PXD023064-2

PXD023064 is an original dataset announced via ProteomeXchange.

Title	Systematic HLA Epitope Ranking Pan Algorithm (SHERPA)
Description	To generate high quality training data for our MHC binding and presentation prediction models, we stably transfected alleles into HLA-null, K562 to create mono-allelic cell lines. Then, we performed immunoprecipitation using W6/32 antibody and gently eluted the peptides. Finally, they were analyzed using LC-MSMS. To validate the performance of our prediction algorithms, we also processed 12 lung and colorectal tumor tissues with the same protocol.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:22:55.427.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sean Boyle
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2020-12-11 04:35:00	ID requested
1	2021-06-14 16:56:02	announced
⏵ 2	2024-10-22 05:22:55	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: binding prediction, MHC, peptide, immunopeptidomics, tumor,LC-MSMS, mono-allelic

Sean Michael Boyle
contact affiliation	Personalis, Inc.
contact email	sean.boyle@personalis.com
lab head
Sean Boyle
contact affiliation	Personalis Inc.
contact email	psnl_dash@personalis.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/2021/06/PXD023064

PRIDE project URI

• PRIDE
  1. PXD023064
     1. Label: PRIDE project
     2. Name: Systematic HLA Epitope Ranking Pan Algorithm (SHERPA)