An evaluation of two-channel ChIP-on-chip and DNA methylation microarray normalization strategies.

ABSTRACT:

Background

The combination of chromatin immunoprecipitation with two-channel microarray technology enables genome-wide mapping of binding sites of DNA-interacting proteins (ChIP-on-chip) or sites with methylated CpG di-nucleotides (DNA methylation microarray). These powerful tools are the gateway to understanding gene transcription regulation. Since the goals of such studies, the sample preparation procedures, the microarray content and study design are all different from transcriptomics microarrays, the data pre-processing strategies traditionally applied to transcriptomics microarrays may not be appropriate. Particularly, the main challenge of the normalization of "regulation microarrays" is (i) to make the data of individual microarrays quantitatively comparable and (ii) to keep

SUBMITTER: Adriaens ME 

PROVIDER: S-EPMC3293711 | biostudies-literature | 2012 Jan

REPOSITORIES: biostudies-literature