CottonGen: a genomics, genetics and breeding database for cotton research | Zendy

Jing Yu | Zendy; Sook Jung | Zendy; Chun-Huai Cheng | Zendy; Stephen Ficklin | Zendy; Taein Lee | Zendy; Ping Zheng | Zendy; Don C. Jones | Zendy; Richard G. Percy | Zendy; Dorrie Main | Zendy

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CottonGen: a genomics, genetics and breeding database for cotton research

Author(s) -

Jing Yu,

Sook Jung,

Chun-Huai Cheng,

Stephen Ficklin,

Taein Lee,

Ping Zheng,

Don C. Jones,

Richard G. Percy,

Dorrie Main

Publication year - 2013

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/gkt1064

Subject(s) - biology , germplasm , genome , genome browser , genomics , quantitative trait locus , expressed sequence tag , genetics , gossypium , whole genome sequencing , computational biology , database , gene , computer science , agronomy

CottonGen (http://www.cottongen.org) is a curated and integrated web-based relational database providing access to publicly available genomic, genetic and breeding data for cotton. CottonGen supercedes CottonDB and the Cotton Marker Database, with enhanced tools for easier data sharing, mining, visualization and data retrieval of cotton research data. CottonGen contains annotated whole genome sequences, unigenes from expressed sequence tags (ESTs), markers, trait loci, genetic maps, genes, taxonomy, germplasm, publications and communication resources for the cotton community. Annotated whole genome sequences of Gossypium raimondii are available with aligned genetic markers and transcripts. These whole genome data can be accessed through genome pages, search tools and GBrowse, a popular genome browser. Most of the published cotton genetic maps can be viewed and compared using CMap, a comparative map viewer, and are searchable via map search tools. Search tools also exist for markers, quantitative trait loci (QTLs), germplasm, publications and trait evaluation data. CottonGen also provides online analysis tools such as NCBI BLAST and Batch BLAST.

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