PXD028307 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Characterization of CD44s glycoproteoforms in bladder tumours and bladder cancer cell culture models |
Description | Bladder cancer (BC) is a major health concern retaining high mortality rates when diagnosed at advanced stages. In this context, the clinical management of BC requires the introduction of new biomarkers and molecular targets capable to elicit precision medicine therapeutical approaches. A promising candidate is cluster of differentiation 44 (CD44), a multifunctional and heavily glycosylated transmembrane protein, involved in cell-cell and cell-matrix adhesion, and a transducer of several oncogenic signalling cascades. CD44 has been widely explored as a marker of BC aggressiveness and cancer stem cells (CSC), but this is a highly heterogenic protein and the lack of molecular tools for precise molecular characterization has led to conflicting results, delaying clinical application. CD44 molecular variability results from the number of proteoforms arising from alternative splicing. The human CD44 gene consists of 17 exons, and while the exons 1-5 are constitutively expressed, exons 6-14 are subjected to alternative splicing, generating a myriad of different variants whose functional implications are yet to be fully understood. Furthermore, this number of proteoforms is greatly amplified by O-GalNAc glycosylation, which is predicted to mostly occur in the protein variable regions. This microheterogeneity and its relevance for BC can only be addressed by obtaining a comprehensive characterization at the protein level. Herein, we devised a strategy, combining transcriptomics, glycomics and mass spectrometry based proteomics data, to interrogate CD44 proteoform expression in a series of BC cell culture models showing different aggressiveness (5637 and T24) and a sample pool from formalin fixed paraffin embedded (FFPE) tumours. Glycoengeneered T24 cells expressing the Tn antigen (T24 C1GALT1 knockout (KO)) were also analysed. |
HostingRepository | PRIDE |
AnnounceDate | 2022-05-19 |
AnnouncementXML | Submission_2022-05-19_08:16:01.130.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | André Silva |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | O-glycosylated residue |
Instrument | Q Exactive; LTQ Orbitrap |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2021-09-09 08:20:50 | ID requested | |
⏵ 1 | 2022-05-19 08:16:02 | announced | |
Publication List
Gaiteiro C, Soares J, Relvas-Santos M, Peixoto A, Ferreira D, Paulo P, Brand, ã, o A, Fernandes E, Azevedo R, Palmeira C, Freitas R, Miranda A, Os, ó, rio H, Prieto J, Lima L, Silva AMN, Santos LL, Ferreira JA, Glycoproteogenomics characterizes the CD44 splicing code associated with bladder cancer invasion. Theranostics, 12(7):3150-3177(2022) [pubmed] |
Keyword List
submitter keyword: Bladder Cancer, CD44, alternative splicing, glycosylation, glycoproteogenomics |
Contact List
José Alexandre Ferreira |
contact affiliation | Experimental Pathology and Therapeutics Group, IPO Porto Research Center (CI-IPOP), Portuguese Oncology Institute (IPO Porto), 4200-072 Porto, Portugal |
contact email | jose.a.ferreira@ipoporto.min-saude.pt |
lab head | |
André Silva |
contact affiliation | REQUIMTE/LAQV, Departamento de Química e Bioquímica, Faculdade de Ciências, Universidade do Porto, Portugal |
contact email | andre.silva@fc.up.pt |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD028307
- Label: PRIDE project
- Name: Characterization of CD44s glycoproteoforms in bladder tumours and bladder cancer cell culture models