ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data.

ABSTRACT:

Background

Chromatin immunoprecipitation (ChIP) followed by high-throughput sequencing (ChIP-seq) or ChIP followed by genome tiling array analysis (ChIP-chip) have become standard technologies for genome-wide identification of DNA-binding protein target sites. A number of algorithms have been developed in parallel that allow identification of binding sites from ChIP-seq or ChIP-chip datasets and subsequent visualization in the University of California Santa Cruz (UCSC) Genome Browser as custom annotation tracks. However, summarizing these tracks can be a daunting task, particularly if there are a large number of binding sites or the binding sites are distributed widely across the genome.

Results

We have developed ChIPpeakAnno as a Bioconductor package within the statistical

SUBMITTER: Zhu LJ 

PROVIDER: S-EPMC3098059 | biostudies-literature | 2010 May

REPOSITORIES: biostudies-literature