Introduction

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.

Publications

  1. ChIP-Seq data analysis: identification of protein-DNA binding sites with SISSRs peak-finder.
    Cite this
    Narlikar L, Jothi R, 2012-01-01 - Methods in molecular biology (Clifton, N.J.)

Credits

  1. Leelavati Narlikar
    Developer

    National Institutes of Environmental Health Sciences, National Institutes of Health, United States of America

  2. Raja Jothi
    Investigator

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Summary
AccessionBT006392
Tool TypeApplication
Category
PlatformsLinux/Unix
Technologies
User InterfaceTerminal Command Line
Download Count0
Submitted ByRaja Jothi