The Encyclopedia of DNA Elements (ENCODE) consortium aims to identify all functional elements in the human genome sequence. These elements include genomic regions bound by transcription factors (TFs), occupied by nucleosomes, occupied by nucleosomes with modified histones, hypersensitive to cleavage of DNase I, etc. We organize the on-going analysis results of TF binding data in the web accessible repository factorbook.org.
Chromatin Immunoprecipitation (ChIP-seq) is the experimental technique used to generate TF-binding data, and the genomic regions bound by TFs are called ChIP-seq peaks. The transcription factor binding sites (TFBS) are the positions on the genomic DNA bound by TFs and tend to be located around the summits of ChIP-seq peaks. Below is a matrix of all ENCODE TF ChIP-seq datasets, arranged by cell lines. Click the TF name of interest to access individual pages.
Citation: J Wang, J Zhuang, S Iyer, XY Lin, et al. Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors. Genome Research 22 (9), 1798-1812