlation analysis and thresholded to construct a set of undirected graphs. Moreover, all of them were subjected to a battery of cognitive assessment, and the correlations between graph metrics and cognitive performance were further analyzed. Our results are as follows: functional brain networks of both SVCI patients and controls showed small-world attributes over a range of thresholds(0.15≤sparsity≤0.40). However, global topological organization of the functional brain networks in SVCI was significantly disrupted, as indicated by reduced global and local efficiency, clustering coefficients and increased characteristic path lengths relative to normal subjects. The decreased activity areas in SVCI predominantly targeted in the frontal-temporal lobes, while subcortical regions showed increased topological properties, which are suspected to compensate for the inefficiency of the functional network. We also demonstrated that altered brain network properties in SVCI are closely correlated with general cognitive and praxis dysfunction. The disruption of whole-brain topological organization of the functional connectome provides insight into the functional changes in the human brain in SVCI. PMID:26132397

  20. Validation of 3D multimodality roadmapping in interventional neuroradiology

    NASA Astrophysics Data System (ADS)

    Ruijters, Daniel; Homan, Robert; Mielekamp, Peter; van de Haar, Peter; Babic, Drazenko

    2011-08-01

    Three-dimensional multimodality roadmapping is entering clinical routine utilization for neuro-vascular treatment. Its purpose is to navigate intra-arterial and intra-venous endovascular devices through complex vascular anatomy by fusing pre-operative computed tomography (CT) or magnetic resonance (MR) with the live fluoroscopy image. The fused image presents the real-time position of the intra-vascular devices together with the patient's 3D vascular morphology and its soft-tissue context. This paper investigates the effectiveness, accuracy, robustness and computation times of the described methods in order to assess their suitability for the intended clinical purpose: accurate interventional navigation. The mutual information-based 3D-3D registration proved to be of sub-voxel accuracy and yielded an average registration error of 0.515 mm and the live machine-based 2D-3D registration delivered an average error of less than 0.2 mm. The capture range of the image-based 3D-3D registration was investigated to characterize its robustness, and yielded an extent of 35 mm and 25° for >80% of the datasets for registration of 3D rotational angiography (3DRA) with CT, and 15 mm and 20° for >80% of the datasets for registration of 3DRA with MR data. The image-based 3D-3D registration could be computed within 8 s, while applying the machine-based 2D-3D registration only took 1.5 µs, which makes them very suitable for interventional use.

  1. A microfluidic device for 2D to 3D and 3D to 3D cell navigation

    NASA Astrophysics Data System (ADS)

    Shamloo, Amir; Amirifar, Leyla

    2016-01-01

    Microfluidic devices have received wide attention and shown great potential in the field of tissue engineering and regenerative medicine. Investigating cell response to various stimulations is much more accurate and comprehensive with the aid of microfluidic devices. In this study, we introduced a microfluidic device by which the matrix density as a mechanical property and the concentration profile of a biochemical factor as a chemical property could be altered. Our microfluidic device has a cell tank and a cell culture chamber to mimic both 2D to 3D and 3D to 3D migration of three types of cells. Fluid shear stress is negligible on the cells and a stable concentration gradient can be obtained by diffusion. The device was designed by a numerical simulation so that the uniformity of the concentration gradients throughout the cell culture chamber was obtained. Adult neural cells were cultured within this device and they showed different branching and axonal navigation phenotypes within varying nerve growth factor (NGF) concentration profiles. Neural stem cells were also cultured within varying collagen matrix densities while exposed to NGF concentrations and they experienced 3D to 3D collective migration. By generating vascular endothelial growth factor concentration gradients, adult human dermal microvascular endothelial cells also migrated in a 2D to 3D manner and formed a stable lumen within a specific collagen matrix density. It was observed that a minimum absolute concentration and concentration gradient were required to stimulate migration of all types of the cells. This device has the advantage of changing multiple parameters simultaneously and is expected to have wide applicability in cell studies.

  2. A quasi steady state method for solving transient Darcy flow in complex 3D fractured networks accounting for matrix to fracture flow

    NASA Astrophysics Data System (ADS)

    Nœtinger, B.

    2015-02-01

    Modeling natural Discrete Fracture Networks (DFN) receives more and more attention in applied geosciences, from oil and gas industry, to geothermal recovery and aquifer management. The fractures may be either natural, or artificial in case of well stimulation. Accounting for the flow inside the fracture network, and accounting for the transfers between the matrix and the fractures, with the same level of accuracy is an important issue for calibrating the well architecture and for setting up optimal resources recovery strategies. Recently, we proposed an original method allowing to model transient pressure diffusion in the fracture network only [1]. The matrix was assumed to be impervious. A systematic approximation scheme was built, allowing to model the initial DFN by a set of N unknowns located at each identified intersection between fractures. The higher N, the higher the accuracy of the model. The main assumption was using a quasi steady state hypothesis, that states that the characteristic diffusion time over one single fracture is negligible compared with the characteristic time of the macroscopic problem, e.g. change of boundary conditions. In that context, the lowest order approximation N = 1 has the form of solving a transient problem in a resistor/capacitor network, a so-called pipe network. Its topology is the same as the network of geometrical intersections between fractures. In this paper, we generalize this approach in order to account for fluxes from matrix to fractures. The quasi steady state hypothesis at the fracture level is still kept. Then, we show that in the case of well separated time scales between matrix and fractures, the preceding model needs only to be slightly modified in order to incorporate these fluxes. The additional knowledge of the so-called matrix to fracture transfer function allows to modify the mass matrix that becomes a time convolution operator. This is reminiscent of existing space averaged transient dual porosity models.

  3. 3-D Reservoir and Stochastic Fracture Network Modeling for Enhanced Oil Recovery, Circle Ridge Phosphoria/Tensleep Reservoir, and River Reservation, Arapaho and Shoshone Tribes, Wyoming

    SciTech Connect

    La Pointe, Paul R.; Hermanson, Jan

    2002-09-09

    The goal of this project is to improve the recovery of oil from the Circle Ridge Oilfield, located on the Wind River Reservation in Wyoming, through an innovative integration of matrix characterization, structural reconstruction, and the characterization of the fracturing in the reservoir through the use of discrete fracture network models.

  4. Self-healing sandwich structures incorporating an interfacial layer with vascular network

    NASA Astrophysics Data System (ADS)

    Chen, Chunlin; Peters, Kara; Li, Yulong

    2013-02-01

    A self-healing capability specifically targeted for sandwich composite laminates based on interfacial layers with built-in vascular networks is presented. The self-healing occurs at the facesheet-core interface through an additional interfacial layer to seal facesheet cracks and rebond facesheet-core regions. The efficacy of introducing the self-healing system at the facesheet-core interface is evaluated through four-point bend and edgewise compression testing of representative foam core sandwich composite specimens with impact induced damage. The self-healing interfacial layer partially restored the specific initial stiffness, doubling the residual initial stiffness as compared to the control specimen after the impact event. The restoration of the ultimate specific skin strength was less successful. The results also highlight the critical challenge in self-healing of sandwich composites, which is to rebond facesheets which have separated from the core material.

