Format

Send to

Choose Destination
See comment in PubMed Commons below
Methods Mol Biol. 2012;802:305-22. doi: 10.1007/978-1-61779-400-1_20.

ChIP-Seq data analysis: identification of protein-DNA binding sites with SISSRs peak-finder.

Author information

1
National Institutes of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, NC, USA.

Abstract

Protein-DNA interactions play key roles in determining gene-expression programs during cellular development and differentiation. Chromatin immunoprecipitation (ChIP) is the most widely used assay for probing such interactions. With recent advances in sequencing technology, ChIP-Seq, an approach that combines ChIP and next-generation parallel sequencing is fast becoming the method of choice for mapping protein-DNA interactions on a genome-wide scale. Here, we briefly review the ChIP-Seq approach for mapping protein-DNA interactions and describe the use of the SISSRs peak-finder, a software tool for precise identification of protein-DNA binding sites from sequencing data generated using ChIP-Seq.

PMID:
22130889
PMCID:
PMC4783134
DOI:
10.1007/978-1-61779-400-1_20
[Indexed for MEDLINE]
Free PMC Article
PubMed Commons home

PubMed Commons

0 comments
How to join PubMed Commons

    Supplemental Content

    Full text links

    Icon for Springer Icon for PubMed Central
    Loading ...
    Support Center