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Computing a Pocket Depth Descriptor for Bio-Molecules 计算生物分子的口袋深度描述符
2007 IEEE Dallas Engineering in Medicine and Biology Workshop Pub Date : 2007-11-01 DOI: 10.1109/EMBSW.2007.4454184
O. Daescu, Y. Cheung
{"title":"Computing a Pocket Depth Descriptor for Bio-Molecules","authors":"O. Daescu, Y. Cheung","doi":"10.1109/EMBSW.2007.4454184","DOIUrl":"https://doi.org/10.1109/EMBSW.2007.4454184","url":null,"abstract":"We consider the following problem. Given a simple polytope S in R3, with a total of n edges, and a query point s on S, find a shortest path from s to the boundary of the convex hull, CH(S), of S, that does not go through the interior of S. The problem has applications in structural proteomics in the computation of shape descriptors. Specifically, if s is a point on the surface S of a protein P and s is within a pocket of P, finding the pocket depth of s reduces to this problem. Our main contribution is to show how to extend two point-to-point approximation algorithms proposed by Papadimitriou and Har-Peled to solve the point-to-face version of the shortest path problem proposed in this paper.","PeriodicalId":333843,"journal":{"name":"2007 IEEE Dallas Engineering in Medicine and Biology Workshop","volume":"39 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2007-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"133761764","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Novel Method to Monitor Cell Survival and Distribution in PLGA Degradable Scaffolds 监测PLGA可降解支架中细胞存活和分布的新方法
2007 IEEE Dallas Engineering in Medicine and Biology Workshop Pub Date : 2007-11-01 DOI: 10.1109/EMBSW.2007.4454168
P. Thevenot, Liping Tang
{"title":"Novel Method to Monitor Cell Survival and Distribution in PLGA Degradable Scaffolds","authors":"P. Thevenot, Liping Tang","doi":"10.1109/EMBSW.2007.4454168","DOIUrl":"https://doi.org/10.1109/EMBSW.2007.4454168","url":null,"abstract":"Cell survival and infiltration into tissue engineering scaffolds affects both the rate at which cells proliferate on the scaffold and the ultimate functionality of the scaffold. In order to assess cell distribution and growth in degradable scaffolds, we have developed a combination of methods that results in a 3D image that can be used to assess cell viability and distribution within PLGA scaffolds. These methods involve first labeling live cells with specific fluorescence dyes, sectioning of the scaffold construct, compilation of fluorescence images, deconvolution, and reassembly into a 3D image. Our results have shown cell seeding by orbital shaking is the best method to seed cells while causing minimal cell death due to stress and/or media deprivation while allowing cell distribution throughout the entire scaffold. In addition, analysis of the compiled images shows that most cells reside on the surface and in the porous area near the scaffold surface after static seeding.","PeriodicalId":333843,"journal":{"name":"2007 IEEE Dallas Engineering in Medicine and Biology Workshop","volume":"13 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2007-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"121264847","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 3
Surface Modeling of Multiple Bone Objects By Staged Self-Organizing Map Neural Network 基于阶段自组织映射神经网络的多骨物体表面建模
2007 IEEE Dallas Engineering in Medicine and Biology Workshop Pub Date : 2007-11-01 DOI: 10.1109/EMBSW.2007.4454177
Hong Lin
{"title":"Surface Modeling of Multiple Bone Objects By Staged Self-Organizing Map Neural Network","authors":"Hong Lin","doi":"10.1109/EMBSW.2007.4454177","DOIUrl":"https://doi.org/10.1109/EMBSW.2007.4454177","url":null,"abstract":"In this paper the surface modeling of complex (ill-posed) bone objects by the self-organizing map (SOM) artificial neural network is introduced for the purpose of future 3-D surgical planning and 3-D/2-D registration in intra-operative fluoroscopic image guidance and monitoring of orthopedic surgery. Self-organizing map, an unsupervised neural network is initialized with the three-dimensional globe of grids. The 3-D point-clouds used by SOM network learning are obtained by delineating the interested bone outlines on each slice of MRI or CT images. Depending on the complexity of bone structure, each bone segment can be modeled by either one