  5. 3D Ta/TaO x /TiO2/Ti synaptic array and linearity tuning of weight update for hardware neural network applications

    NASA Astrophysics Data System (ADS)

    Wang, I.-Ting; Chang, Chih-Cheng; Chiu, Li-Wen; Chou, Teyuh; Hou, Tuo-Hung

    2016-09-01

    The implementation of highly anticipated hardware neural networks (HNNs) hinges largely on the successful development of a low-power, high-density, and reliable analog electronic synaptic array. In this study, we demonstrate a two-layer Ta/TaO x /TiO2/Ti cross-point synaptic array that emulates the high-density three-dimensional network architecture of human brains. Excellent uniformity and reproducibility among intralayer and interlayer cells were realized. Moreover, at least 50 analog synaptic weight states could be precisely controlled with minimal drifting during a cycling endurance test of 5000 training pulses at an operating voltage of 3 V. We also propose a new state-independent bipolar-pulse-training scheme to improve the linearity of weight updates. The improved linearity considerably enhances the fault tolerance of HNNs, thus improving the training accuracy.

  6. Development of a 3D cell printed construct considering angiogenesis for liver tissue engineering.

    PubMed

    Lee, Jin Woo; Choi, Yeong-Jin; Yong, Woon-Jae; Pati, Falguni; Shim, Jin-Hyung; Kang, Kyung Shin; Kang, In-Hye; Park, Jaesung; Cho, Dong-Woo

    2016-01-12

    Several studies have focused on the regeneration of liver tissue in a two-dimensional (2D) planar environment, whereas actual liver tissue is three-dimensional (3D). Cell printing technology has been successfully utilized for building 3D structures; however, the poor mechanical properties of cell-laden hydrogels are a major concern. Here, we demonstrate the printing of a 3D cell-laden construct and its application to liver tissue engineering using 3D cell printing technology through a multi-head tissue/organ building system. Polycaprolactone (PCL) was used as a framework material because of its excellent mechanical properties. Collagen bioink containing three different types of cells-hepatocytes (HCs), human umbilical vein endothelial cells , and human lung fibroblasts--was infused into the canals of a PCL framework to induce the formation of capillary--like networks and liver cell growth. A co-cultured 3D microenvironment of the three types of cells was successfully established and maintained. The vascular formation and functional abilities of HCs (i.e., albumin secretion and urea synthesis) demonstrated that the heterotypic interaction among HCs and nonparenchymal cells increased the survivability and functionality of HCs within the collagen gel. Therefore, our results demonstrate the prospect of using cell printing technology for the creation of heterotypic cellular interaction within a structure for liver tissue engineering.

  7. 3-D visualization and quantitation of microvessels in transparent human colorectal carcinoma [corrected].

    PubMed

    Liu, Yuan-An; Pan, Shien-Tung; Hou, Yung-Chi; Shen, Ming-Yin; Peng, Shih-Jung; Tang, Shiue-Cheng; Chung, Yuan-Chiang

    2013-01-01

    Microscopic analysis of tumor vasculature plays an important role in understanding the progression and malignancy of colorectal carcinoma. However, due to the geometry of blood vessels and their connections, standard microtome-based histology is limited in providing the spatial information of the vascular network with a 3-dimensional (3-D) continuum. To facilitate 3-D tissue analysis, we prepared transparent human colorectal biopsies by optical clearing for in-depth confocal microscopy with CD34 immunohistochemistry. Full-depth colons were obtained from colectomies performed for colorectal carcinoma. Specimens were prepared away from (control) and at the tumor site. Taking advantage of the transparent specimens, we acquired anatomic information up to 200 μm in depth for qualitative and quantitative analyses of the vasculature. Examples are given to illustrate: (1) the association between the tumor microstructure and vasculature in space, including the perivascular cuffs of tumor outgrowth, and (2) the difference between the 2-D and 3-D quantitation of microvessels. We also demonstrate that the optically cleared mucosa can be retrieved after 3-D microscopy to perform the standard microtome-based histology (H&E staining and immunohistochemistry) for systematic integration of the two tissue imaging methods. Overall, we established a new tumor histological approach to integrate 3-D imaging, illustration, and quantitation of human colonic microvessels in normal and cancerous specimens. This approach has significant promise to work with the standard histology to better characterize the tumor microenvironment in colorectal carcinoma.

  8. Interfacing 3D micro/nanochannels with a branch-shaped reservoir enhances fluid and mass transport

    NASA Astrophysics Data System (ADS)

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

    2017-01-01

    Three-dimensional (3D) micro/nanofluidic devices can accelerate progress in numerous fields such as tissue engineering, drug delivery, self-healing and cooling devices. However, efficient connections between networks of micro/nanochannels and external fluidic ports are key to successful applications of 3D micro/nanofluidic devices. Therefore, in this work, the extent of the role of reservoir geometry in interfacing with vascular (micro/nanochannel) networks, and in the enabling of connections with external fluidic ports while maintaining the compactness of devices, has been experimentally and theoretically investigated. A statistical modelling suggested that a branch-shaped reservoir demonstrates enhanced interfacing with vascular networks when compared to other regular geometries of reservoirs. Time-lapse dye flow experiments by capillary action through fabricated 3D micro/nanofluidic devices confirmed the connectivity of branch-shaped reservoirs with micro/nanochannel networks in fluidic devices. This demonstrated a ~2.2-fold enhancement of the volumetric flow rate in micro/nanofluidic networks when interfaced to branch-shaped reservoirs over rectangular reservoirs. The enhancement is due to a ~2.8-fold increase in the perimeter of the reservoirs. In addition, the mass transfer experiments exhibited a ~1.7-fold enhancement in solute flux across 3D micro/nanofluidic devices that interfaced with branch-shaped reservoirs when compared to rectangular reservoirs. The fabrication of 3D micro/nanofluidic devices and their efficient interfacing through branch-shaped reservoirs to an external fluidic port can potentially enable their use in complex applications, in which enhanced surface-to-volume interactions are desirable.

  9. Crowdsourcing Based 3d Modeling

    NASA Astrophysics Data System (ADS)

    Somogyi, A.; Barsi, A.; Molnar, B.; Lovas, T.

    2016-06-01

    Web-based photo albums that support organizing and viewing the users' images are widely used. These services provide a convenient solution for storing, editing and sharing images. In many cases, the users attach geotags to the images in order to enable using them e.g. in location based applications on social networks. Our paper discusses a procedure that collects open access images from a site frequently visited by tourists. Geotagged pictures showing the image of a sight or tourist attraction are selected and processed in photogrammetric processing software that produces the 3D model of the captured object. For the particular investigation we selected three attractions in Budapest. To assess the geometrical accuracy, we used laser scanner and DSLR as well as smart phone photography to derive reference values to enable verifying the spatial model obtained from the web-album images. The investigation shows how detailed and accurate models could be derived applying photogrammetric processing software, simply by using images of the community, without visiting the site.

  10. 3D Spectroscopy in Astronomy

    NASA Astrophysics Data System (ADS)

    Mediavilla, Evencio; Arribas, Santiago; Roth, Martin; Cepa-Nogué, Jordi; Sánchez, Francisco

    2011-09-01

    Preface; Acknowledgements; 1. Introductory review and technical approaches Martin M. Roth; 2. Observational procedures and data reduction James E. H. Turner; 3. 3D Spectroscopy instrumentation M. A. Bershady; 4. Analysis of 3D data Pierre Ferruit; 5. Science motivation for IFS and galactic studies F. Eisenhauer; 6. Extragalactic studies and future IFS science Luis Colina; 7. Tutorials: how to handle 3D spectroscopy data Sebastian F. Sánchez, Begona García-Lorenzo and Arlette Pécontal-Rousset.

