PXD033383

PXD033383 is an original dataset announced via ProteomeXchange.

Title	The HLA-ligandome of oropharyngeal squamous cell carcinomas reveals shared tumor-exclusive peptides for semi-personalized vaccination
Description	Oropharyngeal squamous cell carcinoma (OPSCC) is diagnosed in 93,000 patients worldwide per year and 51,000 annual deaths can be attributed to this disease. OPSCCs are either human papillomavirus associated (HPV-positive) cancers or non-virally induced, primarily tobacco and alcohol associated (HPV-negative) cancers. MS analysis enabled the identification of naturally HLA-presented peptides in OPSCC tumor tissue. By comparative profiling against benign HLA ligandomic datasets, we demonstrated that tumor-associated peptides are HLA-presented on the cell surfaces of OPSCCs. The established warehouse of OPSCC-associated peptides can be used for downstream immunogenicity testing and peptide-based immunotherapy in (semi-) personalized strategies.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_07:37:35.697.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Lena Mühlenbruch
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap XL

Revision	Datetime	Status	ChangeLog Entry
0	2022-04-23 15:23:26	ID requested
1	2023-02-27 09:47:03	announced
⏵ 2	2023-11-14 07:37:36	announced	2023-11-14: Updated project metadata.

M, ü, hlenbruch L, Abou-Kors T, Dubbelaar ML, Bichmann L, Kohlbacher O, Bens M, Thomas J, Ezi, ć J, Kraus JM, Kestler HA, von Witzleben A, Mytilineos J, F, ü, rst D, Engelhardt D, Doescher J, Greve J, Schuler PJ, Theodoraki MN, Brunner C, Hoffmann TK, Rammensee HG, Walz JS, Laban S, The HLA ligandome of oropharyngeal squamous cell carcinomas reveals shared tumour-exclusive peptides for semi-personalised vaccination. Br J Cancer, 128(9):1777-1787(2023) [pubmed]

submitter keyword: HPV, HLA, Tumor-associated antigen,Oropharyngeal squamous cell carcinoma, Mass spectrometry, OPSCC, Immunopeptidome, Immunopeptidomics

Simon Laban
contact affiliation	Department of Otorhinolaryngology and Head & Neck Surgery, University Medical Center Ulm, Head and Neck Cancer Center of the Comprehensive Cancer Center Ulm, Ulm, Germany
contact email	simon.laban@uniklinik-ulm.de
lab head
Lena Mühlenbruch
contact affiliation	1 Department of Immunology, Interfaculty Institute for Cell Biology, Tübingen, Germany 2 German Cancer Consortium (DKTK), DKFZ Partner Site Tübingen, Tübingen, Germany
contact email	lena.muehlenbruch1@gmail.com
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/2023/02/PXD033383

PRIDE project URI

• PRIDE
  1. PXD033383
     1. Label: PRIDE project
     2. Name: The HLA-ligandome of oropharyngeal squamous cell carcinomas reveals shared tumor-exclusive peptides for semi-personalized vaccination