PXD019643-3

PXD019643 is an original dataset announced via ProteomeXchange.

Title	The HLA-Ligand-Atlas. A resource of natural HLA ligands presented on benign tissues
Description	The human leukocyte antigen (HLA) complex regulates the adaptive immune response by showcasing the intracellular and extracellular protein content to the immune system. T cells recognize these HLA-presented peptides as self or foreign and can elicit an immune response. In this work, we describe the HLA-Ligand-Atlas, a comprehensive map of HLA-I and HLA-II-presented peptides from 30 benign tissues, 51 HLA-I alleles, and 86 HLA-II alleles. Nearly 50% of HLA ligands have not been previously described. Due to the scarcity of benign human samples, the tissue was extracted from different organs at autopsy from human subjects without any diagnosed malignancy. Furthermore, we were able to identify non-canonical HLA-I peptides on benign tissues, showing that their processing is not unique to cancer. This dataset holds great promise in answering both basic and translational questions in fields such as autoimmunity, organ/tissue transplantation, and cancer immunotherapy.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:21:20.603.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD019643
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Ana Marcu
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2020-06-08 04:44:10	ID requested
1	2021-04-16 06:37:36	announced
2	2021-04-18 22:00:46	announced	2021-04-19: Updated publication reference for PubMed record(s): 33858848.
⏵ 3	2024-10-22 05:21:21	announced	2024-10-22: Updated project metadata.

10.1136/jitc-2020-002071;

Marcu A, Bichmann L, Kuchenbecker L, Kowalewski DJ, Freudenmann LK, Backert L, M, ü, hlenbruch L, Szolek A, L, ü, bke M, Wagner P, Engler T, Matovina S, Wang J, Hauri-Hohl M, Martin R, Kapolou K, Walz JS, Velz J, Moch H, Regli L, Silginer M, Weller M, L, ö, ffler MW, Erhard F, Schlosser A, Kohlbacher O, Stevanovi, ć S, Rammensee HG, Neidert MC, HLA Ligand Atlas: a benign reference of HLA-presented peptides to improve T-cell-based cancer immunotherapy. J Immunother Cancer, 9(4):(2021) [pubmed]

ProteomeXchange project tag: Breast Cancer

submitter keyword: Human, HLA, Benign Tissues, Immunopeptidomics

Hans-Georg Rammensee
contact affiliation	Department of Immunology, Interfaculty Institute for Cell Biology, Eberhard Karls University Tübingen
contact email	hgrhgr2017@gmx.de
lab head
Ana Marcu
contact affiliation	University of Tübingen, Interfaculty Institute for Cell Biology, Department of Immunology
contact email	anamarcu.pe@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/2021/04/PXD019643

PRIDE project URI

• PRIDE
  1. PXD019643
     1. Label: PRIDE project
     2. Name: The HLA-Ligand-Atlas. A resource of natural HLA ligands presented on benign tissues