PXD006843
PXD006843 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | GeLC-MS/MS of H37Rv and two clinical isolates of Mycobacterium tuberculosis |
| Description | Clinical isolates were made available from an extensive longitudinal collection of M. tuberculosis isolates circulating in the Western Cape of South Africa. Clinical isolates SAWC3651 and SAWC3517, belonging to the LAM (lineage 4.3) genotype and IS6110 family 14 and 9, respectively, and M. tuberculosis H37Rv were selected for analysis. Proteins were fractionated by SDS-PAGE, using a 4-12% gradient, 1.0 mm NuPage gel (Invitrogen, Carlsbad, CA, USA). Each gel lane was divided into 10 fractions and each fraction was prepared for analysis by mass spectrometry. The reduced and alkylated proteins were subjected to in-gel trypsin digestion for 17 hours at 37 �C using sequencing grade, modified trypsin (Promega, Madison, USA) in 50 mM ABC. The mass spectrometer was operated in data-dependent mode to automatically switch between Orbitrap-MS and LTQ-MS/MS acquisition. Data were acquired using the Xcalibur software package (Thermo Fisher Scientific, Bremen, Germany). Precursor ion scan MS spectra (m/z 400 - 2000) were acquired in the Orbitrap with resolution R = 60 000 with the number of accumulated ions being 1 x 106. The 20 most intense ions were isolated and fragmented in the linear ion trap (number of accumulated ions 1.5 x 104) using collision induced dissociation (30% normalized collision energy). Each of the three tuberculosis lysates were grown in biological duplicate, and duplicate ten-fraction tandem mass spectrometry experiments were produced from each biological replicate. In total, 120 RAW files resulted. |
| HostingRepository | MassIVE |
| AnnounceDate | 2017-07-02 |
| AnnouncementXML | Submission_2017-07-02_23:54:29.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Supported dataset by repository |
| PrimarySubmitter | David L. Tabb |
| SpeciesList | scientific name: Mycobacterium tuberculosis; NCBI TaxID: 1773; |
| ModificationList | Carbamidomethyl; Oxidation |
| Instrument | LTQ Orbitrap Velos |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2017-06-30 01:59:25 | ID requested | |
| ⏵ 1 | 2017-07-02 23:54:29 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: GeLC-MS/MS, Clinical microbiology, Latin American-Mediterranean |
Contact List
| David L. Tabb | |
|---|---|
| contact affiliation | Stellenbosch University |
| contact email | dtabb@sun.ac.za |
| lab head | |
| David L. Tabb | |
| contact affiliation | Vanderbilt University Medical Center |
| contact email | david.l.tabb@vanderbilt.edu |
| 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/MSV000081205 |
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