  11. Spherical 3D isotropic wavelets

    NASA Astrophysics Data System (ADS)

    Lanusse, F.; Rassat, A.; Starck, J.-L.

    2012-04-01

    Context. Future cosmological surveys will provide 3D large scale structure maps with large sky coverage, for which a 3D spherical Fourier-Bessel (SFB) analysis in spherical coordinates is natural. Wavelets are particularly well-suited to the analysis and denoising of cosmological data, but a spherical 3D isotropic wavelet transform does not currently exist to analyse spherical 3D data. Aims: The aim of this paper is to present a new formalism for a spherical 3D isotropic wavelet, i.e. one based on the SFB decomposition of a 3D field and accompany the formalism with a public code to perform wavelet transforms. Methods: We describe a new 3D isotropic spherical wavelet decomposition based on the undecimated wavelet transform (UWT) described in Starck et al. (2006). We also present a new fast discrete spherical Fourier-Bessel transform (DSFBT) based on both a discrete Bessel transform and the HEALPIX angular pixelisation scheme. We test the 3D wavelet transform and as a toy-application, apply a denoising algorithm in wavelet space to the Virgo large box cosmological simulations and find we can successfully remove noise without much loss to the large scale structure. Results: We have described a new spherical 3D isotropic wavelet transform, ideally suited to analyse and denoise future 3D spherical cosmological surveys, which uses a novel DSFBT. We illustrate its potential use for denoising using a toy model. All the algorithms presented in this paper are available for download as a public code called MRS3D at http://jstarck.free.fr/mrs3d.html

  12. 3D Elevation Program—Virtual USA in 3D

    USGS Publications Warehouse

    Lukas, Vicki; Stoker, J.M.

    2016-04-14

    The U.S. Geological Survey (USGS) 3D Elevation Program (3DEP) uses a laser system called ‘lidar’ (light detection and ranging) to create a virtual reality map of the Nation that is very accurate. 3D maps have many uses with new uses being discovered all the time.  

  13. Classical and quantum aspects of spin interaction in 3 d chains on a C u3N -Cu(110) molecular network

    NASA Astrophysics Data System (ADS)

    Bazhanov, D. I.; Stepanyuk, O. V.; Farberovich, O. V.; Stepanyuk, V. S.

    2016-01-01

    We present a study of the magnetic states and exchange coupling in transition-metal Mn, Fe, and Co atomic chains deposited on a self-corrugated C u3N -Cu(110) molecular network by means of first-principles calculations based on the density functional theory. The various adsorption sites on a bumping area of a self-corrugated C u3N layer are investigated where the atomic chains are formed at the initial stage of nanowire growth. We demonstrate, by calculating the ground-state magnetic configurations, that the exchange coupling, magnetic order, and anisotropies in atomic chains depend sensitively on their chemical composition and adsorption sites on the C u3N network. We find that the exchange interactions in atomic chains could lead to ferromagnetic or antiferromagnetic coupling of atomic spins depending on the position of the chain on the surface. The classical spin dynamics is investigated by means of the kinetic Monte Carlo method based on transition-state theory. Moreover we evaluate the Heisenberg-Dirac-Van Vleck quantum spin Hamiltonian for calculations of the magnetic susceptibility, in order to demonstrate the existence of quantum entanglement in the antiferromagnetic atomic chains at low temperatures.

  14. Double-Network Hydrogel with Tunable Mechanical Performance and Biocompatibility for the Fabrication of Stem Cells-Encapsulated Fibers and 3D Assemble

    PubMed Central

    Liang, Zhe; Liu, Chenguang; Li, Lili; Xu, Peidi; Luo, Guoan; Ding, Mingyu; Liang, Qionglin

    2016-01-01

    Fabrication of cell-encapsulated fibers could greatly contribute to tissue engineering and regenerative medicine. However, existing methods suffered from not only unavoidability of cell damaging conditions and/or sophisticated equipment, but also unavailability of proper materials to satisfy both mechanical and biological expectations. In this work, a simple method is proposed to prepare cell-encapsulated fibers with tunable mechanical strength and stretching behavior as well as diameter and microstructure. The hydrogel fibers are made from optimal combination of alginate and poly(N-iso-propylacrylamide)-poly(ethylene glycol), characteristics of double-network hydrogel, with enough stiffness and flexibility to create a variety of three dimensional structures like parallel helical and different knots without crack. Furthermore, such hydrogel fibers exhibit better compatibility as indicated by the viability, proliferation and expression of pluripotency markers of embryonic stem cells encapsulated after 4-day culture. The double-network hydrogel possesses specific quick responses to either of alginate lyase, EDTA or lower environmental temperature which facilitate the optional degradation of fibers or fibrous assemblies to release the cells encapsulated for subsequent assay or treatment. PMID:27628933

  15. 3D World Building System

    ScienceCinema

    None

    2016-07-12

    This video provides an overview of the Sandia National Laboratories developed 3-D World Model Building capability that provides users with an immersive, texture rich 3-D model of their environment in minutes using a laptop and color and depth camera.

  16. 3D Buckligami: Digital Matter

    NASA Astrophysics Data System (ADS)

    van Hecke, Martin; de Reus, Koen; Florijn, Bastiaan; Coulais, Corentin

    2014-03-01

    We present a class of elastic structures which exhibit collective buckling in 3D, and create these by a 3D printing/moulding technique. Our structures consist of cubic lattice of anisotropic unit cells, and we show that their mechanical properties are programmable via the orientation of these unit cells.

  17. 3D World Building System

    SciTech Connect

    2013-10-30

    This video provides an overview of the Sandia National Laboratories developed 3-D World Model Building capability that provides users with an immersive, texture rich 3-D model of their environment in minutes using a laptop and color and depth camera.

  18. LLNL-Earth3D

    SciTech Connect

    2013-10-01

    Earth3D is a computer code designed to allow fast calculation of seismic rays and travel times through a 3D model of the Earth. LLNL is using this for earthquake location and global tomography efforts and such codes are of great interest to the Earth Science community.

  19. Market study: 3-D eyetracker

    NASA Technical Reports Server (NTRS)

    1977-01-01

    A market study of a proposed version of a 3-D eyetracker for initial use at NASA's Ames Research Center was made. The commercialization potential of a simplified, less expensive 3-D eyetracker was ascertained. Primary focus on present and potential users of eyetrackers, as well as present and potential manufacturers has provided an effective means of analyzing the prospects for commercialization.

  20. Application of fuzzy connectedness in 3D blood vessel extraction.

    PubMed

    Lv, Xinrong; Zou, Hua

    2010-01-01

    Three-dimensional (3D) segmentation of blood vessels plays a very important role in solving some practical problems such as diagnosis of vessels diseases. Because of the effective segmentation for 2D images, the fuzzy connectedness segmentation method is introduced to extract vascular structures from 3D blood vessel volume dataset. In the experiments, three segmentation methods including thresholding method, region growing method and fuzzy connectedness method are all used to extract the vascular structures, and their results are compared. The results indicate that fuzzy connectedness method is better than thresholding method in connectivity of segmentation results, and better than region growing method in precision of segmentation results.