step or two step unsupervised neural network learning. The transformation of constructed 3-D bone models can be performed in 6 degree of freedom (DOF) plus scaling. Thus it is possible that the 3-D surgical planning can be executed in OR through 3-D/2-D registration by surgery monitoring and guidance.","PeriodicalId":333843,"journal":{"name":"2007 IEEE Dallas Engineering in Medicine and Biology Workshop","volume":"155 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2007-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"114905521","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A Software Tool for Registration Based Distortion Correction in Echo Planar Imaging 一种基于配准的回波平面成像畸变校正软件
2007 IEEE Dallas Engineering in Medicine and Biology Workshop Pub Date : 2007-11-01 DOI: 10.1109/EMBSW.2007.4454159
A. Gholipour, N. Kehtarnavaz, K. Gopinath, R. Briggs
{"title":"A Software Tool for Registration Based Distortion Correction in Echo Planar Imaging","authors":"A. Gholipour, N. Kehtarnavaz, K. Gopinath, R. Briggs","doi":"10.1109/EMBSW.2007.4454159","DOIUrl":"https://doi.org/10.1109/EMBSW.2007.4454159","url":null,"abstract":"There exists a need for more accurate functional localization through the registration of functional to anatomical magnetic resonance brain images. This paper introduces a new software tool, named NPTK, that has been developed at the Signal and Image Processing Laboratory of the University of Texas at Dallas for improved functional localization in single- subject analysis. This software toolkit is developed based on recently introduced non-rigid registration and field map distortion correction techniques, which has been validated via in-vivo validation of retrospective distortion correction in Echo- Planar Imaging. The paper provides an overview of the entire functional localization pipeline, an algorithmic description of the developed software, and a discussion on the performance and applications of the software.","PeriodicalId":333843,"journal":{"name":"2007 IEEE Dallas Engineering in Medicine and Biology Workshop","volume":"4 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2007-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"133519442","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 6
Design and application of the Microscopy Image Analysis Tool 显微图像分析工具的设计与应用
2007 IEEE Dallas Engineering in Medicine and Biology Workshop Pub Date : 2007-11-01 DOI: 10.1109/EMBSW.2007.4454182
J. Chao, P. Long, E. Ward, R. Ober
{"title":"Design and application of the Microscopy Image Analysis Tool","authors":"J. Chao, P. Long, E. Ward, R. Ober","doi":"10.1109/EMBSW.2007.4454182","DOIUrl":"https://doi.org/10.1109/EMBSW.2007.4454182","url":null,"abstract":"Advancements in microscopy instrumentation have resulted in larger volumes of acquired image data and, consequently, increased memory and space requirements for the processing and storage of the data. To address the issue in software, the Microscopy Image Analysis Tool (MIATool) was created to support processing of large image sets that makes efficient use of available resources. Implemented in MATLAB using object-oriented design, MIATool works with image pointer arrays to utilize RAM effectively and to support the analysis of different interpretations of data. Furthermore, the software provides image editing tools which operate on parameter objects that are saved in lieu of processed images to exploit the available disk space. A detailed image analysis example is given to illustrate the design and features of MIATool.","PeriodicalId":333843,"journal":{"name":"2007 IEEE Dallas Engineering in Medicine and Biology Workshop","volume":"58 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2007-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"126384408","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 3
An Integrated Mobile Wireless System for Capturing Physiological Data Streams during a Cognitive-motor Task: Applications for Aging 在认知运动任务中捕获生理数据流的集成移动无线系统:在衰老中的应用
2007 IEEE Dallas Engineering in Medicine and Biology Workshop Pub Date : 2007-11-01 DOI: 10.1109/EMBSW.2007.4454175
G. Pradhan, N. Engineer, M. Nadin, B. Prabhakaran
