PXD013120

PXD013120 is an original dataset announced via ProteomeXchange.

Title	HCMV deletion models enable the identification of physiologically relevant T-cell epitopes
Description	In healthy individuals, immune control of persistent human cytomegalovirus (HCMV) infection is effectively mediated by virus-specific CD4+ and CD8+ T cells. However, identification of the repertoire of T-cell specificities for HCMV is hampered by the immense protein coding capacity of this betaherpesvirus. We applied a novel approach which employs HCMV deletion mutant viruses, lacking HLA class I immunoevasins. Infection of human fibroblast cell lines with those mutant viruses allowed the direct identification of naturally presented HCMV-derived HLA ligands by mass spectrometry. Using this strategy, we identified 368 unique HCMV-derived HLA class I ligands representing an unexpectedly broad panel of 123 HCMV antigens. Functional characterization revealed memory T-cell responses in seropositive individuals for a substantial proportion (28%) of these novel peptides. The unbiased identification of naturally presented viral epitopes enabled a comprehensive and systematic assessment of the physiological repertoire of anti-HCMV T-cell specificities in seropositive individuals. This approach proved to be superior to procedures applying in silico analysis to identify true viral antigens.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:05:28.759.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Leon Bichmann
SpeciesList	scientific name: Cytomegalovirus; NCBI TaxID: 10358; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue
Instrument	Orbitrap Fusion Lumos; LTQ Orbitrap XL

Revision	Datetime	Status	ChangeLog Entry
0	2019-03-18 04:44:36	ID requested
1	2019-11-20 01:57:47	announced
⏵ 2	2024-10-22 04:05:29	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: HLA, HLA ligandomics, T-cell epitopes,Human Cytomegalovirus, Immunoevasin deletion, Immunotherapy, MHC affinity prediction

Prof. Hans-Georg Rammensee
contact affiliation	University of Tübingen Interfaculty Institute for Cell Biology Department of Immunology Auf der Morgenstelle 15 72076 Tuebingen Germany
contact email	rammensee@uni-tuebingen.de
lab head
Leon Bichmann
contact affiliation	University of Tübingen
contact email	Leon.Bichmann@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/2019/11/PXD013120

PRIDE project URI

• PRIDE
  1. PXD013120
     1. Label: PRIDE project
     2. Name: HCMV deletion models enable the identification of physiologically relevant T-cell epitopes