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Open Access Highly Accessed Research article

Normalization of ChIP-seq data with control

Kun Liang1* and Sündüz Keleş23

Author Affiliations

1 Department of Statistics and Actuarial Science, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada

2 Department of Statistics, University of Wisconsin-Madison, Madison, WI 53706, USA

3 Department of Biostatistics and Medical Informatics, University of Wisconsin-Madison, Madison, WI 53706, USA

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BMC Bioinformatics 2012, 13:199  doi:10.1186/1471-2105-13-199

Published: 10 August 2012

Additional files

Additional file 1:

Section 1. Illustration of linearity between ChIP and control samples. Section 2. Simulation results for the normalization factor estimators at different settings with yeast data. Section 3. Simulation results for the normalization factor estimators with C.elegans data. Section 4. FDR control for unbalanced data, [21].

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Open Data

Additional file 2:

NCIS R Package.

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Open Data