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UPS1-yeast standard analysis - Technical Brief Calibration Plot for Proteomics (CP4P): A graphical tool to visually check the assumptions underlying FDR control in quantitative experiments

ABSTRACT: Label-free quantification of various concentrations of Universal Proteomic Standard (UPS1, Sigma-Aldrich) spiked in yeast extract.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (human) Saccharomyces Cerevisiae (baker's Yeast)

SUBMITTER: Yohann Couté

LAB HEAD: Christophe Bruley

PROVIDER: PXD002370 | Pride | 2015-11-27

REPOSITORIES: Pride

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Calibration plot for proteomics: A graphical tool to visually check the assumptions underlying FDR control in quantitative experiments.

Giai Gianetto Quentin Q Combes Florence F Ramus Claire C Bruley Christophe C Couté Yohann Y Burger Thomas T

Proteomics 20160101 1

In MS-based quantitative proteomics, the FDR control (i.e. the limitation of the number of proteins that are wrongly claimed as differentially abundant between several conditions) is a major postanalysis step. It is classically achieved thanks to a specific statistical procedure that computes the adjusted p-values of the putative differentially abundant proteins. Unfortunately, such adjustment is conservative only if the p-values are well-calibrated; the false discovery control being spuriously ...[more]

PMID: 26572953

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