Unmeasured human transcription factor ChIP-seq data shape functional genomics and demand strategic prioritization.

ABSTRACT: Transcription factor (TF) chromatin immunoprecipitation followed by sequencing (ChIP-seq) is essential for identifying genome-wide TF-binding sites (TFBSs), and the collected datasets offer a variety of opportunities for downstream analyses such as inference of gene regulatory network and prediction for effects of single-nucleotide polymorphisms (SNPs) on TFBSs. Although TF ChIP-seq data continue to accumulate in public databases, comprehensive coverage of biologically relevant TF-sample pairs (i.e. combination of targeted TF and cell type) remains elusive. This is due to the need for TF-specific antibodies and large cell numbers, limiting feasible TF-cell type combinations. Moreover, ChIP-seq is measurable when the TF is expressed in the target cell type. Thus, defining the full space of

SUBMITTER: Tahara S 

PROVIDER: S-EPMC12479113 | biostudies-literature | 2025 Jan

REPOSITORIES: biostudies-literature