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

Matt Shenton, Toru Kudo, Masaaki Kobayashi, Yukino Nakamura, Hajime Ohyanagi, Kentaro Yano

Research output: Chapter in Book/Report/Conference proceedingChapter

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.
Original languageEnglish (US)
Title of host publicationThe Model Legume Medicago truncatula
PublisherWiley
Pages1137-1146
Number of pages10
ISBN (Print)9781119409168
DOIs
StatePublished - Dec 13 2019

Fingerprint Dive into the research topics of 'Plant Omics Data Center and CATchUP: web databases for effective gene mining utilizing public RNA-Seq-based transcriptome data'. Together they form a unique fingerprint.

Cite this