PXD008513 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Systematic analysis of protein turnover in primary cells - Part III |
Description | To better understand proteostasis in health and disease, determination of protein half-lives is essential. We improved the precision and accuracy of peptide-ion intensity based quantification in order to enable accurate determination of protein turnover in non-dividing cells using dynamic-SILAC. This enabled precise and accurate protein half-life determination ranging from 10 to more than 1000 hours. We achieve good proteomic coverage ranging from four to six thousand proteins in several types of non-dividing cells, corresponding to a total of 9699 unique proteins over the entire dataset. Good agreement was observed in half-lives between B-cells, natural killer cells and monocytes, while hepatocytes and mouse embryonic neurons showed substantial differences. Our comprehensive dataset enabled extension and statistical validation of the previous observation that subunits of protein complexes tend to have coherent turnover. Furthermore, we observed complex architecture dependent turnover within complexes of the proteasome and the nuclear pore complex. Our method is broadly applicable and might be used to investigate protein turnover in various cell types. |
HostingRepository | PRIDE |
AnnounceDate | 2018-06-08 |
AnnouncementXML | Submission_2018-06-08_09:07:36.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Maria Faelth Savitski |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | methionine oxidation with neutral loss of 64 Da; 6x(13)C: 2x(15)N labeled L-lysine; acetylated residue; iodoacetamide derivatized residue |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2017-12-20 01:58:53 | ID requested | |
⏵ 1 | 2018-06-08 09:07:37 | announced | |
Publication List
Mathieson T, Franken H, Kosinski J, Kurzawa N, Zinn N, Sweetman G, Poeckel D, Ratnu VS, Schramm M, Becher I, Steidel M, Noh KM, Bergamini G, Beck M, Bantscheff M, Savitski MM, Systematic analysis of protein turnover in primary cells. Nat Commun, 9(1):689(2018) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: protein half lives, SILAC, monocyte, isobarQuant |
Contact List
Marcus Bantscheff |
contact affiliation | Cellzome |
contact email | marcus.x.bantscheff@gsk.com |
lab head | |
Maria Faelth Savitski |
contact affiliation | Cellzome |
contact email | maria.x.faelth-savitski@gsk.com |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD008513
- Label: PRIDE project
- Name: Systematic analysis of protein turnover in primary cells - Part III