a resource for systematic discovery of transcription factor target genes

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W233-8. doi: 10.1093/nar/gkq374. Epub 2010 May 11.

Abstract ( 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 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.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Gene Expression Profiling
  • Gene Expression Regulation*
  • Internet
  • Oligonucleotide Array Sequence Analysis
  • Promoter Regions, Genetic
  • Software*
  • Transcription Factors / metabolism*


  • Transcription Factors