PXD021013

PXD021013 is an original dataset announced via ProteomeXchange.

Title	ProteomeTools – Part III - HLA Class I & II & non-tryptic peptides
Description	The ProteomeTools project aims to derive molecular and digital tools from the human proteome to facilitate biomedical and life science research. Here, we describe the third iteration of the generation and multimodal LC-MS/MS analysis of >305,000 synthetic non-tryptic peptides representing HLA Class I & II ligands as well as peptides derived from the N-terminal proteases LysN and ApsN. This resource will be extended to 1.4 million peptides and all data will be made available to the public in ProteomicsDB.
HostingRepository	PRIDE
AnnounceDate	2025-02-08
AnnouncementXML	Submission_2025-02-08_12:24:34.490.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Daniel Zolg
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	2020-08-19 23:32:41	ID requested
1	2021-04-26 11:28:06	announced
2	2022-02-14 02:05:37	announced	2022-02-14: Updated project metadata.
⏵ 3	2025-02-08 12:24:35	announced	2025-02-08: Updated project metadata.

10.1038/nmeth.4153;

Zolg DP, Wilhelm M, Schnatbaum K, Zerweck J, Knaute T, Delanghe B, Bailey DJ, Gessulat S, Ehrlich HC, Weininger M, Yu P, Schlegl J, Kramer K, Schmidt T, Kusebauch U, Deutsch EW, Aebersold R, Moritz RL, Wenschuh H, Moehring T, Aiche S, Huhmer A, Reimer U, Kuster B, Building ProteomeTools based on a complete synthetic human proteome. Nat Methods, 14(3):259-262(2017) [pubmed]

ProteomeXchange project tag: deep learning, benchmarking, EPIC-XS, proteometools, machine learning, immunopeptidomics

submitter keyword: HLA, AspN, HLA Class II,ProteomeTools, reference standards, HLA Class I, synthetic peptides, LysN

Bernhard Kuster
contact affiliation	Chair of Proteomics and Bioanalytics, Technical University of Munich, Germany
contact email	kuster@tum.de
lab head
Daniel Zolg
contact affiliation	Technical University of Munich
contact email	daniel.zolg@tum.de
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/PXD021013

PRIDE project URI

• PRIDE
  1. PXD021013
     1. Label: PRIDE project
     2. Name: ProteomeTools – Part III - HLA Class I & II & non-tryptic peptides