SEMplMe: a tool for integrating DNA methylation effects in transcription factor binding affinity predictions.

ABSTRACT:

Motivation

Aberrant DNA methylation in transcription factor binding sites has been shown to lead to anomalous gene regulation that is strongly associated with human disease. However, the majority of methylation-sensitive positions within transcription factor binding sites remain unknown. Here we introduce SEMplMe, a computational tool to generate predictions of the effect of methylation on transcription factor binding strength in every position within a transcription factor's motif.

Results

SEMplMe uses ChIP-seq and whole genome bisulfite sequencing to predict effects of methylation within binding sites. SEMplMe validates known methylation sensitive and insensitive positions within a binding motif, identifies cell type specific transcription factor binding driven by methylat

SUBMITTER: Nishizaki SS 

PROVIDER: S-EPMC9351228 | biostudies-literature | 2022 Aug

REPOSITORIES: biostudies-literature