Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data

ABSTRACT: Accurate functional annotation of regulatory elements is essential for understanding global gene regulation. Here, we report a genome-wide map of 827,000 transcription factor binding sites in human lymphoblastoid cell lines, which is comprised of sites correspond-ing to 239 position weight matrices of known transcription factor binding motifs, and 49 novel sequence motifs. To generate this map, we developed a probabilistic framework that integrates cell- or tissue-specific experimental data such as histone modifications and DNa-seI cleavage patterns with genomic information such as gene annotation and evolutionary conservation. Comparison to empirical ChIP-seq data suggests that our method is highly accurate yet has the advantage of targeting many factors in a single assay. We anticipate tha

ORGANISM(S): Homo sapiens

SUBMITTER: Jacob Degner 

PROVIDER: E-GEOD-25341 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress