CHANCE: comprehensive software for quality control and validation of ChIP-seq data

Aaron Diaz, Abhinav Nellore, Jun S. Song

Research output: Contribution to journalArticle

37 Scopus citations

Abstract

ChIP-seq is a powerful method for obtaining genome-wide maps of protein-DNA interactions and epigenetic modifications. CHANCE (CHip-seq ANalytics and Confidence Estimation) is a standalone package for ChIP-seq quality control and protocol optimization. Our user-friendly graphical software quickly estimates the strength and quality of immunoprecipitations, identifies biases, compares the user's data with ENCODE's large collection of published datasets, performs multi-sample normalization, checks against quantitative PCR-validated control regions, and produces informative graphical reports. CHANCE is available at https://github.com/songlab/chance.

Original languageEnglish (US)
Pages (from-to)R98
JournalGenome biology
Volume13
Issue number10
DOIs
StatePublished - 2012

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Genetics
  • Cell Biology

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