A semi-supervised approach uncovers thousands of intragenic enhancers differentially activated in human cells.

ABSTRACT:

Background

Transcriptional enhancers are generally known to regulate gene transcription from afar. Their activation involves a series of changes in chromatin marks and recruitment of protein factors. These enhancers may also occur inside genes, but how many may be active in human cells and their effects on the regulation of the host gene remains unclear.

Results

We describe a novel semi-supervised method based on the relative enrichment of chromatin signals between 2 conditions to predict active enhancers. We applied this method to the tumoral K562 and the normal GM12878 cell lines to predict enhancers that are differentially active in one cell type. These predictions show enhancer-like properties according to positional distribution, correlation with gene expression and pro

SUBMITTER: Gonzalez-Vallinas J 

PROVIDER: S-EPMC4501197 | biostudies-literature | 2015 Jul

REPOSITORIES: biostudies-literature