Plant Genomics Databases

Methods and Protocols

  • Aalt D.J van Dijk

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

Table of contents

  1. Front Matter
    Pages i-xii
  2. Dan M. Bolser, Daniel M. Staines, Emily Perry, Paul J. Kersey
    Pages 1-31
  3. Manuel Spannagl, Thomas Nussbaumer, Kai Bader, Heidrun Gundlach, Klaus F. X. Mayer
    Pages 33-44
  4. Akihiro Nakaya, Hisako Ichihara, Erika Asamizu, Sachiko Shirasawa, Yasukazu Nakamura, Satoshi Tabata et al.
    Pages 45-77
  5. Jean Philippe Tamby, Véronique Brunaud
    Pages 79-101
  6. A.-F. Adam-Blondon, M. Alaux, S. Durand, T. Letellier, G. Merceron, N. Mohellibi et al.
    Pages 103-117
  7. Jamie Waese, Nicholas J. Provart
    Pages 119-148
  8. Trupti Joshi, Jiaojiao Wang, Hongxin Zhang, Shiyuan Chen, Shuai Zeng, Bowei Xu et al.
    Pages 149-159
  9. Michiel Van Bel, Frederik Coppens
    Pages 201-212
  10. Sebastian Proost, Marek Mutwil
    Pages 213-227
  11. Toru Kudo, Shin Terashima, Yuno Takaki, Yukino Nakamura, Masaaki Kobayashi, Kentaro Yano
    Pages 229-240
  12. Tae-Ho Lee, Junah Kim, Jon S. Robertson, Andrew H. Paterson
    Pages 267-277
  13. Sushma Naithani, Matthew Geniza, Pankaj Jaiswal
    Pages 279-297
  14. Kazutaka Kusunoki, Yoshiharu Y. Yamamoto
    Pages 299-314
  15. Zhonghai Li, Yi Zhao, Xiaochuan Liu, Zhiqiang Jiang, Jinying Peng, Jinpu Jin et al.
    Pages 315-333
  16. Back Matter
    Pages 335-336

About this book


This volume introduces databases containing the results from the recent revolution in sequencing technologies. Chapters in Plant Genomics Databases: Methods and Protocols describe database content, as well as typical use-cases. Some chapters explore databases that primarily present genome sequences focusing on one or a few related species, while others include additional datatypes and/or data from various plant species. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, step-by-step, readily reproducible protocols, and tips on troubleshooting and avoiding known pitfalls.

Cutting-edge and comprehensive, Plant Genomics Databases: Methods and Protocols is a valuable resource for providing clear guidance in accessing an important collection of plant databases that can be used to add biological value to genomic data.


genome sequence expression and co-expression species-specific databases resequencing of individuals transcriptomics epigenomics

Editors and affiliations

  • Aalt D.J van Dijk
    • 1
  1. 1.PRI Bioscience, Biometris and BioinformaticsWageningen University & Research WageningenWageningenThe Netherlands

Bibliographic information

  • DOI
  • Copyright Information Springer Science+Business Media New York 2017
  • Publisher Name Humana Press, New York, NY
  • eBook Packages Springer Protocols
  • Print ISBN 978-1-4939-6656-1
  • Online ISBN 978-1-4939-6658-5
  • Series Print ISSN 1064-3745
  • Series Online ISSN 1940-6029
  • Buy this book on publisher's site
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