  1. 3D vision system assessment

    NASA Astrophysics Data System (ADS)

    Pezzaniti, J. Larry; Edmondson, Richard; Vaden, Justin; Hyatt, Bryan; Chenault, David B.; Kingston, David; Geulen, Vanilynmae; Newell, Scott; Pettijohn, Brad

    2009-02-01

    In this paper, we report on the development of a 3D vision system consisting of a flat panel stereoscopic display and auto-converging stereo camera and an assessment of the system's use for robotic driving, manipulation, and surveillance operations. The 3D vision system was integrated onto a Talon Robot and Operator Control Unit (OCU) such that direct comparisons of the performance of a number of test subjects using 2D and 3D vision systems were possible. A number of representative scenarios were developed to determine which tasks benefited most from the added depth perception and to understand when the 3D vision system hindered understanding of the scene. Two tests were conducted at Fort Leonard Wood, MO with noncommissioned officers ranked Staff Sergeant and Sergeant First Class. The scenarios; the test planning, approach and protocols; the data analysis; and the resulting performance assessment of the 3D vision system are reported.

  2. 3D printing in dentistry.

    PubMed

    Dawood, A; Marti Marti, B; Sauret-Jackson, V; Darwood, A

    2015-12-01

    3D printing has been hailed as a disruptive technology which will change manufacturing. Used in aerospace, defence, art and design, 3D printing is becoming a subject of great interest in surgery. The technology has a particular resonance with dentistry, and with advances in 3D imaging and modelling technologies such as cone beam computed tomography and intraoral scanning, and with the relatively long history of the use of CAD CAM technologies in dentistry, it will become of increasing importance. Uses of 3D printing include the production of drill guides for dental implants, the production of physical models for prosthodontics, orthodontics and surgery, the manufacture of dental, craniomaxillofacial and orthopaedic implants, and the fabrication of copings and frameworks for implant and dental restorations. This paper reviews the types of 3D printing technologies available and their various applications in dentistry and in maxillofacial surgery.

  3. PLOT3D user's manual

    NASA Technical Reports Server (NTRS)

    Walatka, Pamela P.; Buning, Pieter G.; Pierce, Larry; Elson, Patricia A.

    1990-01-01

    PLOT3D is a computer graphics program designed to visualize the grids and solutions of computational fluid dynamics. Seventy-four functions are available. Versions are available for many systems. PLOT3D can handle multiple grids with a million or more grid points, and can produce varieties of model renderings, such as wireframe or flat shaded. Output from PLOT3D can be used in animation programs. The first part of this manual is a tutorial that takes the reader, keystroke by keystroke, through a PLOT3D session. The second part of the manual contains reference chapters, including the helpfile, data file formats, advice on changing PLOT3D, and sample command files.

  4. Utero-placental vascularisation in normal and preeclamptic and intra-uterine growth restriction pregnancies: third trimester quantification using 3D power Doppler with comparison to placental vascular morphology (EVUPA): a prospective controlled study

    PubMed Central

    Duan, Jie; Chabot-Lecoanet, Anne-Claire; Perdriolle-Galet, Estelle; Christov, Christophe; Hossu, Gabriela; Cherifi, Aboubaker; Morel, Olivier

    2016-01-01

    Introduction Preeclampsia (PE) and intra-uterine growth restriction (IUGR) are two major pregnancy complications related to chronic utero-placental hypoperfusion. Three-dimensional power Doppler (3DPD) angiography has been used for the evaluation of utero-placental vascularisation and three vascular indices have been calculated: the vascularisation index (VI), flow index (FI) and vascularisation-FI (VFI). However, several technical endpoints hinder the clinical use of 3DPD as physical characteristics and machine settings may affect 3DPD indices, and so its clinical significance is not yet clear. Objectives The primary objective is to better understand the clinical significance of 3DPD indices by evaluating the relationship between these indices and placental morphometry. Secondary objectives are (i) to determine the impact of machine settings and physical characteristics on 3DPD indices, and (ii) to evaluate physio-pathological placental vascularisation patterns. Methods and analysis This is a prospective controlled study. We expect to include 112 women: 84 with normal pregnancies and 28 with PE and/or IUGR (based on our former cohort study on 3DPD indices for PE and/or IUGR prediction (unpublished data)). Within 72 h before planned or semi-urgent caesarean section, utero-placental 3DPD images with five different machine settings will be acquired. Placentas will be collected and examined after surgery and stereological indices (volume density, surface density, length density) calculated. The 3DPD indices (VI, FI and VFI) of the placenta and adjacent myometrium will be calculated. Correlation between Doppler and morphological indices will be evaluated by Pearson or Spearman tests. Agreement between 3DPD indices and morphological indices will be assessed by Bland and Altman plots. The impact of Doppler settings and maternal characteristics on 3DPD indices will be evaluated with a multivariate linear regression model. Ethics The study and related consent forms have

  5. Structure and hemodynamics of vascular networks in the chorioallantoic membrane of the chicken.

    PubMed

    Maibier, Martin; Reglin, Bettina; Nitzsche, Bianca; Xiang, Weiwei; Rong, Wen Wei; Hoffmann, Björn; Djonov, Valentin; Secomb, Timothy W; Pries, Axel R

    2016-10-01

    The chick chorioallantoic membrane (CAM) is extensively used as an in vivo model. Here, structure and hemodynamics of CAM vessel trees were analyzed and compared with predictions of Murray's law. CAM microvascular networks of Hamburger-Hamilton stage 40 chick embryos were scanned by videomicroscopy. Three networks with ∼3,800, 580, and 480 segments were digitally reconstructed, neglecting the capillary mesh. Vessel diameters (D) and segment lengths were measured, and generation numbers and junctional exponents at bifurcations were derived. In selected vessels, flow velocities (v) and hematocrit were measured. Hemodynamic simulations, incorporating the branching of capillaries from preterminal vessels, were used to estimate v, volume flow, shear stress (τ), and pressure for all segments of the largest network. For individual arteriovenous flow pathways, terminal arterial and venous generation numbers are negatively correlated, leading to low variability of total topological and morphological pathway lengths. Arteriolar velocity is proportional to diameter (v∝D(1.03) measured, v∝D(0.93) modeling), giving nearly uniform τ levels (τ∝D(0.05)). Venular trees exhibit slightly higher exponents (v∝D(1.3), τ∝D(0.38)). Junctional exponents at divergent and convergent bifurcations were 2.05 ± 1.13 and 1.97 ± 0.95 (mean ± SD) in contrast to the value 3 predicted by Murray's law. In accordance with Murray's law, τ levels are (nearly) maintained in CAM arterial (venular) trees, suggesting vascular adaptation to shear stress. Arterial and venous trees show an interdigitating arrangement providing homogeneous flow pathway properties and have preterminal capillary branches. These properties may facilitate efficient oxygen exchange in the CAM during rapid embryonic growth.

  6. Global optimization of data quality checks on 2-D and 3-D networks of GPR cross-well tomographic data for automatic correction of unknown well deviations

    SciTech Connect

    Sassen, D. S.; Peterson, J. E.

