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Video Bioinformatics: A New Dimension in Quantifying Plant Cell Dynamics

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Video Bioinformatics

Part of the book series: Computational Biology ((COBO,volume 22))

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Abstract

Microscopy of plant cells has evolved greatly within the past 50 years. Advances in live cell imaging, automation, optics, video microscopy, and the need for high content studies has stimulated the development of computational tools for manipulating, managing, and interpreting quantitative data. These tools automatically and semiautomatically determine, sizes, signal intensities, velocities, classes, and many other features of cells and subcellular structures. Quantitative methods provide data that is a basis for mathematical models and statistical analyses that lead the way to a quantitative systems outlook to cell biology. Four-dimensional video analysis provides vital data concerning the often ignored temporal dynamics within a cell. Here, we will review studies employing technology to detect regions of interest using segmentation, classify data using machine learning and track dynamics in living cells using video analysis. Many of the live cell studies presented would have been impractical without these advanced computational techniques. These examples illustrate the utility and potential for video bioinformatics to augment our knowledge of the dynamics of cells and cellular components in plants.

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Acknowledgment

This work was supported in part by the National Science Foundation (NSF) Integrative Graduate Education and Research Traineeship (IGERT) in Video Bioinformatics (DGE-0903667) and NSF Graduate Research Fellowship Program (GRFP). Nolan Ung is an IGERT and GRFP Fellow.

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Authors and Affiliations

  1. Institute for Integrative Genome Biology, Genomics Building 4119C, University of California, 900, University Ave, Riverside, CA, 92507, USA

    Nolan Ung & Natasha V. Raikhel

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  1. Nolan Ung
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  2. Natasha V. Raikhel
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Correspondence to Nolan Ung .

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Editors and Affiliations

  1. University of California, Riverside, California, USA

    Bir Bhanu

  2. University of California, Riverside, California, USA

    Prue Talbot

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Ung, N., Raikhel, N.V. (2015). Video Bioinformatics: A New Dimension in Quantifying Plant Cell Dynamics. In: Bhanu, B., Talbot, P. (eds) Video Bioinformatics. Computational Biology, vol 22. Springer, Cham. https://doi.org/10.1007/978-3-319-23724-4_10

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  • DOI: https://doi.org/10.1007/978-3-319-23724-4_10

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-319-23723-7

  • Online ISBN: 978-3-319-23724-4

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