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HLA class I ligandome of renal cancer tissues for hERV antigen identification

ABSTRACT: MS data of HLA class I ligandome of human renal cancer tissues

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Takayuki Kanaseki

PROVIDER: PXD038140 | JPOST Repository | Wed Nov 15 00:00:00 GMT 2023

REPOSITORIES: jPOST

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			Action	DRS
	ST605_RCC17_A24.mgf	Mgf
	ST605_RCC17_A24.raw	Raw
	ST605_RCC17_A24_TPMover0_gencode_v31_pc%20plus%20WES%20plus%20hervquant_sequest.mzTab	Mztab
	ST606_RCC17normal_A24.mgf	Mgf
	ST606_RCC17normal_A24.raw	Raw

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Publications

Proteogenomic identification of an immunogenic antigen derived from human endogenous retrovirus in renal cell carcinoma.

Kobayashi Shin S Tokita Serina S Moniwa Keigo K Kitahara Katsuyuki K Iuchi Hiromichi H Matsuo Kazuhiko K Kakizaki Hidehiro H Kanaseki Takayuki T Torigoe Toshihiko T

JCI insight 20230822 16

CD8+ T cells can recognize tumor antigens displayed by HLA class I molecules and eliminate tumor cells. Despite their low tumor mutation burden, immune checkpoint blockade (ICB) is often beneficial in patients with renal cell carcinoma (RCC). Here, using a proteogenomic approach, we directly and comprehensively explored the HLA class I-presenting peptidome of RCC tissues and demonstrated that the immunopeptidomes contain a small subset of peptides derived from human endogenous retroviruses (hERV ...[more]

PMID: 37606040

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Pre-fractionation extends, but creates a bias in the detectable HLA class Ι ligandome

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Tumour-associated antigenic peptides are present in the HLA class I ligandome of cancer cell line derived extracellular vesicles.

Project description:The recent success of monoclonal antibody checkpoint inhibitor therapies that enhance the ability of CD8+ T cells to detect cancer-related antigenic peptides has refocused the need to fully understand the repertoire of peptides being presented to the immune system. Whilst the peptide ligandome presented by cell surface HLA class I molecules on cancer cells has been studied extensively, the ligandome of extracellular vesicles remains poorly defined. Here we report the HLA class I ligandome of both cell surface and extracellular vesicles from eight breast cancer cell lines (MCF7, MDA-MB-231, MDA-MB-361, MDA-MB-415, MDA-MB-453, HCC 1806, HCC 1395, and HCC 1954), and additionally the melanoma cell line ESTDAB-056 and the multiple myeloma line RPMI 8226. Utilising HLA class I immunoisolation and mass spectrometry we detected a total of 6574 peptides from the cell surface and 2461 peptides from the extracellular vesicles of the cell lines studied. Within the extracellular vesicle HLA class I ligandome we identified 150 peptides derived from tumour associated antigenic proteins, of which 19 peptides have been shown to elicit T cell responses in previous studies. Our data thus confirms for the first time the presence of clinically relevant tumour-associated antigenic peptides in the HLA class I ligandome present on EV.

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