PXD007053
PXD007053 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Standardization of mitochondrial proteomics v2 NP |
| Description | Comparison of the extraction performances of three different mitochondria enrichment protocols (differential centrifugation, sucrose gradient, a commercial kit based on surfactants) on ten different cell lines. Samples were analysed on several instrumental platforms. Mitochondrial pellets were lysed in RapiGest 0.1% (RG, Waters Corporation) and digested with trypsin in 50 mM ammonium bicarbonate. Before digestion the proteins were first quantified according to the Bradford assay and then reduced with 1 mM TCEP 50 mM and alkylated wit IAA 20 mM. Peptides were recovered by centrifugation and then loaded directly on the respective chromatographic system for the mass spectrometry analysis or on a SDS-PAGE for WB analysis. Raw data were processed with PEAKS 7.5 with the following search parameters. Parent Mass Error Tolerance - depending on the instrument - 10.0 to 40 ppm Fragment Mass Error Tolerance - depending on the instrument - 0.05 to 0.6 Da Enzyme specificity Trypsin Max Missed Cleavages: 2 Non-specific Cleavage: 1 Fixed Modifications: Carbamidomethylation (C) Variable Modifications: Oxidation (M), Deamidation (NQ) Max variable PTM per peptide: 2 The searched database was downloaded from www.nextprot.org and contained the latest annotated human proteome including isoforms (42,151 entries). |
| HostingRepository | MassIVE |
| AnnounceDate | 2017-09-18 |
| AnnouncementXML | Submission_2017-09-18_12:15:13.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Supported dataset by repository |
| PrimarySubmitter | Maurizio Ronci |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | deamidated L-asparagine; deamidated L-glutamine; L-methionine sulfoxide; S-carboxamidomethyl-L-cysteine |
| Instrument | maXis 4G; impact; Synapt G2-S HDMS; TripleTOF 5600; LTQ Orbitrap Velos; Orbitrap Fusion; LTQ Orbitrap XL |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2017-07-14 07:47:49 | ID requested | |
| ⏵ 1 | 2017-09-18 12:15:15 | announced |
Publication List
| Alberio T, Pieroni L, Ronci M, Banfi C, Bongarzone I, Bottoni P, Brioschi M, Caterino M, Chinello C, Cormio A, Cozzolino F, Cunsolo V, Fontana S, Garavaglia B, Giusti L, Greco V, Lucacchini A, Maffioli E, Magni F, Monteleone F, Monti M, Monti V, Musicco C, Petrosillo G, Porcelli V, Saletti R, Scatena R, Soggiu A, Tedeschi G, Zilocchi M, Roncada P, Urbani A, Fasano M, Toward the Standardization of Mitochondrial Proteomics: The Italian Mitochondrial Human Proteome Project Initiative. J Proteome Res, 16(12):4319-4329(2017) [pubmed] |
Keyword List
| submitter keyword: Mt-HPP, Mitochondria enrichment protocol, human cell lines, orbitrap, qtof, high resolution |
Contact List
| Maurizio Ronci | |
|---|---|
| contact affiliation | University G. d'Annunzio |
| contact email | maurizio.ronci@unich.it |
| lab head | |
| Maurizio Ronci | |
| contact affiliation | University G. d'Annunzio |
| contact email | maurizio.ronci@unich.it |
| dataset submitter | |
Full Dataset Link List
| MassIVE dataset URI |
| 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://massive.ucsd.edu/MSV000081329 |
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