PXD004413 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Protein turnover measurement using selected reaction monitoring-mass spectrometry (SRM-MS) C4PR_LIV |
Description | Protein turnover represents an important mechanism in the functioning of cells, with deregulated synthesis and degradation of proteins implicated in many diseased states. Therefore, proteomics strategies to measure, with high confidence, turnover rates are of vital importance to understanding many biological processes. In this study, the more widely used approach of non-targeted precursor ion signal intensity (MS1) quantification is compared to selected reaction monitoring (SRM), a data acquisition strategy that records data for specific peptides, to determine if improved quantitative data would be obtained using a targeted quantification approach. Using mouse liver as a model system, turnover measurement of four tricarboxylic acid cycle proteins was performed using both MS1 and SRM quantification strategies. SRM outperformed MS1 in terms of sensitivity and selectivity of measurement, allowing more confident determination of protein turnover rates. SRM data is acquired using cheaper and more widely available tandem quadrupole mass spectrometers, making the approach accessible to a larger number of researchers than MS1 quantification, which is best performed on high mass resolution instruments. SRM acquisition is ideally suited to focussed studies where the turnover of tens of proteins is measured, making it applicable in determining the dynamics of proteins complexes and complete metabolic pathways. |
HostingRepository | PRIDE |
AnnounceDate | 2017-02-16 |
AnnouncementXML | Submission_2017-02-16_00:30:49.xml |
DigitalObjectIdentifier | https://dx.doi.org/10.6019/PXD004413 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Stephen Holman |
SpeciesList | scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; |
ModificationList | Oxidation; Label:13C(6); Carbamidomethyl |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2016-06-22 01:31:29 | ID requested | |
1 | 2016-08-10 06:56:46 | announced | |
⏵ 2 | 2017-02-16 00:30:49 | announced | Updated project metadata. |
Publication List
Dataset with its publication pending |
Keyword List
curator keyword: Biological |
submitter keyword: Protein turnover, SRM, MS1, proteomics, quantification, mass spectrometry |
Contact List
Robert J. Beynon |
contact affiliation | Centre for Proteome Research, Department of Biochemistry, University of Liverpool, UK |
contact email | r.beynon@liv.ac.uk |
lab head | |
Stephen Holman |
contact affiliation | University of Liverpool |
contact email | stephen.holman@liverpool.ac.uk |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD004413
- Label: PRIDE project
- Name: Protein turnover measurement using selected reaction monitoring-mass spectrometry (SRM-MS) C4PR_LIV