    2010-03-15

    Significant errors related to poor time zero estimation, well deviation or mislocation of the transmitter (TX) and receiver (RX) stations can render even the most sophisticated modeling and inversion routine useless. Previous examples of methods for the analysis and correction of data errors in geophysical tomography include the works of Maurer and Green (1997), Squires et al. (1992) and Peterson (2001). Here we follow the analysis and techniques of Peterson (2001) for data quality control and error correction. Through our data acquisition and quality control procedures we have very accurate control on the surface locations of wells, the travel distance of both the transmitter and receiver within the boreholes, and the change in apparent zero time. However, we often have poor control on well deviations, either because of economic constraints or the nature of the borehole itself prevented the acquisition of well deviation logs. Also, well deviation logs can sometimes have significant errors. Problems with borehole deviations can be diagnosed prior to inversion of travel-time tomography data sets by plotting the apparent velocity of a straight ray connecting a transmitter (TX) to a receiver (RX) against the take-off angle of the ray. Issues with the time-zero pick or distances between wells appear as symmetric smiles or frown in these QC plots. Well deviation or dipping-strong anisotropy will result in an asymmetric correlation between apparent velocity and take-off angle (Figure 1-B). In addition, when a network of interconnected GPR tomography data is available, one has the additional quality constraint of insuring that there is continuity in velocity between immediately adjacent tomograms. A sudden shift in the mean velocity indicates that either position deviations are present or there is a shift in the pick times. Small errors in well geometry may be effectively treated during inversion by including weighting, or relaxation, parameters into the inversion (e

  7. PLOT3D/AMES, APOLLO UNIX VERSION USING GMR3D (WITHOUT TURB3D)

    NASA Technical Reports Server (NTRS)

    Buning, P.

    1994-01-01

    PLOT3D is an interactive graphics program designed to help scientists visualize computational fluid dynamics (CFD) grids and solutions. Today, supercomputers and CFD algorithms can provide scientists with simulations of such highly complex phenomena that obtaining an understanding of the simulations has become a major problem. Tools which help the scientist visualize the simulations can be of tremendous aid. PLOT3D/AMES offers more functions and features, and has been adapted for more types of computers than any other CFD graphics program. Version 3.6b+ is supported for five computers and graphic libraries. Using PLOT3D, CFD physicists can view their computational models from any angle, observing the physics of problems and the quality of solutions. As an aid in designing aircraft, for example, PLOT3D's interactive computer graphics can show vortices, temperature, reverse flow, pressure, and dozens of other characteristics of air flow during flight. As critical areas become obvious, they can easily be studied more closely using a finer grid. PLOT3D is part of a computational fluid dynamics software cycle. First, a program such as 3DGRAPE (ARC-12620) helps the scientist generate computational grids to model an object and its surrounding space. Once the grids have been designed and parameters such as the angle of attack, Mach number, and Reynolds number have been specified, a "flow-solver" program such as INS3D (ARC-11794 or COS-10019) solves the system of equations governing fluid flow, usually on a supercomputer. Grids sometimes have as many as two million points, and the "flow-solver" produces a solution file which contains density, x- y- and z-momentum, and stagnation energy for each grid point. With such a solution file and a grid file containing up to 50 grids as input, PLOT3D can calculate and graphically display any one of 74 functions, including shock waves, surface pressure, velocity vectors, and particle traces. PLOT3D's 74 functions are organized into

  8. PLOT3D/AMES, APOLLO UNIX VERSION USING GMR3D (WITH TURB3D)

    NASA Technical Reports Server (NTRS)

    Buning, P.

    1994-01-01

    PLOT3D is an interactive graphics program designed to help scientists visualize computational fluid dynamics (CFD) grids and solutions. Today, supercomputers and CFD algorithms can provide scientists with simulations of such highly complex phenomena that obtaining an understanding of the simulations has become a major problem. Tools which help the scientist visualize the simulations can be of tremendous aid. PLOT3D/AMES offers more functions and features, and has been adapted for more types of computers than any other CFD graphics program. Version 3.6b+ is supported for five computers and graphic libraries. Using PLOT3D, CFD physicists can view their computational models from any angle, observing the physics of problems and the quality of solutions. As an aid in designing aircraft, for example, PLOT3D's interactive computer graphics can show vortices, temperature, reverse flow, pressure, and dozens of other characteristics of air flow during flight. As critical areas become obvious, they can easily be studied more closely using a finer grid. PLOT3D is part of a computational fluid dynamics software cycle. First, a program such as 3DGRAPE (ARC-12620) helps the scientist generate computational grids to model an object and its surrounding space. Once the grids have been designed and parameters such as the angle of attack, Mach number, and Reynolds number have been specified, a "flow-solver" program such as INS3D (ARC-11794 or COS-10019) solves the system of equations governing fluid flow, usually on a supercomputer. Grids sometimes have as many as two million points, and the "flow-solver" produces a solution file which contains density, x- y- and z-momentum, and stagnation energy for each grid point. With such a solution file and a grid file containing up to 50 grids as input, PLOT3D can calculate and graphically display any one of 74 functions, including shock waves, surface pressure, velocity vectors, and particle traces. PLOT3D's 74 functions are organized into

  9. An image-based software tool for screening retinal fundus images using vascular morphology and network transport analysis

    NASA Astrophysics Data System (ADS)

    Clark, Richard D.; Dickrell, Daniel J.; Meadows, David L.

    2014-03-01

    As the number of digital retinal fundus images taken each year grows at an increasing rate, there exists a similarly increasing need for automatic eye disease detection through image-based analysis. A new method has been developed for classifying standard color fundus photographs into both healthy and diseased categories. This classification was based on the calculated network fluid conductance, a function of the geometry and connectivity of the vascular segments. To evaluate the network resistance, the retinal vasculature was first manually separated from the background to ensure an accurate representation of the geometry and connectivity. The arterial and venous networks were then semi-automatically separated into two separate binary images. The connectivity of the arterial network was then determined through a series of morphological image operations. The network comprised of segments of vasculature and points of bifurcation, with each segment having a characteristic geometric and fluid properties. Based on the connectivity and fluid resistance of each vascular segment, an arterial network flow conductance was calculated, which described the ease with which blood can pass through a vascular system. In this work, 27 eyes (13 healthy and 14 diabetic) from patients roughly 65 years in age were evaluated using this methodology. Healthy arterial networks exhibited an average fluid conductance of 419 ± 89 μm3/mPa-s while the average network fluid conductance of the diabetic set was 165 ± 87 μm3/mPa-s (p < 0.001). The results of this new image-based software demonstrated an ability to automatically, quantitatively and efficiently screen diseased eyes from color fundus imagery.

  10. Unassisted 3D camera calibration

    NASA Astrophysics Data System (ADS)

    Atanassov, Kalin; Ramachandra, Vikas; Nash, James; Goma, Sergio R.

    2012-03-01

    With the rapid growth of 3D technology, 3D image capture has become a critical part of the 3D feature set on mobile phones. 3D image quality is affected by the scene geometry as well as on-the-device processing. An automatic 3D system usually assumes known camera poses accomplished by factory calibration using a special chart. In real life settings, pose parameters estimated by factory calibration can be negatively impacted by movements of the lens barrel due to shaking, focusing, or camera drop. If any of these factors displaces the optical axes of either or both cameras, vertical disparity might exceed the maximum tolerable margin and the 3D user may experience eye strain or headaches. To make 3D capture more practical, one needs to consider unassisted (on arbitrary scenes) calibration. In this paper, we propose an algorithm that relies on detection and matching of keypoints between left and right images. Frames containing erroneous matches, along with frames with insufficiently rich keypoint constellations, are detected and discarded. Roll, pitch yaw , and scale differences between left and right frames are then estimated. The algorithm performance is evaluated in terms of the remaining vertical disparity as compared to the maximum tolerable vertical disparity.

