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PMID: 21059685 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.

AGRIS: the Arabidopsis Gene Regulatory Information Server, an update.

Nucleic acids research ·Vol. 39 ·No. Database issue ·2011-01-00 ·Pages D1118-22

Yilmaz A, Mejia-Guerra MK, Kurz K, Liang X, Welch L, Grotewold E

Abstract

The Arabidopsis Gene Regulatory Information Server (AGRIS; http://arabidopsis.med.ohio-state.edu/) provides a comprehensive resource for gene regulatory studies in the model plant Arabidopsis thaliana. Three interlinked databases, AtTFDB, AtcisDB and AtRegNet, furnish comprehensive and updated information on transcription factors (TFs), predicted and experimentally verified cis-regulatory elements (CREs) and their interactions, respectively. In addition to significant contributions in the identification of the entire set of TF-DNA interactions, which are the key to understand the gene regulatory networks that govern Arabidopsis gene expression, tools recently incorporated into AGRIS include the complete set of words length 5-15 present in the Arabidopsis genome and the integration of AtRegNet with visualization tools, such as the recently developed ReIN application. All the information in AGRIS is publicly available and downloadable upon registration.

MeSH Terms
Arabidopsis/genetics Databases, Genetic Gene Expression Regulation, Plant Gene Regulatory Networks Promoter Regions, Genetic Transcription Factors/metabolism
Chemicals
Transcription Factors
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Yilmaz Alper
Department of Plant Cellular and Molecular Biology and Plant Biotechnology Center, The Ohio State University, Columbus, OH, USA. yilmaz.11@osu.edu
Mejia-Guerra Maria Katherine
Kurz Kyle
Liang Xiaoyu
Welch Lonnie
Grotewold Erich
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gkq1120
Email
yilmaz.11@osu.edu
Published
2011-01-00
Epub
2010-00-08
Pages
D1118-22
Language
English
Region
England
NLM ID
0411011
PMCID
PMC3013708
Subset
IM
Grants
NCI NIH HHS · 5 T32 CA106196-05 · United States
External Links
PubMed source DOI: 10.1093/nar/gkq1120 PMC Full Text View journal details
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