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    Plant Omics Data Center and CATchUP: web databases for effective gene mining utilizing public RNA-Seq-based transcriptome data

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    Type
    Book Chapter
    Authors
    Shenton, Matt
    Kudo, Toru
    Kobayashi, Masaaki
    Nakamura, Yukino
    Ohyanagi, Hajime
    Yano, Kentaro
    KAUST Department
    Biological and Environmental Sciences and Engineering (BESE) Division
    Date
    2019-12-13
    Online Publication Date
    2019-12-13
    Print Publication Date
    2020-01-13
    Permanent link to this record
    http://hdl.handle.net/10754/662191
    
    Metadata
    Show full item record
    Abstract
    Analysis using transcriptome data deposited in public repositories can advance scientific research and crop breeding with minimal extra effort and cost. To provide platforms for quick and easy gene mining from publicly available RNA sequencing (RNA-Seq) data of model and crop plants, we are maintaining two web databases: the Plant Omics Data Center (PODC, http://plantomics.mind.meiji.ac.jp/podc) and CATchUP (http://plantomics.mind.meiji.ac.jp/CATchUP). This chapter presents their functionality, summarizes their stored information and demonstrates a typical workflow using the databases, focusing on Medicago truncatula.
    Citation
    Shenton, M., Kudo, T., Kobayashi, M., Nakamura, Y., Ohyanagi, H., & Yano, K. (2019). Plant Omics Data Center and CATchUP: web databases for effective gene mining utilizing public RNA-Seq-based transcriptome data. The Model Legume Medicago Truncatula, 1137–1146. doi:10.1002/9781119409144.ch148
    Publisher
    Wiley
    DOI
    10.1002/9781119409144.ch148
    Additional Links
    https://onlinelibrary.wiley.com/doi/abs/10.1002/9781119409144.ch148
    ae974a485f413a2113503eed53cd6c53
    10.1002/9781119409144.ch148
    Scopus Count
    Collections
    Biological and Environmental Science and Engineering (BESE) Division; Book Chapters

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