  11. 3-D shear wave velocity model of Mexico and South US: bridging seismic networks with ambient noise cross-correlations (C1) and correlation of coda of correlations (C3)

    NASA Astrophysics Data System (ADS)

    Spica, Zack; Perton, Mathieu; Calò, Marco; Legrand, Denis; Córdoba-Montiel, Francisco; Iglesias, Arturo

    2016-09-01

    This work presents an innovative strategy to enhance the resolution of surface wave tomography obtained from ambient noise cross-correlation (C1) by bridging asynchronous seismic networks through the correlation of coda of correlations (C3). Rayleigh wave group dispersion curves show consistent results between synchronous and asynchronous stations. Rayleigh wave group traveltimes are inverted to construct velocity-period maps with unprecedented resolution for a region covering Mexico and the southern United States. The resulting period maps are then used to regionalize dispersion curves in order to obtain local 1-D shear velocity models (VS) of the crust and uppermost mantle in every cell of a grid of 0.4°. The 1-D structures are obtained by iteratively adding layers until reaching a given misfit, and a global tomography model is considered as an input for depths below 150 km. Finally, a high-resolution 3-D VS model is obtained from these inversions. The major structures observed in the 3-D model are in agreement with the tectonic-geodynamic features and with previous regional and local studies. It also offers new insights to understand the present and past tectonic evolution of the region.

  12. 3D Scan Systems Integration

    DTIC Science & Technology

    2007-11-02

    AGENCY USE ONLY (Leave Blank) 2. REPORT DATE 5 Feb 98 4. TITLE AND SUBTITLE 3D Scan Systems Integration REPORT TYPE AND DATES COVERED...2-89) Prescribed by ANSI Std. Z39-1 298-102 [ EDO QUALITY W3PECTEDI DLA-ARN Final Report for US Defense Logistics Agency on DDFG-T2/P3: 3D...SCAN SYSTEMS INTEGRATION Contract Number SPO100-95-D-1014 Contractor Ohio University Delivery Order # 0001 Delivery Order Title 3D Scan Systems

  13. Reply to the 'Comment on "Discovery of a tetracontinuous, aqueous lyotropic network phase with unusual 3D-hexagonal symmetry"' by G. Schröder-Turk, M. Fischer and S. Hyde.

    PubMed

    Sorenson, Gregory P; Mahanthappa, Mahesh K

    2015-02-14

    A new calculation by Fischer et al. suggests that the 3etc network phase with 3D-hexagonal symmetry (space group #193: P63/mcm) may be a generic structure adopted by self-assembling soft materials, thereby broadening the context for our recent report of its spontaneous formation in lyotropic liquid crystals. The experimental observation of the 3etc phase further validates previous theoretical models used to predict its stability, provocatively suggesting that other polycontinuous network phases predicted by these methods may be discovered in the future. While these network phase morphologies are often mathematically described in terms of their underlying triply periodic minimal surfaces (TPMS), the numerous potential applications of these functional nanostructured soft materials require the development of a concise, consistent, and unambiguous nomenclature for their complete description. In this comment, we propose adoption of a nomenclature that describes each mesophase more generally in terms of the total number of non-intersecting domains into which three-dimensional space is partitioned.

  14. Surface water, groundwater and unified 3D-crack network as a triple coupling dynamic system for a river watershed functioning - manifestation in catastrophic floods

    NASA Astrophysics Data System (ADS)

    Trifonova, Tatiana; Tulenev, Nikita; Trifonov, Dmitriy; Arakelian, Sergei

    2014-05-01

    1. Surface water and groundwater interaction model under conditions of huge level of precipitation in catastrophic floods and mudflows for mountain river watershed is introduced. Seismic processes and volcanic activity impact on the formation of disastrous floods due to dramatic change of the pressure field in groundwater horizons, is under discussion for such a triple coupling system, i.e. surface water - groundwater - crack network. Under the conception we analyze recent (2013) catastrophic water events: the catastrophic floods in Western Europe (May-June, 2013), in the Amur river basin, Russia/China (Aug.-Sept, 2013) and in Colorado, USA (Sept. 12-15,2013). In addition, a separate analysis is carried out for debris event in the Krimsk-city, Caucasus (Krasnodar) region, Russia (July 06-07, 2012). 2. There is a group of problems determined by dramatic discrepancies in water mass balance and other vital parameters, on the one hand, by estimation for different types of atmospheric precipitation (both torrential rain and continuous precipitations) and, on the other hand, for observable natural water events (i.e. catastrophic floods and/or mudflows/debris) on concrete territory. Analysis of many facts result in conclusion that we have the hard comparable/coincidence parameters under traditional conception for discussed events as an isolated/closed (river + rain) runoff-system. In contrast, the reasonable point of view does exist if we take into account the contribution of extra water source, which should be localized in river channel, i.e. functioning of open [(river + rain) + groundwater] flow-system has a principal meaning to understand the events occurrence. 3. The analysis and modeling for the events are carried out by us taking into account the following databases: (i) groundwater map dislocation, it resources and flow balance in studied areas, especially near the land surface being unstable in hydrological sense by many reasons, as well due to heavy rain

  15. 3D polymer scaffold arrays.

    PubMed

    Simon, Carl G; Yang, Yanyin; Dorsey, Shauna M; Ramalingam, Murugan; Chatterjee, Kaushik

    2011-01-01

    We have developed a combinatorial platform for fabricating tissue scaffold arrays that can be used for screening cell-material interactions. Traditional research involves preparing samples one at a time for characterization and testing. Combinatorial and high-throughput (CHT) methods lower the cost of research by reducing the amount of time and material required for experiments by combining many samples into miniaturized specimens. In order to help accelerate biomaterials research, many new CHT methods have been developed for screening cell-material interactions where materials are presented to cells as a 2D film or surface. However, biomaterials are frequently used to fabricate 3D scaffolds, cells exist in vivo in a 3D environment and cells cultured in a 3D environment in vitro typically behave more physiologically than those cultured on a 2D surface. Thus, we have developed a platform for fabricating tissue scaffold libraries where biomaterials can be presented to cells in a 3D format.

  16. Autofocus for 3D imaging

    NASA Astrophysics Data System (ADS)

    Lee-Elkin, Forest

    2008-04-01

    Three dimensional (3D) autofocus remains a significant challenge for the development of practical 3D multipass radar imaging. The current 2D radar autofocus methods are not readily extendable across sensor passes. We propose a general framework that allows a class of data adaptive solutions for 3D auto-focus across passes with minimal constraints on the scene contents. The key enabling assumption is that portions of the scene are sparse in elevation which reduces the number of free variables and results in a system that is simultaneously solved for scatterer heights and autofocus parameters. The proposed method extends 2-pass interferometric synthetic aperture radar (IFSAR) methods to an arbitrary number of passes allowing the consideration of scattering from multiple height locations. A specific case from the proposed autofocus framework is solved and demonstrates autofocus and coherent multipass 3D estimation across the 8 passes of the "Gotcha Volumetric SAR Data Set" X-Band radar data.

