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This article is part of the supplement: Statistical mass spectrometry-based proteomics

Open Access Research

Statistical protein quantification and significance analysis in label-free LC-MS experiments with complex designs

Timothy Clough1, Safia Thaminy23, Susanne Ragg4, Ruedi Aebersold25 and Olga Vitek16*

Author Affiliations

1 Department of Statistics, Purdue University, West Lafayette, IN, USA

2 Department of Biology, Institute of Molecular Systems Biology, ETH Zürich, Switzerland

3 Institute for Systems Biology, Seattle, WA, USA

4 School of Medicine, Indiana University, Indianapolis, IN, USA

5 Faculty of Science, University of Zürich, Switzerland

6 Department of Computer Science, Purdue University, West Lafayette, IN, USA

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BMC Bioinformatics 2012, 13(Suppl 16):S6  doi:10.1186/1471-2105-13-S16-S6

Published: 5 November 2012

Additional files

Additional file 1:

Supplementary information. Extensive experimental and computational details and R code for MSstats are provided in Supplementary information.

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