PXD013057

PXD013057 is an original dataset announced via ProteomeXchange.

Title	Multi-omics discovery of exome-derived neoantigens in hepatocellular carcinoma
Description	HLA class I ligandome dataset obtained from hepatocellular carcinoma (HCC) as well as corresponding adjacent benign liver tissue (n=16) characterizing respective HLA immunoprecipitates. Additionally, from a subset of the mentioned HCC/ adjacent benign liver samples datasets gained from shotgun protein identification, comprising HCC as well as adjacent benign liver tissue (n=7) are provided. Further, for one patient shotgun protein identification was also performed in serum (blood) samples obtained after HCC recurrence.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:11:43.159.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Leon Bichmann
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos; LTQ Orbitrap XL; LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2019-03-12 03:00:47	ID requested
1	2019-05-06 09:37:37	announced
2	2019-05-10 02:53:33	announced	Updated project metadata.
⏵ 3	2024-10-22 04:11:48	announced	2024-10-22: Updated project metadata.

10.1186/s13073-019-0636-8;

L, ö, ffler MW, Mohr C, Bichmann L, Freudenmann LK, Walzer M, Schroeder CM, Trautwein N, Hilke FJ, Zinser RS, M, ü, hlenbruch L, Kowalewski DJ, Schuster H, Sturm M, Matthes J, Riess O, Czemmel S, Nahnsen S, K, ö, nigsrainer I, Thiel K, Nadalin S, Beckert S, B, ö, sm, ü, ller H, Fend F, Velic A, Ma, č, ek B, Haen SP, Buonaguro L, Kohlbacher O, Stevanovi, ć S, K, ö, nigsrainer A, Rammensee HG, Multi-omics discovery of exome-derived neoantigens in hepatocellular carcinoma. Genome Med, 11(1):28(2019) [pubmed]

curator keyword: Biomedical

submitter keyword: HLA, HLA ligandomics, multi-omics, peptide prediction, mass spectrometry, personalized medicine, immunoinformatics, next-generation sequencing, immunotherapy,Hepatocellular carcinoma, neoantigen, liver cancer

Hans-Georg Rammensee
contact affiliation	University of Tübingen Interfaculty Institute for Cell Biology Department of Immunology Auf der Morgenstelle 15 72076 Tuebingen Germany
contact email	rammensee@uni-tuebingen.de
lab head
Leon Bichmann
contact affiliation	University of Tübingen
contact email	Leon.Bichmann@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/2019/05/PXD013057

PRIDE project URI

• PRIDE
  1. PXD013057
     1. Label: PRIDE project
     2. Name: Multi-omics discovery of exome-derived neoantigens in hepatocellular carcinoma