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PMID: 19858103 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

PlnTFDB: updated content and new features of the plant transcription factor database.

Nucleic acids research ·Vol. 38 ·No. Database issue ·2010-01-00 ·Pages D822-7

Pérez-Rodríguez P, Riaño-Pachón DM, Corrêa LG, Rensing SA, Kersten B, Mueller-Roeber B

Abstract

The Plant Transcription Factor Database (PlnTFDB; http://plntfdb.bio.uni-potsdam.de/v3.0/) is an integrative database that provides putatively complete sets of transcription factors (TFs) and other transcriptional regulators (TRs) in plant species (sensu lato) whose genomes have been completely sequenced and annotated. The complete sets of 84 families of TFs and TRs from 19 species ranging from unicellular red and green algae to angiosperms are included in PlnTFDB, representing >1.6 billion years of evolution of gene regulatory networks. For each gene family, a basic description is provided that is complemented by literature references, and multiple sequence alignments of protein domains. TF or TR gene entries include information of expressed sequence tags, 3D protein structures of homologous proteins, domain architecture and cross-links to other computational resources online. Moreover, the different species in PlnTFDB are linked to each other by means of orthologous genes facilitating cross-species comparisons.

MeSH Terms
Computational Biology/methods,trends Databases, Genetic Databases, Protein Gene Expression Regulation, Plant Gene Regulatory Networks Genes, Plant Genome, Plant Information Storage and Retrieval/methods Internet Plant Diseases/genetics Plant Proteins/metabolism Plants/metabolism Protein Structure, Tertiary Software Transcription Factors/metabolism
Chemicals
Plant Proteins Transcription Factors
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Pérez-Rodríguez Paulino
Department of Molecular Biology, Institute of Biochemistry and Biology, GoFORSYS, University of Potsdam, Karl-Liebknecht-Str 24-25, Haus 20, 14476 Potsdam-Golm, Germany.
Riaño-Pachón Diego Mauricio
Corrêa Luiz Gustavo Guedes
Rensing Stefan A
Kersten Birgit
Mueller-Roeber Bernd
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gkp805
Published
2010-01-00
Epub
2009-00-25
Pages
D822-7
Language
English
Region
England
NLM ID
0411011
PMCID
PMC2808933
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/gkp805 PMC Full Text View journal details
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