Short description:

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
  dynamicsafter 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 & Computer 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.

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Long description:

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Table of Contents:

Part I: Video Bioinformatics: An Introduction.- Live Imaging and Video Bioinformatics.- Video Bioinformatics Methods for Analyzing Cell Dynamics.- Part II: Organismal Dynamics: Analyzing Brain Injury and Disease.- High and Low Level Contextual Modeling for the Detection of Mild-Traumatic Brain Injury.- Automated Identification of Injury Dynamics after Neonatal Hypoxia-Ischemia.- A Real-Time Analysis of Traumatic Brain Injury from T2 Weighted Magnetic Resonance Images using a Symmetry-Based Algorithm.- Visualizing Cortical Tissue Optical Changes during Seizure Activity with Optical Coherence Tomography.- Part III: Dynamics of Stem Cells.- Bio-Inspired Segmentation and Detection Methods for Human Embryonic Stem Cells.- A Video Bioinformatics Method to Quantify Cell Spreading and Its Application to Cells Treated with Rho-associated Protein Kinase and Blebbistatin.- Evaluation of Dynamic Cell Processes and Behavior Using Video Bioinformatics Tools.- Part IV: Dynamic Processes in Plant and Fungal Systems.- Video Bioinformatics: A New Dimension in Quantifying Plant Cell Dynamics.- Understanding Growth of Pollen Tube in Video.- Automatic Image Analysis Pipeline for Studying Growth in Arabidopsis.- Quantitative Analyses using Video Bioinformatics and Image Analysis Tools During Growth and Development in the Multicellular Fungus.- Part V: Dynamics of Intracellular Molecules.- Quantification of the Dynamics of DNA Repair to Ionizing Radiatio

n via Colocalization of 53BP1 and H2AX.- A Method to Regulate Cofilin Transport Using Optogenetics and Live Video Analysis.- Part VI: Software, Systems and Databases.- Integrated 5-D Cell Tracking and Linked Analytics in the FARSIGHT Open Source Toolkit.- Video Bioinformatics Databases and Software.- Understanding of the Biological Process of Non-Verbal Communication.- Identification and Retrieval of Moth Images Based on Wing Patterns.

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