PXD054048
PXD054048 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Ahmed_LINC00324_timsTOFPro2_P124_VS18_VS19 |
| Description | This dataset consists of 12 raw MS files and associated peak lists and results files, acquired on a timsTOF Pro 2 mass spectrometer. Six files were acquired in Data Dependent Acquisition mode and six were acquired in Data Independent Acquisition mode. Samples were generated by Sameen Ahmed. Sample clean-up, digestion, and mass spectrometry acquisition were performed by Cassandra Wong. Analysis was performed by Sameen Ahmed, Philipp Maass, and Cassandra Wong. The files are associated with a manuscript submitted for publication by Sameen Ahmed et al. The main goal of this paper was to determine total protein levels in wildtype (WT) and deltaLINC00324 C-28/I2 chondrocytes. Specifically, investigated how the loss of the tRNA-overlapping lncRNA locus LINC00324 locus affected codon usage at the protein level. Philipp G. Maass is the corresponding author of the manuscript (Philipp.maass@sickkids.ca); Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca) This submission is associated with 4 Supplementary Files (in addition to this README file) Table 1 describes the composition of the DDA dataset Table 2 lists all the DDA peptide identification evidence (MSFragger) Table 3 describes the composition of the DIA dataset Table 4 lists the DIA protein identifications (DIA-NN) Table 5 lists the DIA peptide identifications (DIA-NN) |
| HostingRepository | MassIVE |
| AnnounceDate | 2025-09-11 |
| AnnouncementXML | Submission_2025-09-11_05:52:41.851.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Supported dataset by repository |
| PrimarySubmitter | Gingras Lab |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | Carbamidomethyl; L-methionine sulfoxide |
| Instrument | timsTOF Pro 2 |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2024-07-18 12:38:40 | ID requested | |
| ⏵ 1 | 2025-09-11 05:52:42 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: tROL, LINC00324, codon usage |
Contact List
| Anne-Claude Gingras | |
|---|---|
| contact affiliation | LTRI |
| contact email | gingras@lunenfeld.ca |
| lab head | |
| Gingras Lab | |
| contact affiliation | Samuel Lunenfeld Research Institute |
| contact email | gingras@mshri.on.ca |
| 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-ftp.ucsd.edu/v08/MSV000095375/ |
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