Genome-wide analysis of the rat colon reveals site-specific differences in histone modifications and proto-oncogene expression

ABSTRACT: Goal: Since disease susceptibility of the intestine exhibits an anatomical bias, we propose that the chromatin landscape, especially the site-specific epigenetic differences in histone modification patterns throughout the longitudinal axis, contributes to a differential response to chemoprotective agents. Method: We assessed the chromatin structure associated with gene expression profiles in the rat proximal and distal colon by globally correlating chromatin immunoprecipitation next-generation sequencing analysis (ChIP-Seq) with mRNA transcription (RNA-Seq) data. Crypts were isolated from the proximal and distal colonic regions from rats maintained on a semi-purified diet, and mRNA gene expression profiles were generated using RNA-Seq. The remaining isolated crypts were paraformaldehyde-cr

ORGANISM(S): Rattus norvegicus

SUBMITTER: Karen Triff 

PROVIDER: E-GEOD-49389 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress