Video Bioinformatics (eBook)

From Live Imaging to Knowledge

Bir Bhanu, Prue Talbot (Herausgeber)

eBook Download: PDF

2015 | 1st ed. 2015
XLIII, 381 Seiten
Springer International Publishing (Verlag)
978-3-319-23724-4 (ISBN)

Infos

The advances of live cell video imaging and high-throughput technologies for functional and chemical genomics provide unprecedented opportunities to understand how biological processes work in subcellular

and multicellular systems. The interdisciplinary research field of Video Bioinformatics is defined by Bir

Bhanu as the automated processing, analysis, understanding, data mining, visualization, query-based

retrieval/storage of biological spatiotemporal events/data and knowledge extracted from dynamic images

and microscopic videos. Video bioinformatics attempts to provide a deeper understanding of continuous

and dynamic life processes.

Genome sequences alone lack spatial and temporal information, and video imaging of specific molecules

and their spatiotemporal interactions, using a range of imaging methods, are essential to understand

how genomes create cells, how cells constitute organisms, and how errant cells cause disease. The book

examines interdisciplinary research issues and challenges with examples that deal with organismal dynamics,

intercellular and tissue dynamics, intracellular dynamics, protein movement, cell signaling and software

and databases for video bioinformatics.

Topics and Features

• Covers a set of biological problems, their significance, live-imaging experiments, theory and

computational methods, quantifiable experimental results and discussion of results.

• Provides automated methods for analyzing mild traumatic brain injury over time, identifying injury

dynamics after neonatal hypoxia-ischemia and visualizing cortical tissue changes during seizure

activity as examples of organismal dynamics

• Describes techniques for quantifying the dynamics of human embryonic stem cells with examples

of cell detection/segmentation, spreading and other dynamic behaviors which are important for

characterizing stem cell health

• Examines and quantifies dynamic processes in plant and fungal systems such as cell trafficking,

growth of pollen tubes in model systems such as Neurospora Crassa and Arabidopsis

• Discusses the dynamics of intracellular molecules for DNA repair and the regulation of cofilin

transport using video analysis

• Discusses software, system and database aspects of video bioinformatics by providing examples of

5D cell tracking by FARSIGHT open source toolkit, a survey on available databases and software,

biological processes for non-verbal communications and identification and retrieval of moth images

This unique text will be of great interest to researchers and graduate students of Electrical Engineering,

Computer Science, Bioengineering, Cell Biology, Toxicology, Genetics, Genomics, Bioinformatics, Computer

Vision and Pattern Recognition, Medical Image Analysis, and Cell Molecular and Developmental Biology.

The large number of example applications will also appeal to application scientists and engineers.

Dr. Bir Bhanu is Distinguished Professor of Electrical & C omputer Engineering, Interim Chair of the

Department of Bioengineering, Cooperative Professor of Computer Science & Engineering, and Mechanical

Engineering and the Director of the Center for Research in Intelligent Systems, at the University of California,

Riverside, California, USA.

Dr. Prue Talbot is Professor of Cell Biology & Neuroscience and Director of the Stem Cell Center and Core at

the University of California Riverside, California, USA.

Dr. Bir Bhanu is a Distinguished Professor and the Director of the Center for Research in Intelligent Systems at the University of California at Riverside, USA. His other Springer publications include the titles Distributed Video Sensor Networks, Human Recognition at a Distance in Video, and Human Ear Recognition by Computer.

Dr. Prue Talbot is a Professor of Cell Biology and the Director of the Stem Cell Center and Core Facility at the University of California at Riverside, USA. She is also the Director of the Inland Empire Stem Cell Consortium.