{"title":"An Integrated Mobile Wireless System for Capturing Physiological Data Streams during a Cognitive-motor Task: Applications for Aging","authors":"G. Pradhan, N. Engineer, M. Nadin, B. Prabhakaran","doi":"10.1109/EMBSW.2007.4454175","DOIUrl":"https://doi.org/10.1109/EMBSW.2007.4454175","url":null,"abstract":"Cognitive, motor and perceptual processes diminish with age and thus limit adaptive capabilities of older individuals. Our hypothesis is that with aging there is decreased expression of these proactive adaptive capabilities. These experiments were designed to test this hypothesis by implementing an integrated approach to quantifying physiological characteristics in older individuals. We are working towards building an integrated wireless motion capture and physiological data monitoring system to quantify and data mine various physiologic and motoric streams in a controlled experimental environment. In this paper, synchronized motion capture and EMG data was obtained in young and old subjects performing a cognitive-motor task. We show that some, but not all baseline measures were significantly different in older compared to young subjects. Quantification of these baseline measures will allow us to develop new experimental paradigms that compensate for age-related decline in motor control, sensation, and cognition through brain- plasticity targeted training in rich learning environments.","PeriodicalId":333843,"journal":{"name":"2007 IEEE Dallas Engineering in Medicine and Biology Workshop","volume":"55 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2007-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"129071928","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 5
Optical Head-Tracking for fMRI using Structured Light 基于结构光的fMRI光学头部跟踪
2007 IEEE Dallas Engineering in Medicine and Biology Workshop Pub Date : 2006-10-10 DOI: 10.1109/EMBSW.2007.4454164
A. A. Zaremba, D. MacFarlane, Wei-Che Tseng, R. Briggs, K. Gopinath, S. Cheshkov
{"title":"Optical Head-Tracking for fMRI using Structured Light","authors":"A. A. Zaremba, D. MacFarlane, Wei-Che Tseng, R. Briggs, K. Gopinath, S. Cheshkov","doi":"10.1109/EMBSW.2007.4454164","DOIUrl":"https://doi.org/10.1109/EMBSW.2007.4454164","url":null,"abstract":"An accurate motion tracking technique is needed to compensate for subject motion during fMRI procedures. In this paper, a novel approach to motion metrology is discussed. A structured light pattern specifically coded for digital signal processing is positioned onto a fiduciary of the patient. As the patient undergoes spatial transformations in 6 DoF (degrees of freedom), a high-resolution CCD camera captures successive images for analysis on a DSP board. A high-speed image processing algorithm is used to calculate spatial transformations in a time frame commensurate with patient movements (10-100 ms) and with precisions of at least 0.5 um for translations and 0.1 degrees for rotations.","PeriodicalId":333843,"journal":{"name":"2007 IEEE Dallas Engineering in Medicine and Biology Workshop","volume":"26 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2006-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"133175858","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Contributor Listings 贡献者上市
2007 IEEE Dallas Engineering in Medicine and Biology Workshop Pub Date : 1900-01-01 DOI: 10.1109/haptic.2006.1627139
D. Bhatia, P. Balsara, S. Banerjee, K. Behbehani
{"title":"Contributor Listings","authors":"D. Bhatia, P. Balsara, S. Banerjee, K. Behbehani","doi":"10.1109/haptic.2006.1627139","DOIUrl":"https://doi.org/10.1109/haptic.2006.1627139","url":null,"abstract":"","PeriodicalId":333843,"journal":{"name":"2007 IEEE Dallas Engineering in Medicine and Biology Workshop","volume":"16 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"125182942","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Contributor Listings 贡献者上市
2007 IEEE Dallas Engineering in Medicine and Biology Workshop Pub Date : 1900-01-01 DOI: 10.1109/hscma.2008.4538670
Shekar Rao, H. Garner, N. McNeil
{"title":"Contributor Listings","authors":"Shekar Rao, H. Garner, N. McNeil","doi":"10.1109/hscma.2008.4538670","DOIUrl":"https://doi.org/10.1109/hscma.2008.4538670","url":null,"abstract":"","PeriodicalId":333843,"journal":{"name":"2007 IEEE Dallas Engineering in Medicine and Biology Workshop","volume":"17 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122517838","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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