A regression analysis of gene expression in ES cells reveals two gene classes that are significantly different in epigenetic patterns.

ABSTRACT:

Background

To understand the gene regulatory system that governs the self-renewal and pluripotency of embryonic stem cells (ESCs) is an important step for promoting regenerative medicine. In it, the role of several core transcription factors (TFs), such as Oct4, Sox2 and Nanog, has been intensively investigated, details of their involvement in the genome-wide gene regulation are still not well clarified.

Methods

We constructed a predictive model of genome-wide gene expression in mouse ESCs from publicly available ChIP-seq data of 12 core TFs. The tag sequences were remapped on the genome by various alignment tools. Then, the binding density of each TF is calculated from the genome-wide bona fide TF binding sites. The TF-binding data was combined with the data of several epig

SUBMITTER: Park SJ 

PROVIDER: S-EPMC3044308 | biostudies-literature | 2011 Feb

REPOSITORIES: biostudies-literature