Inhalt

Part I: Video Bioinformatics: An IntroductionLive Imaging and Video BioinformaticsBir Bhanu and Prue TalbotVideo Bioinformatics Methods for Analyzing Cell Dynamics: A SurveyNirmalya GhoshPart II: Organismal Dynamics: Analyzing Brain Injury and DiseaseHigh and Low Level Contextual Modeling for the Detection of Mild-Traumatic Brain Injury Anthony Bianchi, Bir Bhanu and Andre ObenausAutomated Identification of Injury Dynamics after Neonatal Hypoxia-IschemiaNirmalya Ghosh, Stephen Ashwal and Andre ObenausA Real-Time Analysis of Traumatic Brain Injury from T2 Weighted Magnetic Resonance Images using a Symmetry-Based AlgorithmEhsan T. Esfahani, Devin W. McBride, Somayeh B. Shafiei and Andre ObenausVisualizing Cortical Tissue Optical Changes during Seizure Activity with Optical Coherence TomographyMelissa M. Eberle, Carissa L. Rodriguez, Jenny I. Szu, Yan Wang, Mike S. Hsu, Devin K. Binder and B. Hyle ParkPart III: Dynamics of Stem CellsBio-Inspired Segmentation and Detection Methods for Human Embryonic Stem CellsBenjamin X. Guan, Bir Bhanu, Prue Talbot and Jo-Hao WengA Video Bioinformatics Method to Quantify Cell Spreading and Its Application to Cells Treated with Rho-associated Protein Kinase and Blebbistatin Jo-Hao Weng, Rattapol Phandthong and Prue TalbotEvaluation of Dynamic Cell Processes and Behavior Using Video Bioinformatics ToolsSabrina C. Lin, Henry Yip, Rattapol Phandthong, Barbara Davis and Prue TalbotPart IV: Dynamic Processes in Plant and Fungal SystemsVideo Bioinformatics: A New Dimension in Quantifying Plant Cell DynamicsNolan Ung and Natasha V RaikhelUnderstanding Growth of Pollen Tube in VideoAsongu L. Tambo, Bir Bhanu, Nan Luo and Zhenbiao YangAutomatic Image Analysis Pipeline for Studying Growth in Katya Mkrtchyan, Anirban Chakraborty, Min Liu and Amit Roy-ChowdhuryQuantitative Analyses using Video Bioinformatics and Image Analysis Tools During Growth and Development in the Multicellular Fungus Neurospora CrassaIlva E. Cabrera, Asongu L. Tambo, Alberto C. Cruz, Benjamin X. Guan, Bir Bhanu and Katherine A. BorkovichPart V: Dynamics of Intracellular MoleculesQuantification of the Dynamics of DNA Repair to Ionizing Radiation via Colocalization of 53BP1 and H2AXTorsten Groesser, Gerald Fontenay, Ju Han, Hang Chang and Bahram ParvinA Method to Regulate Cofilin Transport Using Optogenetics and Live Video AnalysisAtena Zahedi, Vincent On and Irnya EthellPart VI: Software, Systems and Databases Integrated 5-D Cell Tracking and Linked Analytics in the FARSIGHT Open Source ToolkitAmine Merouane, Arunchalam Narayanaswamy and Badrinath RoysamVideo Bioinformatics Databases and SoftwareNinad S. Thakoor, Alberto C. Cruz and Bir BhanuUnderstanding of the Biological Process of Non-Verbal Communication: Facial Emotion and Expression RecognitionAlberto C. Cruz, Bir Bhanu and Ninad S. ThakoorIdentification and Retrieval of Moth Images Based on Wing PatternsLinan Feng, Bir Bhanu and John Heraty

Produkt-Details

• Erscheint lt. Verlag: 16.12.2015
• Reihe/Serie: Computational Biology
• Reihe/Serie: Computational Biology
• Zusatzinfo: XLIII, 381 p. 122 illus., 89 illus. in color.
• Verlagsort: Cham
• Sprache: englisch
• Themenwelt: Mathematik / Informatik ► Informatik ► Datenbanken
• Themenwelt: Mathematik / Informatik ► Informatik ► Grafik / Design
• Themenwelt: Naturwissenschaften ► Biologie
• Themenwelt: Technik
• Schlagworte: Analyzing Injury and Disease • Cell Motility • cell signaling • Computational Biology • Image and Video Informatics • Intercellular and Tissue Dynamics • Intracellular Dynamics • Morphogenesis • Organismal Dynamics • Protein Movement • Segmentation, Detection, Tracking and Recognition • Spatiotemporal Events
• ISBN-10: 3-319-23724-1 / 3319237241
• ISBN-13: 978-3-319-23724-4 / 9783319237244