ChEA (ChIP-X Enrichment Analysis) database contains manually extracted datasets of transcription-factor/target-gene interactions from over 100 experiments such as ChIP-chip, ChIP-seq, ChIP-PET applied to mammalian cells. We use the database to analyze mRNA expression data where we perform gene-list enrichment analysis as the prior biological knowledge gene-list library. The system is delivered as web-based interactive software. With this software users can input lists of mammalian genes for which the program computes over-representation of transcription factor targets from the ChEA database.
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ChEA: transcription factor regulation inferred from integrating genome-wide ChIP-X experiments.
Lachmann A, Xu H, Krishnan J, Berger SI, Mazloom AR, Ma’ayan A.
Bioinformatics. 2010 Oct 1;26(19):2438-44.