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PXD033574 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleAddressing the Protease Bias in Quantitative Proteomics
DescriptionProtein quantification strategies using multiple proteases have been shown to deliver poor inter-protease accuracy in label-free mass spectrometry experiments. By utilizing six different proteases with different cleavage sites, this study explores the protease bias and its effect on accuracy and precision by using recombinant protein standards. We established 557 SRM assays, using a recombinant protein standard resource, towards ten proteins in human plasma and determined their concentration with multiple proteases. The quantified peptides of these plasma proteins spanned three orders of magnitude (0.02-70 µM). In total, 60 peptides were used for absolute quantification and the majority of the peptides showed high robustness. The retained reproducibility was achieved by quantifying plasma proteins using spiked stable isotope standard recombinant proteins in a targeted proteomics workflow.
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportsupported by repository but incomplete data and/or metadata
PrimarySubmitterJakob Woessmann
SpeciesList scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationListCarbamidomethyl; Label:13C(6)15N(2); Label:13C(6)15N(4)
InstrumentTSQ Altis
Dataset History
RevisionDatetimeStatusChangeLog Entry
02022-05-03 22:35:13ID requested
12022-09-02 08:55:24announced
Publication List
Woessmann J, Kotol D, Hober A, Uhl, é, n M, Edfors F, Addressing the Protease Bias in Quantitative Proteomics. J Proteome Res, 21(10):2526-2534(2022) [pubmed]
Keyword List
submitter keyword: Multiple proteases, SRM, Targeted proteomics, Absolute quantification, Plasma proteomics
Contact List
Fredrik Edfors
contact affiliationScience for Life Laboratory, Department of Protein Science (KTH), Stockholm, Sweden
contact emailfredrik.edfors@scilifelab.se
lab head
Jakob Woessmann
contact affiliationScience for Life Laboratory, Department of Protein Science (KTH), Stockholm, Sweden
contact emailjakob.woessmann@scilifelab.se
dataset submitter
Full Dataset Link List
Panorama Public dataset URI