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The Bio-Analytic Resource for Plant Biology

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Plant Genomics Databases

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1533))

Abstract

Bioinformatic tools have become part of the way plant researchers undertake investigations. Large data sets encompassing genomes, transcriptomes, proteomes, epigenomes, and other “-omes” that have been generated in the past decade may be easily accessed with such tools, such that hypotheses may be generated at the click of a mouse. In this chapter, we’ll cover the use of bioinformatic tools available at the Bio-Analytic Resource for Plant Biology at http://bar.utoronto.ca for exploring gene expression and coexpression patterns, undertaking promoter analyses, performing functional classification enrichment analyses for sets of genes, and examining protein-protein interactions. We also touch on some newer bioinformatic tools that allow integration of data from several sources for improved hypothesis generation, both for Arabidopsis and translationally. Most of the data sets come from Arabidopsis, but useful BAR tools for other species will be mentioned where appropriate.

This chapter encompasses updated material covering BAR tools in a book chapter by Miguel de Lucas, Nicholas Provart, and Siobhan Brady in Arabidopsis Protocols [1], along with additional material describing new or other BAR tools that weren’t covered in that chapter.

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Author information

Authors and Affiliations

  1. Department of Cell and Systems Biology, Centre for the Analysis of Genome Evolution and Function, University of Toronto, 25 Willcocks St., Toronto, ON, M5S 3B2, Canada

    Jamie Waese & Nicholas J. Provart

Authors
  1. Jamie Waese
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  2. Nicholas J. Provart
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Corresponding author

Correspondence to Nicholas J. Provart .

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Editors and Affiliations

  1. PRI Bioscience, Biometris and Bioinformatics, Wageningen University & Research Wageningen, Wageningen, The Netherlands

    Aalt D.J van Dijk

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Waese, J., Provart, N.J. (2017). The Bio-Analytic Resource for Plant Biology. In: van Dijk, A. (eds) Plant Genomics Databases. Methods in Molecular Biology, vol 1533. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-6658-5_6

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  • DOI: https://doi.org/10.1007/978-1-4939-6658-5_6

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-6656-1

  • Online ISBN: 978-1-4939-6658-5

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