PXD015957

PXD015957 is an original dataset announced via ProteomeXchange.

Title	Immunoproteasome expression is associated with better prognosis and response to checkpoint therapies in melanoma
Description	Predicting the outcome of immunotherapy treatment in melanoma patients is challenging. Alterations in genes involved in antigen presentation and the interferon gamma (IFN) pathway play an important role in the immune response to tumors. We describe here that the overexpression of PSMB8 and PSMB9, two components of the immunoproteasome, is predictive of better survival and improved response to immune-checkpoint inhibitors of melanoma patients. We study the mechanism that underlies this connection by analyzing the antigenic peptide repertoire of cells that overexpress these subunits using HLA peptidomics. We find a higher response of patient-matched tumor infiltrating lymphocytes against antigens deferentially presented after immunoproteasome overexpression. which may explain the higher immune infiltration observed in patients with high immunoproteasome expression levels. Importantly, we find that PSMB8 and PSMB9 expression levels are much stronger predictors of melanoma patients immune response to checkpoint inhibitors than the tumors mutational burden. Taken together, these results suggest that their expression levels can serve as important biomarkers for stratifying melanoma patients for immune-checkpoint treatment.
HostingRepository	PRIDE
AnnounceDate	2020-02-21
AnnouncementXML	Submission_2020-02-21_01:15:09.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Shelly Kalaora
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-10-22 03:04:33	ID requested
⏵ 1	2020-02-21 01:15:10	announced

Kalaora S, Lee JS, Barnea E, Levy R, Greenberg P, Alon M, Yagel G, Bar Eli G, Oren R, Peri A, Patkar S, Bitton L, Rosenberg SA, Lotem M, Levin Y, Admon A, Ruppin E, Samuels Y, Immunoproteasome expression is associated with better prognosis and response to checkpoint therapies in melanoma. Nat Commun, 11(1):896(2020) [pubmed]

submitter keyword: HLA peptidomics, melanoma, immunoproteasome, neoantigens, tumor associated antigens

Yardena Samuels
contact affiliation	Molecular cell biology department Weizmann Institute of Science
contact email	yardena.samuels@weizmann.ac.il
lab head
Shelly Kalaora
contact affiliation	Weizmann institute of science
contact email	shelly.kalaora@weizmann.ac.il
dataset submitter

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/2020/02/PXD015957

PRIDE project URI

• PRIDE
  1. PXD015957
     1. Label: PRIDE project
     2. Name: Immunoproteasome expression is associated with better prognosis and response to checkpoint therapies in melanoma