PXD009300 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Proteomic Distinction of Renal Oncocytomas and Eosinophilic Chromophobe Renal Cell Carcinomas |
Description | Background Renal oncocytomas (ROs) are benign epithelial tumors of the kidney that may progress into malignant chromophobe renal cell carcinoma (chRCCs), with the latter constituting 5 – 7 % of renal neoplasias. ROs and chRCCs show pronounced molecular and histological similarities, which renders their differentiation demanding. We aimed for the differential proteome profiling of ROs and chRCCs in order to better understand distinguishing protein patterns. Methods We employed formalin-fixed, paraffin-embedded samples (six RO cases, six chRCC cases) together with isotopic triplex dimethylation and a pooled reference standard to enable cohort-wide quantitative comparison. For lysosomal-associated membrane protein 1 (LAMP1) and integrin alpha-V (ITGAV) we performed corroborative immunohistochemistry (IHC) in an extended cohort of 42 RO cases and 31 chRCC cases lacking any overlap with the smaller proteomic cohort. Results: At 1 % false discovery rate, we identified > 3900 proteins, of which >2400 proteins were consistently quantified in at least four RO and four chRCC cases. The proteomic expression profiling discriminated ROs and chRCCs and highlighted established features such as accumulation of mitochondrial proteins in ROs together with emphasizing the accumulation of endo-lysosomal proteins in chRCCs. In line with the proteomic data, IHC showed enrichment of LAMP1 in chRCC and of ITGAV in RO. Conclusion We present one of the first differential proteome profiling studies on ROs and chRCCs and highlight differential abundance of LAMP1 and ITGAV in these renal tumors. |
HostingRepository | PRIDE |
AnnounceDate | 2018-08-13 |
AnnouncementXML | Submission_2018-08-13_08:51:43.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Oliver Schilling |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2018-03-23 02:17:13 | ID requested | |
⏵ 1 | 2018-08-13 08:51:45 | announced | |
Publication List
Drendel V, Heckelmann B, Schell C, Kook L, Biniossek ML, Werner M, Jilg CA, Schilling O, Proteomic distinction of renal oncocytomas and chromophobe renal cell carcinomas. Clin Proteomics, 15():25(2018) [pubmed] |
Keyword List
curator keyword: Biomedical |
submitter keyword: renal cell tumors formalin-fixation, paraffin embedment proteomics immunohistochemistry |
Contact List
Oliver Schilling |
contact affiliation | PD Dr. Oliver Schilling Heisenberg Fellow Institute of Molecular Medicine and Cell Research University of Freiburg Stefan-Meier-Str. 17, Room 02 027 D-79104 Freiburg, Germany +49 761 203 9615 oliver.schilling@mol-med.uni-freiburg.de |
contact email | oliver.schilling@mol-med.uni-freiburg.de |
lab head | |
Oliver Schilling |
contact affiliation | University of Freiburg |
contact email | oliver.schilling@mol-med.uni-freiburg.de |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD009300
- Label: PRIDE project
- Name: Proteomic Distinction of Renal Oncocytomas and Eosinophilic Chromophobe Renal Cell Carcinomas