⮝ Full datasets listing
PXD068582
PXD068582 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | The proteomics and phosphoproteomics landscape of melanoma under T cell attack |
| Description | Understanding how tumor cells interact with tumor-infiltrating lymphocytes (TILs) is crucial for improving immunotherapy, yet protein-level changes remain largely unexplored. To address this, we profiled the early responses of patient-derived melanoma cells co-cultured with matched autologous TILs. To distinguish tumor from TIL proteomes without physical sorting, we applied stable isotope labeling by amino acids in cell culture (SILAC) coupled with Orbitrap Astral data-independent acquisition (DIA) mass spectrometry. This approach enabled cell type-specific profiling of protein phosphorylation and degradation, alongside bulk analysis of the early newly synthesized proteome during active immune attack. Our analyses resolved interferon-?-dependent changes in melanoma cells, identified the cytotoxic and regulatory T-cell molecule (CRTAM) as a selective marker of reactive TILs, and revealed rapid tumor-intrinsic activation of DNA damage response-associated kinases, exposing potential therapeutic vulnerabilities. Overall, this framework provides a powerful resource for dissecting tumor-immune interactions to guide biomarker discovery and advance immunotherapy. |
| HostingRepository | MassIVE |
| AnnounceDate | 2026-04-08 |
| AnnouncementXML | Submission_2026-04-08_23:22:45.095.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Giulia Franciosa |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | Phospho |
| Instrument | Orbitrap Astral |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2025-09-19 09:55:08 | ID requested | |
| ⏵ 1 | 2026-04-08 23:22:45 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: Immunotherapy, Melanoma, Tumor-infiltrating lymphocytes (TILs), DatasetType:Proteomics |
Contact List
| Jesper Velgaard Olsen | |
|---|---|
| contact affiliation | Univesity of Copenhagen, Faculty of Health and Medical Sciences, Novo Nordisk Foundation Center for Protein Research, Proteomics Program |
| contact email | jesper.olsen@cpr.ku.dk |
| lab head | |
| Giulia Franciosa | |
| contact affiliation | NNF Center For Protein Research, University of Copenhagen |
| contact email | giulia.franciosa@cpr.ku.dk |
| 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/v10/MSV000099234/ |
