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


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.

SUBMITTER: Diaz A 

PROVIDER: S-EPMC4053734 | biostudies-literature | 2012 Oct

REPOSITORIES: biostudies-literature

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

Diaz Aaron A   Nellore Abhinav A   Song Jun S JS  

Genome biology 20121015 10


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  ...[more]

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