  17. VAN3 ARF-GAP-mediated vesicle transport is involved in leaf vascular network formation.

    PubMed

    Koizumi, Koji; Naramoto, Satoshi; Sawa, Shinichiro; Yahara, Natsuko; Ueda, Takashi; Nakano, Akihiko; Sugiyama, Munetaka; Fukuda, Hiroo

    2005-04-01

    Within the leaf of an angiosperm, the vascular system is constructed in a complex network pattern called venation. The formation of this vein pattern has been widely studied as a paradigm of tissue pattern formation in plants. To elucidate the molecular mechanism controlling the vein patterning process, we previously isolated Arabidopsis mutants van1 to van7, which show a discontinuous vein pattern. Here we report the phenotypic analysis of the van3 mutant in relation to auxin signaling and polar transport, and the molecular characterization of the VAN3 gene and protein. Double mutant analyses with pin1, emb30-7/gn and mp, and physiological analyses using the auxin-inducible marker DR5::GUS and an auxin transport inhibitor indicated that VAN3 may be involved in auxin signal transduction, but not in polar auxin transport. Positional cloning identified VAN3 as a gene that encodes an adenosine diphosphate (ADP)-ribosylation factor-guanosine triphosphatase (GTPase) activating protein (ARF-GAP). It resembles animal ACAPs and contains four domains: a BAR (BIN/amphiphysin/RVS) domain, a pleckstrin homology (PH) domain, an ARF-GAP domain and an ankyrin (ANK)-repeat domain. Recombinant VAN3 protein showed GTPase-activating activity and a specific affinity for phosphatidylinositols. This protein can self-associate through the N-terminal BAR domain in the yeast two-hybrid system. Subcellular localization analysis by double staining for Venus-tagged VAN3 and several green-fluorescent-protein-tagged intracellular markers indicated that VAN3 is located in a subpopulation of the trans-Golgi network (TGN). Our results indicate that the expression of this gene is induced by auxin and positively regulated by VAN3 itself, and that a specific ACAP type of ARF-GAP functions in vein pattern formation by regulating auxin signaling via a TGN-mediated vesicle transport system.

  18. Combinatorial 3D Mechanical Metamaterials

    NASA Astrophysics Data System (ADS)

    Coulais, Corentin; Teomy, Eial; de Reus, Koen; Shokef, Yair; van Hecke, Martin

    2015-03-01

    We present a class of elastic structures which exhibit 3D-folding motion. Our structures consist of cubic lattices of anisotropic unit cells that can be tiled in a complex combinatorial fashion. We design and 3d-print this complex ordered mechanism, in which we combine elastic hinges and defects to tailor the mechanics of the material. Finally, we use this large design space to encode smart functionalities such as surface patterning and multistability.

  19. Characterization of mouse spinal cord vascular network by means of synchrotron radiation X-ray phase contrast tomography.

    PubMed

    Massimi, Lorenzo; Fratini, Michela; Bukreeva, Inna; Brun, Francesco; Mittone, Alberto; Campi, Gaetano; Spanò, Raffaele; Mastrogiacomo, Milena; de Rosbo, Nicole Kerlero; Bravin, Alberto; Uccelli, Antonio; Cedola, Alessia

    2016-12-01

    High resolution Synchrotron-based X-ray Phase Contrast Tomography (XPCT) allows the simultaneous detection of three dimensional neuronal and vascular networks without using contrast agents or invasive casting preparation. We show and discuss the different features observed in reconstructed XPCT volumes of the ex vivo mouse spinal cord in the lumbo-sacral region, including motor neurons and blood vessels. We report the application of an intensity-based segmentation method to detect and quantitatively characterize the modification in the vascular networks in terms of reduction in experimental visibility. In particular, we apply our approach to the case of the experimental autoimmune encephalomyelitis (EAE), i.e. human multiple sclerosis animal model.

  20. Engineering of In Vitro 3D Capillary Beds by Self-Directed Angiogenic Sprouting

    PubMed Central

    Chan, Juliana M.; Zervantonakis, Ioannis K.; Rimchala, Tharathorn; Polacheck, William J.; Whisler, Jordan; Kamm, Roger D.

    2012-01-01

    In recent years, microfluidic systems have been used to study fundamental aspects of angiogenesis through the patterning of single-layered, linear or geometric vascular channels. In vivo, however, capillaries exist in complex, three-dimensional (3D) networks, and angiogenic sprouting occurs with a degree of unpredictability in all x,y,z planes. The ability to generate capillary beds in vitro that can support thick, biological tissues remains a key challenge to the regeneration of vital organs. Here, we report the engineering of 3D capillary beds in an in vitro microfluidic platform that is comprised of a biocompatible collagen I gel supported by a mechanical framework of alginate beads. The engineered vessels have patent lumens, form robust ∼1.5 mm capillary networks across the devices, and support the perfusion of 1 µm fluorescent beads through them. In addition, the alginate beads offer a modular method to encapsulate and co-culture cells that either promote angiogenesis or require perfusion for cell viability in engineered tissue constructs. This laboratory-constructed vascular supply may be clinically significant for the engineering of capillary beds and higher order biological tissues in a scalable and modular manner. PMID:23226527

  1. Efficient curve-skeleton computation for the analysis of biomedical 3d images - biomed 2010.

    PubMed

    Brun, Francesco; Dreossi, Diego

    2010-01-01

    Advances in three dimensional (3D) biomedical imaging techniques, such as magnetic resonance (MR) and computed tomography (CT), make it easy to reconstruct high quality 3D models of portions of human body and other biological specimens. A major challenge lies in the quantitative analysis of the resulting models thus allowing a more comprehensive characterization of the object under investigation. An interesting approach is based on curve-skeleton (or medial axis) extraction, which gives basic information concerning the topology and the geometry. Curve-skeletons have been applied in the analysis of vascular networks and the diagnosis of tracheal stenoses as well as a 3D flight path in virtual endoscopy. However curve-skeleton computation is a crucial task. An effective skeletonization algorithm was introduced by N. Cornea in [1] but it lacks in computational performances. Thanks to the advances in imaging techniques the resolution of 3D images is increasing more and more, therefore there is the need for efficient algorithms in order to analyze significant Volumes of Interest (VOIs). In the present paper an improved skeletonization algorithm based on the idea proposed in [1] is presented. A computational comparison between the original and the proposed method is also reported. The obtained results show that the proposed method allows a significant computational improvement making more appealing the adoption of the skeleton representation in biomedical image analysis applications.

  2. From 3D view to 3D print

    NASA Astrophysics Data System (ADS)

    Dima, M.; Farisato, G.; Bergomi, M.; Viotto, V.; Magrin, D.; Greggio, D.; Farinato, J.; Marafatto, L.; Ragazzoni, R.; Piazza, D.

