Binding and Expression Target Analysis (BETA) is a software package that integrates ChIP-seq of transcription factors or chromatin regulators with differential gene expression data to infer direct target genes. BETA has three functions: (1) to predict whether the factor has activating or repressive function; (2) to infer the factor’s target genes; and (3) to identify the motif of the factor and its collaborators which might modulate the factor’s activating or repressive function. Here we describe the implementation and features of BETA to demonstrate its application to several datasets. BETA requires ~2GB RAM and 1h for the whole procedure.
- Validated 4/5/2018