Proteomics

Dataset Information

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Standard dataset of UPS1 spiked into yeast at various concentrations

ABSTRACT: A standard proteolytic digest of a human protein mixture, prepared at 1.5-fold to 3-fold protein concentration changes, and diluted into a constant background of yeast proteins. Similar to other datasets used for ground truth in quantitative studies, with the exception of being more granular, and much larger in terms of replicates, to enable more rigorous and accurate testing of quantitative algorithms.

INSTRUMENT(S): Q Exactive HF

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

SUBMITTER: Michael Hoopmann  

LAB HEAD: Robert L. Moritz

PROVIDER: PXD006447 | Pride | 2018-09-24

REPOSITORIES: Pride

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Publications

Robust determination of differential abundance in shotgun proteomics using nonparametric statistics.

Slama Patrick P   Hoopmann Michael R MR   Moritz Robert L RL   Geman Donald D  

Molecular omics 20181201 6

Label-free shotgun mass spectrometry enables the detection of significant changes in protein abundance between different conditions. Due to often limited cohort sizes or replication, large ratios of potential protein markers to number of samples, as well as multiple null measurements pose important technical challenges to conventional parametric models. From a statistical perspective, a scenario similar to that of unlabeled proteomics is encountered in genomics when looking for differentially ex  ...[more]

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