論文

査読有り
2011年1月

COXPRESdb: a database to compare gene coexpression in seven model animals

NUCLEIC ACIDS RESEARCH
  • Takeshi Obayashi
  • ,
  • Kengo Kinoshita

39
Database issue
開始ページ
D1016
終了ページ
D1022
記述言語
英語
掲載種別
研究論文(学術雑誌)
DOI
10.1093/nar/gkq1147
出版者・発行元
OXFORD UNIV PRESS

Publicly available databases of coexpressed gene sets are a valuable resource for a wide variety of experimental studies, including gene targeting for functional identification, and for investigations of regulatory mechanisms or protein-protein interaction networks. Although coexpressed gene databases are becoming more and more popular in the field of plant biology, those with animal data are rather limited, possibly due to the lower reliability of the coexpression data. The original COXPRESdb (coexpressed gene database) (http://coxpresdb.jp) represented the coexpression relationship for human and mouse. Here, we report updates of this database that especially focus on the enhancement of the reliability of gene coexpression data in animals. For this purpose, we implemented a new comparable coexpression measure, Mutual Rank, included five other animal species, rat, chicken, zebrafish, fly and nematoda, to assess the conservation of coexpression, and added different layers of omics data into the integrated network of genes. Comparison of coexpression is a key concept to enhance the reliability of gene coexpression, and the integration of different information can reduce the noise inherent in the information. With the functions for gene network representation, COXPRESdb can help researchers to clarify the functional and regulatory networks of genes in a broad array of animal species.

リンク情報
DOI
https://doi.org/10.1093/nar/gkq1147
Web of Science
https://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=JSTA_CEL&SrcApp=J_Gate_JST&DestLinkType=FullRecord&KeyUT=WOS:000285831700160&DestApp=WOS_CPL
ID情報
  • DOI : 10.1093/nar/gkq1147
  • ISSN : 0305-1048
  • Web of Science ID : WOS:000285831700160

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