Inferring functional transcription factor-gene binding pairs by integrating transcription factor binding data with transcription factor knockout data
Chromatin immunoprecipitation (ChIP) experiments are now the most comprehensive experimental approaches for mapping the binding of transcription factors (TFs) to their target genes. However, ChIP data alone is insufficient for identifying functional binding target genes of TFs for two reasons. First, there is an inherent high false positive/negative rate in ChIP-chip or ChIP-seq experiments. Second, binding signals in the ChIP data do not necessarily imply functionality.
transcription factor knockout data chromatin immunoprecipitation functional tf-gene binding pair