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Nucleic Acids Res. 2010 Jul;38(Web Server issue):W233-8. Epub 2010 May 11.

Targetfinder.org: a resource for systematic discovery of transcription factor target genes.

Kiełbasa SM, Blüthgen N, Fähling M, Mrowka R.

Source

Max Planck Institute of Molecular Genetics, Ihnestrasse 73, D-14195 Berlin, Germany.

Abstract

Targetfinder.org (http://targetfinder.org/) provides a web-based resource for finding genes that show a similar expression pattern to a group of user-selected genes. It is based on a large-scale gene expression compendium (>1200 experiments, >13,000 genes). The primary application of Targetfinder.org is to expand a list of known transcription factor targets by new candidate target genes. The user submits a group of genes (the 'seed'), and as a result the web site provides a list of other genes ranked by similarity of their expression to the expression of the seed genes. Additionally, the web site provides information on a recovery/cross-validation test to check for consistency of the provided seed and the quality of the ranking. Furthermore, the web site allows to analyse affinities of a selected transcription factor to the promoter regions of the top-ranked genes in order to select the best new candidate target genes for further experimental analysis.

PMID:: 20460454; [PubMed - indexed for MEDLINE]
PMCID: PMC2896086

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Publication Types, MeSH Terms, Substances

Publication Types

Research Support, Non-U.S. Gov't

MeSH Terms

Substances

Transcription Factors

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