PXD012574 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Proteomic and Genomic Signatures of Repeat-instability in Cancer and Adjacent Normal Tissues |
Description | Repetitive sequences are hotspots of evolution at multiple levels. However, due to technical difficulties involved in their assembly and analysis, the role of repeats in tumor evolution is poorly understood. We developed a rigorous motif-based methodology to quantify variations in the repeat content of proteomes and genomes, directly from proteomic and genomic raw sequence data, and applied it to analyze a wide range of tumors and normal tissues. We identify high similarity between the repeat-instability in tumors and their patient-matched normal tissues, but also tumor-specific signatures, both in protein expression and in the genome, that strongly correlate with cancer progression and robustly predict the tumorigenic state. In a patient, the hierarchy of genomic repeat instability signatures accurately reconstructs tumor evolution, with primary tumors differentiated from metastases. We find an inverse relationship between repeat-instability and point mutation load, within and across patients, and independently of other somatic aberrations. Thus, repeat-instability is a distinct, transient and compensatory adaptive mechanism in tumor evolution. |
HostingRepository | PRIDE |
AnnounceDate | 2020-06-02 |
AnnouncementXML | Submission_2020-06-02_06:16:05.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Tamar Geiger |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | Q Exactive HF |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2019-01-31 01:43:20 | ID requested | |
⏵ 1 | 2020-06-02 06:16:06 | announced | |
Publication List
Persi E, Prandi D, Wolf YI, Pozniak Y, Barnabas GD, Levanon K, Barshack I, Barbieri C, Gasperini P, Beltran H, Faltas BM, Rubin MA, Geiger T, Koonin EV, Demichelis F, Horn D, Proteomic and genomic signatures of repeat instability in cancer and adjacent normal tissues. Proc Natl Acad Sci U S A, 116(34):16987-16996(2019) [pubmed] |
Keyword List
curator keyword: Biomedical |
submitter keyword: Repeat-instability, tumor evolution, proteomic signatures, |
Contact List
Tamar geiger |
contact affiliation | Department of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine, Tel-Aviv University, Tel-Aviv 69978, Israel |
contact email | geiger@tauex.tau.ac.il |
lab head | |
Tamar Geiger |
contact affiliation | Tel Aviv University |
contact email | geiger@tauex.tau.ac.il |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD012574
- Label: PRIDE project
- Name: Proteomic and Genomic Signatures of Repeat-instability in Cancer and Adjacent Normal Tissues