PXD026027
PXD026027 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Proteomics of Primary Uveal Melanoma:Insights to Metastasis and Protein Biomarkers |
| Description | Uveal melanoma metastases are lethal and remain incurable. Quantitative proteomic analysis of 53 metastasizing and 47 non-metastasizing primary uveal melanoma (pUM) was pursued for insights into UM metastasis and protein biomarkers. The metastatic status of the pUM specimens was defined based on clinical data, survival histories, prognostic analyses, and liver histopathology. LC MS/MS iTRAQ technology, the Mascot search engine and the UniProt human database were used to identify and quantify pUM proteins relative to normal choroid excised from UM donor eyes containing metastasizing (n=6) and non-metastasizing (n=7) pUM. The determined proteomes of all 100 tumors were very similar, encompassing a total of 3935 pUM proteins. Proteins differentially expressed (DE) (n=402) between metastasizing and non-metastasizing pUM were employed in bioinformatic analyses that predicted significant differences in the immune system between metastasizing and non-metastasizing pUM. Immune proteins (n=778) identified in this study support the immune-suppressive nature and low abundance of immune checkpoint regulators in pUM and suggest CDH1 and HLA-DPA1 as candidates for immune therapy checkpoint blockade. Prediction modeling identified 32 proteins capable of predicting with 93% discriminatory accuracy metastasizing versus non-metastasizing pUM, supporting the potential of protein-based prognostic methods for detecting UM metastasis |
| HostingRepository | MassIVE |
| AnnounceDate | 2022-11-04 |
| AnnouncementXML | Submission_2022-11-04_08:03:45.441.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Supported dataset by repository |
| PrimarySubmitter | Jack Crabb |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | iTRAQ8plex; Carbamidomethyl; Deamidated; Oxidation |
| Instrument | Orbitrap Fusion Lumos |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2021-05-15 13:35:24 | ID requested | |
| ⏵ 1 | 2022-11-04 08:03:46 | announced |
Publication List
| Jang GF, Crabb JS, Hu B, Willard B, Kalirai H, Singh AD, Coupland SE, Crabb JW, Proteomics of Primary Uveal Melanoma: Insights into Metastasis and Protein Biomarkers. Cancers (Basel), 13(14):(2021) [pubmed] |
Keyword List
| submitter keyword: bioinformatics, immune profiling, iTRAQ, metastasis, prediction modeling, quantitative proteomics, uveal melanoma |
Contact List
| John W Crabb | |
|---|---|
| contact affiliation | Cleveland Clinic |
| contact email | crabbj@ccf.org |
| lab head | |
| Jack Crabb | |
| contact affiliation | Cleveland Clinic |
| contact email | crabbj1@ccf.org |
| 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.ucsd.edu/MSV000087437/ |
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