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PMID: 22140109 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools.

Nucleic acids research ·Vol. 40 ·No. Database issue ·2012-01-00 ·Pages D1202-10

Lamesch P, Berardini TZ, Li D, Swarbreck D, Wilks C, Sasidharan R, Muller R, Dreher K, Alexander DL, Garcia-Hernandez M, Karthikeyan AS, Lee CH, Nelson WD, Ploetz L, Singh S, Wensel A, Huala E

Abstract

The Arabidopsis Information Resource (TAIR, http://arabidopsis.org) is a genome database for Arabidopsis thaliana, an important reference organism for many fundamental aspects of biology as well as basic and applied plant biology research. TAIR serves as a central access point for Arabidopsis data, annotates gene function and expression patterns using controlled vocabulary terms, and maintains and updates the A. thaliana genome assembly and annotation. TAIR also provides researchers with an extensive set of visualization and analysis tools. Recent developments include several new genome releases (TAIR8, TAIR9 and TAIR10) in which the A. thaliana assembly was updated, pseudogenes and transposon genes were re-annotated, and new data from proteomics and next generation transcriptome sequencing were incorporated into gene models and splice variants. Other highlights include progress on functional annotation of the genome and the release of several new tools including Textpresso for Arabidopsis which provides the capability to carry out full text searches on a large body of research literature.

MeSH Terms
Arabidopsis/genetics,metabolism Arabidopsis Proteins/genetics Databases, Genetic Genes, Plant Genome, Plant Molecular Sequence Annotation Software
Chemicals
Arabidopsis Proteins
Authors & Affiliations
17 authors, click to expand affiliations / ORCID
Lamesch Philippe
Department of Plant Biology, Carnegie Institution, 260 Panama St, Stanford, CA 94305, USA.
Berardini Tanya Z
Li Donghui
Swarbreck David
Wilks Christopher
Sasidharan Rajkumar
Muller Robert
Dreher Kate
Alexander Debbie L
Garcia-Hernandez Margarita
Karthikeyan Athikkattuvalasu S
Lee Cynthia H
Nelson William D
Ploetz Larry
Singh Shanker
Wensel April
Huala Eva
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gkr1090
Published
2012-01-00
Epub
2011-00-02
Pages
D1202-10
Language
English
Region
England
NLM ID
0411011
PMCID
PMC3245047
Subset
IM
Grants
NHGRI NIH HHS · 5P41HG002273-09 · United States
External Links
PubMed source DOI: 10.1093/nar/gkr1090 PMC Full Text View journal details
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