PXD005231

PXD005231 is an original dataset announced via ProteomeXchange.

Title	Fully unsupervised identification of HLA-I motifs
Description	The precise identification of Human Leukocyte Antigen class I (HLA-I) binding motifs plays a central role in our ability to understand and predict (neo-)antigen presentation in infectious diseases and cancer. Here, by exploiting co-occurrence of HLA-I alleles across publicly available as well as ten newly generated high quality HLA peptidomics datasets, we show that we can rapidly and accurately identify HLA-I binding motifs and map them to their corresponding alleles without any a priori knowledge of HLA-I binding specificity. This fully unsupervised approach uncovers new motifs for several alleles without known ligands and significantly improves neo-epitope predictions in three melanoma patients.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:33:20.075.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Michal Bassani-Sternberg
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion; Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2016-10-27 00:30:26	ID requested
1	2017-01-28 11:44:39	announced
2	2019-12-16 06:40:27	announced	2019-12-16: Updated project metadata.
⏵ 3	2024-10-22 04:33:20	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

ProteomeXchange project tag: benchmarking, machine learning

curator keyword: Biological, Biomedical

submitter keyword: HLA peptidome,immunopeptidomics, LC-MS/MS

Michal Bassani-Sternberg
contact affiliation	Head / Immunopeptidomics unit Department of Oncology UNIL/CHUV Ludwig Cancer Research Center Biopole III, Chemin des Boversses 155 Epalinges, 1066 Switzerland
contact email	michal.bassani@chuv.ch
lab head
Michal Bassani-Sternberg
contact affiliation	UNIL/CHUV
contact email	michal.bassani@chuv.ch
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/2017/08/PXD005231

PRIDE project URI

• PRIDE
  1. PXD005231
     1. Label: PRIDE project
     2. Name: Fully unsupervised identification of HLA-I motifs