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PXD002021

PXD002021 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleExploiting the multiplexing capabilities of tandem mass tags for high-throughput estimation of cellular protein abundances by mass spectrometry
DescriptionThe generation of dynamic models of biological processes critically depends on the determination of precise cellular concentrations of biomolecules. Measurements of system-wide absolute protein levels are particularly valuable information in systems biology. Recently, mass spectrometry based proteomics approaches have been developed to estimate protein concentrations on a proteome-wide scale. However, for very complex proteomes, fractionation steps are required, increasing samples number and instrument analysis time. As a result, the number of full proteomes that can be routinely analyzed is limited. Here we combined absolute quantification strategies with the multiplexing capabilities of isobaric tandem mass tags to determine cellular protein abundances in a high throughput and proteome-wide scale even for highly complex biological systems, such as a whole human cell line. We generated two independent data sets to demonstrate the power of the approach regarding sample throughput, dynamic range, quantitative accuracy and proteome coverage in comparison to existing mass spectrometry based strategies.
HostingRepositoryPRIDE
AnnounceDate2024-10-07
AnnouncementXMLSubmission_2024-10-07_10:02:13.636.xml
DigitalObjectIdentifierhttps://dx.doi.org/10.6019/PXD002021
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterAlexander Schmidt
SpeciesList scientific name: Schizosaccharomyces pombe; NCBI TaxID: 4896; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListOxidation; Carbamidomethyl
InstrumentLTQ Orbitrap Elite
Dataset History
RevisionDatetimeStatusChangeLog Entry
02015-04-07 05:31:45ID requested
12024-10-07 10:02:14announced
Publication List
Dreier RF, Ahrn, é E, Broz P, Schmidt A, Global Ion Suppression Limits the Potential of Mass Spectrometry Based Phosphoproteomics. J Proteome Res, 18(1):493-507(2019) [pubmed]
10.6019/PXD002021;
10.1021/acs.jproteome.8b00812;
Keyword List
curator keyword: Technical
submitter keyword: HEK cells, TMT,S. Pombe, iBAQ, absolute quantification
Contact List
Alexander Schmidt
contact affiliationUniversity of Basel, Biozentrum, 4056 Basel, Switzerland
contact emailalex.schmidt@unibas.ch
lab head
Alexander Schmidt
contact affiliationProteomics Core Facility
contact emailalex.schmidt@unibas.ch
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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