PXD023614

PXD023614 is an original dataset announced via ProteomeXchange.

Title	The landscape of the SARS-CoV-2 HLA-peptidome
Description	The human leukocyte antigen (HLA)-bound-viral antigens, serve as an immunological signature that can be selectively recognized by T cells. As viruses evolve by acquiring mutations, it is essential to identify a range of viral presented antigens. Utilizing HLA-peptidomics we Identified SARS-CoV-2-derived peptides presented by highly prevalent HLA Class-I (HLA-I) molecules using infected cells as well as overexpression of SARS-CoV-2 genes. We found 26 HLA-I peptides and 36 HLA class-II (HLA-II) peptides, which are estimated to be presented by at least one HLA allele in 99% of the world population. Among the identified peptides were recurrently presented HLA-I peptides, peptides derived from out-of-frame-ORFs and presentation-hotspots. Seven of these peptides were previously shown to be immunogenic, and we identified two novel immuno-reactive peptides using HLA-multimer staining. These results may aid the development of the next generation of SARS-CoV-2 vaccines based on viral-specific-presented antigens that span several of the viral genes.
HostingRepository	PRIDE
AnnounceDate	2021-09-10
AnnouncementXML	Submission_2021-09-09_16:56:47.820.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Shelly Kalaora
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2021-01-15 07:09:10	ID requested
⏵ 1	2021-09-09 16:56:48	announced

Nagler A, Kalaora S, Barbolin C, Gangaev A, Ketelaars SLC, Alon M, Pai J, Benedek G, Yahalom-Ronen Y, Erez N, Greenberg P, Yagel G, Peri A, Levin Y, Satpathy AT, Bar-Haim E, Paran N, Kvistborg P, Samuels Y, Identification of presented SARS-CoV-2 HLA class I and HLA class II peptides using HLA peptidomics. Cell Rep, 35(13):109305(2021) [pubmed]

ProteomeXchange project tag: Covid-19

submitter keyword: SARS-CoV-2, HLA-peptidomics, immunopeptidomics

Prof. Yardena Samuels
contact affiliation	Weizmann Institute of science
contact email	yardena.samuels@weizmann.ac.il
lab head
Shelly Kalaora
contact affiliation	Weizmann institute of science
contact email	shelly.kalaora@weizmann.ac.il
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/2021/09/PXD023614

PRIDE project URI

• PRIDE
  1. PXD023614
     1. Label: PRIDE project
     2. Name: The landscape of the SARS-CoV-2 HLA-peptidome