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Transcription factor binding detection software tools | Bisulfite sequencing data analysis

Detecting in vivo transcription factor (TF) binding is important for understanding gene regulatory circuitries. ChIP-seq is a powerful technique to empirically define TF binding in vivo. However, the multitude of distinct TFs makes genome-wide profiling for them all labor-intensive and costly. Algorithms for in silico prediction of TF binding have been developed, based mostly on histone modification or DNase I hypersensitivity data in conjunction with DNA motif and other genomic features.

Source text:
(Xu et al. 2015) Base-resolution methylation patterns accurately predict transcription factor bindings in vivo. Nucleic Acids Res.

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