Discriminative identification of transcriptional responses of promoters and enhancers after stimulus.

ABSTRACT: Promoters and enhancers regulate the initiation of gene expression and maintenance of expression levels in spatial and temporal manner. Recent findings stemming from the Cap Analysis of Gene Expression (CAGE) demonstrate that promoters and enhancers, based on their expression profiles after stimulus, belong to different transcription response subclasses. One of the most promising biological features that might explain the difference in transcriptional response between subclasses is the local chromatin environment. We introduce a novel computational framework, PEDAL, for distinguishing effectively transcriptional profiles of promoters and enhancers using solely histone modification marks, chromatin accessibility and binding sites of transcription factors and co-activators. A case study on d

SUBMITTER: Kleftogiannis D 

PROVIDER: S-EPMC5389464 | biostudies-literature | 2017 Feb

REPOSITORIES: biostudies-literature