    2014-08-01

    In the last few years 3D printing is getting more and more popular and used in many fields going from manufacturing to industrial design, architecture, medical support and aerospace. 3D printing is an evolution of bi-dimensional printing, which allows to obtain a solid object from a 3D model, realized with a 3D modelling software. The final product is obtained using an additive process, in which successive layers of material are laid down one over the other. A 3D printer allows to realize, in a simple way, very complex shapes, which would be quite difficult to be produced with dedicated conventional facilities. Thanks to the fact that the 3D printing is obtained superposing one layer to the others, it doesn't need any particular work flow and it is sufficient to simply draw the model and send it to print. Many different kinds of 3D printers exist based on the technology and material used for layer deposition. A common material used by the toner is ABS plastics, which is a light and rigid thermoplastic polymer, whose peculiar mechanical properties make it diffusely used in several fields, like pipes production and cars interiors manufacturing. I used this technology to create a 1:1 scale model of the telescope which is the hardware core of the space small mission CHEOPS (CHaracterising ExOPlanets Satellite) by ESA, which aims to characterize EXOplanets via transits observations. The telescope has a Ritchey-Chrétien configuration with a 30cm aperture and the launch is foreseen in 2017. In this paper, I present the different phases for the realization of such a model, focusing onto pros and cons of this kind of technology. For example, because of the finite printable volume (10×10×12 inches in the x, y and z directions respectively), it has been necessary to split the largest parts of the instrument in smaller components to be then reassembled and post-processed. A further issue is the resolution of the printed material, which is expressed in terms of layers

  3. YouDash3D: exploring stereoscopic 3D gaming for 3D movie theaters

    NASA Astrophysics Data System (ADS)

    Schild, Jonas; Seele, Sven; Masuch, Maic

    2012-03-01

    Along with the success of the digitally revived stereoscopic cinema, events beyond 3D movies become attractive for movie theater operators, i.e. interactive 3D games. In this paper, we present a case that explores possible challenges and solutions for interactive 3D games to be played by a movie theater audience. We analyze the setting and showcase current issues related to lighting and interaction. Our second focus is to provide gameplay mechanics that make special use of stereoscopy, especially depth-based game design. Based on these results, we present YouDash3D, a game prototype that explores public stereoscopic gameplay in a reduced kiosk setup. It features live 3D HD video stream of a professional stereo camera rig rendered in a real-time game scene. We use the effect to place the stereoscopic effigies of players into the digital game. The game showcases how stereoscopic vision can provide for a novel depth-based game mechanic. Projected trigger zones and distributed clusters of the audience video allow for easy adaptation to larger audiences and 3D movie theater gaming.

  4. Breast tumor angiogenesis analysis using 3D power Doppler ultrasound

    NASA Astrophysics Data System (ADS)

    Chang, Ruey-Feng; Huang, Sheng-Fang; Lee, Yu-Hau; Chen, Dar-Ren; Moon, Woo Kyung

    2006-03-01

    Angiogenesis is the process that correlates to tumor growth, invasion, and metastasis. Breast cancer angiogenesis has been the most extensively studied and now serves as a paradigm for understanding the biology of angiogenesis and its effects on tumor outcome and patient prognosis. Most studies on characterization of angiogenesis focus on pixel/voxel counts more than morphological analysis. Nevertheless, in cancer, the blood flow is greatly affected by the morphological changes, such as the number of vessels, branching pattern, length, and diameter. This paper presents a computer-aided diagnostic (CAD) system that can quantify vascular morphology using 3-D power Doppler ultrasound (US) on breast tumors. We propose a scheme to extract the morphological information from angiography and to relate them to tumor diagnosis outcome. At first, a 3-D thinning algorithm helps narrow down the vessels into their skeletons. The measurements of vascular morphology significantly rely on the traversing of the vascular trees produced from skeletons. Our study of 3-D assessment of vascular morphological features regards vessel count, length, bifurcation, and diameter of vessels. Investigations into 221 solid breast tumors including 110 benign and 111 malignant cases, the p values using the Student's t-test for all features are less than 0.05 indicating that the proposed features are deemed statistically significant. Our scheme focuses on the vascular architecture without involving the technique of tumor segmentation. The results show that the proposed method is feasible, and have a good agreement with the diagnosis of the pathologists.

  5. Speaking Volumes About 3-D

    NASA Technical Reports Server (NTRS)

    2002-01-01

    In 1999, Genex submitted a proposal to Stennis Space Center for a volumetric 3-D display technique that would provide multiple users with a 360-degree perspective to simultaneously view and analyze 3-D data. The futuristic capabilities of the VolumeViewer(R) have offered tremendous benefits to commercial users in the fields of medicine and surgery, air traffic control, pilot training and education, computer-aided design/computer-aided manufacturing, and military/battlefield management. The technology has also helped NASA to better analyze and assess the various data collected by its satellite and spacecraft sensors. Genex capitalized on its success with Stennis by introducing two separate products to the commercial market that incorporate key elements of the 3-D display technology designed under an SBIR contract. The company Rainbow 3D(R) imaging camera is a novel, three-dimensional surface profile measurement system that can obtain a full-frame 3-D image in less than 1 second. The third product is the 360-degree OmniEye(R) video system. Ideal for intrusion detection, surveillance, and situation management, this unique camera system offers a continuous, panoramic view of a scene in real time.

  6. Skeletonization algorithm-based blood vessel quantification using in vivo 3D photoacoustic imaging

    NASA Astrophysics Data System (ADS)

    Meiburger, K. M.; Nam, S. Y.; Chung, E.; Suggs, L. J.; Emelianov, S. Y.; Molinari, F.

    2016-11-01

    Blood vessels are the only system to provide nutrients and oxygen to every part of the body. Many diseases can have significant effects on blood vessel formation, so that the vascular network can be a cue to assess malicious tumor and ischemic tissues. Various imaging techniques can visualize blood vessel structure, but their applications are often constrained by either expensive costs, contrast agents, ionizing radiations, or a combination of the above. Photoacoustic imaging combines the high-contrast and spectroscopic-based specificity of optical imaging with the high spatial resolution of ultrasound imaging, and image contrast depends on optical absorption. This enables the detection of light absorbing chromophores such as hemoglobin with a greater penetration depth compared to purely optical techniques. We present here a skeletonization algorithm for vessel architectural analysis using non-invasive photoacoustic 3D images acquired without the administration of any exogenous contrast agents. 3D photoacoustic images were acquired on rats (n  =  4) in two different time points: before and after a burn surgery. A skeletonization technique based on the application of a vesselness filter and medial axis extraction is proposed to extract the vessel structure from the image data and six vascular parameters (number of vascular trees (NT), vascular density (VD), number of branches (NB), 2D distance metric (DM), inflection count metric (ICM), and sum of angles metric (SOAM)) were calculated from the skeleton. The parameters were compared (1) in locations with and without the burn wound on the same day and (2) in the same anatomic location before (control) and after the burn surgery. Four out of the six descriptors were statistically different (VD, NB, DM, ICM, p  <  0.05) when comparing two anatomic locations on the same day and when considering the same anatomic location at two separate times (i.e. before and after burn surgery). The study demonstrates an

  7. Personalized development of human organs using 3D printing technology.

    PubMed

    Radenkovic, Dina; Solouk, Atefeh; Seifalian, Alexander

    2016-02-01

    3D printing is a technique of fabricating physical models from a 3D volumetric digital image. The image is sliced and printed using a specific material into thin layers, and successive layering of the material produces a 3D model. It has already been used for printing surgical models for preoperative planning and in constructing personalized prostheses for patients. The ultimate goal is to achieve the development of functional human organs and tissues, to overcome limitations of organ transplantation created by the lack of organ donors and life-long immunosuppression. We hypothesized a precision medicine approach to human organ fabrication using 3D printed technology, in which the digital volumetric data would be collected by imaging of a patient, i.e. CT or MRI images followed by mathematical modeling to create a digital 3D image. Then a suitable biocompatible material, with an optimal resolution for cells seeding and maintenance of cell viability during the printing process, would be printed with a compatible printer type and finally implanted into the patient. Life-saving operations with 3D printed implants were already performed in patients. However, several issues need to be addressed before translational application of 3D printing into clinical medicine. These are vascularization, innervation, and financial cost of 3D printing and safety of biomaterials used for the construct.

  8. Tracking earthquake source evolution in 3-D

    NASA Astrop