CHANCE

Comprehensive software for quality control andvalidation of ChIP-seq data

Aaron Diaz, Abhinav Nellore, Jun S. Song

Research output: Contribution to journalArticle

33 Citations (Scopus)

Abstract

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

Original languageEnglish (US)
JournalGenome Biology
DOIs
StateAccepted/In press - Oct 15 2012
Externally publishedYes

Fingerprint

Protein Interaction Maps
Immunoprecipitation
Quality Control
quality control
Software
genome
Genome
software
DNA
protein
proteins
sampling
Datasets
method
normalisation
protocol
methodology

ASJC Scopus subject areas

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

Cite this

CHANCE : Comprehensive software for quality control andvalidation of ChIP-seq data. / Diaz, Aaron; Nellore, Abhinav; Song, Jun S.

In: Genome Biology, 15.10.2012.

Research output: Contribution to journalArticle

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