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YEASTRACT


NAR Molecular Biology Database Collection entry number 792
Teixeira M.C.1,3, Monteiro2, Jain P.2, Tenreiro S.1,3, Fernandes A.R.1,3, Mira N.1,3, Alenquer M.1,3, Freitas A.T.2,3, Oliveira A.L.2,3 and Sá-Correia I.1,3
1Biological Sciences Research Group, Centro de Engenharia Biológica e Química, Av. Rovisco Pais, 1049-001, Lisbon, Portugal
2INESC-ID, R. Alves Redol, 9, 1000 Lisbon, Portugal
3Instituto Superior Técnico, Av. Rovisco Pais, 1049-001, Lisbon, Portugal

Database Description

The YEASTRACT (Yeast Search for Transcriptional Regulators And Consensus Tracking; http://www.yeastract.com) database is a tool for the analysis of transcription regulatory associations in Saccharomyces cerevisiae. This database is a repository of more than 12000 regulatory associations between transcription factors and target genes, based on experimental evidence which were spread throughout more than 850 bibliographic references. It also includes more than 250 specific DNA binding sites for more than a hundred characterized transcription factors. Further information about each yeast gene included in the database was obtained from Saccharomyces Genome Database (SGD), Regulatory Sequences Analysis Tools (RSAT) and Gene Ontology (GO) Consortium. Computational tools are also provided to facilitate the exploitation of the gathered data when solving a number of biological questions as exemplified in the Tutorial also available on the system. YEASTRACT allows the identification of documented or potential transcription regulators of a given gene and of documented or potential regulons for each transcription factor. It also renders possible the comparison between DNA motifs, such as those found to be over-represented in the promoter regions of co-regulated genes, and the transcription factor binding sites described in the literature. The system also provides an useful mechanism for grouping a list of genes (for instance a set of genes with similar expression profiles as revealed by microarray analysis) based on their regulatory associations with known transcription factors.

Acknowledgements

The information about yeast genes other than documented regulations, potential regulations and the transcription factor binding sites contained in YEASTRACT was gathered from SGD, GO Consortium and RSAT. This work was supported by FEDER, FCT and the POSI and POCTI programs (projects POSI/EIA/57398/2004, POSI/SRI/47778/2002, POCTI/BIO/56838/2004 and POCTI/BIO/38115/2001, and PhD or post-doctoral grants – FSRH/BPD/14484/2003, BPD/5649/01, SFRH/BD/17456/2004, SFRH/BD/17260/2004 – to MCT, ST, NM, MA, respectively).


Go to the abstract in the NAR 2014 Database Issue.
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