PXD042671 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Proteomics of cell-free patient-derived scaffolds from breast cancer identify clinically relevant imprinted proteins and cancer-progressing properties |
Description | Breast cancer is a heterogenous disease that is difficult to model in vitro. Frozen primary breast cancers were decellularised to generate patient-derived scaffolds which are used to model 3D growth for cancer cell lines. The cell-free cancer microenvironments in the patient-derived scaffolds influence breast cancer cell line phenotypes and enrich for cells with cancer stem cell characteristics. Growth in patient-derived scaffold cultures also influenced the expression of epithelial-to-mesenchymal transition-related genes, and several gene expression changes in the model could be associated to clinical parameters of the original tumors and corresponding patients. Previous studies also demonstrated that the relative protein composition in the cell-free cancers were related to tumor grade and proliferation in cancer cells, suggesting that the relative proteomic composition varies between individual microenvironments. Therefore, we decellularised a larger breast cancer cohort to better characterize the cell-free microenvironments and potentially link to clinical features of the tumors and patients, which could be used to identify novel processes and targets that could be used to better model the disease or targeted in drug discovery. |
HostingRepository | PRIDE |
AnnounceDate | 2024-04-18 |
AnnouncementXML | Submission_2024-04-18_04:58:35.418.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Johannes Fuchs |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | Orbitrap Fusion Lumos |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2023-06-02 07:44:37 | ID requested | |
⏵ 1 | 2024-04-18 04:58:36 | announced | |
Publication List
Gustafsson A, Jonasson E, St, å, hlberg A, Landberg G, Proteomics of cell-free breast cancer scaffolds identify clinically relevant imprinted proteins and cancer-progressing properties. Cancer Commun (Lond), 44(6):695-699(2024) [pubmed] |
10.1002/cac2.12542; |
Keyword List
submitter keyword: patient-derived scaffold,Breast cancer, 3D model, quantitative liquid chromatography-mass spectrometry/mass spectrometry, tumor microenvironment |
Contact List
Göran Landberg |
contact affiliation | Department of Pathology, Sahlgrenska Center for Cancer Research, Institute of Biomedicine, Sahlgrenska Academy at University of Gothenburg, 405 30 Gothenburg, Sweden |
contact email | goran.landberg@gu.se |
lab head | |
Johannes Fuchs |
contact affiliation | Gothenburg University |
contact email | johannes.fuchs@gu.se |
dataset submitter | |
Full Dataset Link List
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://ftp.pride.ebi.ac.uk/pride/data/archive/2024/04/PXD042671 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD042671
- Label: PRIDE project
- Name: Proteomics of cell-free patient-derived scaffolds from breast cancer identify clinically relevant imprinted proteins and cancer-progressing properties