PXD002021
PXD002021 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Exploiting the multiplexing capabilities of tandem mass tags for high-throughput estimation of cellular protein abundances by mass spectrometry |
Description | The 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. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-07 |
AnnouncementXML | Submission_2024-10-07_10:02:13.636.xml |
DigitalObjectIdentifier | https://dx.doi.org/10.6019/PXD002021 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Alexander Schmidt |
SpeciesList | scientific name: Schizosaccharomyces pombe; NCBI TaxID: 4896; scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | Oxidation; Carbamidomethyl |
Instrument | LTQ Orbitrap Elite |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2015-04-07 05:31:45 | ID requested | |
⏵ 1 | 2024-10-07 10:02:14 | announced |
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 affiliation | University of Basel, Biozentrum, 4056 Basel, Switzerland |
contact email | alex.schmidt@unibas.ch |
lab head | |
Alexander Schmidt | |
contact affiliation | Proteomics Core Facility |
contact email | alex.schmidt@unibas.ch |
dataset submitter |
Full Dataset Link List
Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2022/02/PXD002021 |
PRIDE project URI |
Repository Record List
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