<<< Full experiment listing

PXD004894-3

PXD004894 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleDirect identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry
DescriptionAlthough mutations may represent attractive targets for immunotherapy, direct identification of mutated peptide ligands isolated from human leukocyte antigens (HLA) on the surface of native tumor tissue has so far not been successful. Using advanced mass spectrometry (MS) analysis, we survey the melanoma-associated immunopeptidome to a depth of 95,500 patient-presented peptides. We thereby discover a large spectrum of attractive target antigen candidates including cancer testis antigens and phosphopeptides. Most importantly, we identify peptide ligands presented on native tumor tissue samples harboring somatic mutations. Four of eleven mutated ligands prove to be immunogenic by neoantigen-specific T-cell responses. Moreover, tumor-reactive T cells with specificity for selected neoantigens identified by MS are detected in the patient`s tumor and peripheral blood. We conclude that direct identification of mutated peptide ligands from primary tumor material by MS is possible and yields true neoepitopes with high relevance for immunotherapeutic strategies in cancer.
HostingRepositoryPRIDE
AnnounceDate2017-06-06
AnnouncementXMLSubmission_2017-06-06_00:30:36.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterMichal Bassani-Sternberg
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListphosphorylated residue
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02016-08-25 00:03:08ID requested
12016-11-30 08:33:14announced
22017-04-20 06:21:52announcedUpdated project metadata.
32017-06-06 00:30:37announcedUpdated project metadata.
42017-10-24 04:03:28announcedUpdated project metadata.
Publication List
Bassani-Sternberg M, Bräunlein E, Klar R, Engleitner T, Sinitcyn P, Audehm S, Straub M, Weber J, Slotta-Huspenina J, Specht K, Martignoni ME, Werner A, Hein R, H Busch D, Peschel C, Rad R, Cox J, Mann M, Krackhardt AM, Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry. Nat Commun, 7():13404(2016) [pubmed]
Keyword List
ProteomeXchange project tag: Human Immuno-Peptidome Project (HUPO-HIPP), Biology/Disease-Driven Human Proteome Project (B/D-HPP), Human Proteome Project
curator keyword: Biomedical
submitter keyword: Immunopeptidomics, LC-MS/MS, cancer antigens, neoantigens
Contact List
Michal Bassani-Sternberg
contact affiliationHead / Immunopeptidomics unit Department of Oncology UNIL/CHUV Ludwig Cancer Research Center Biopole III, Chemin des Boversses 155 Epalinges, 1066 Switzerland
contact emailmichal.bassani@chuv.ch
lab head
Michal Bassani-Sternberg
contact affiliationUNIL/CHUV
contact emailmichal.bassani@chuv.ch
dataset submitter
Full Dataset Link List
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/2017/04/PXD004894
PRIDE project URI
Repository Record List
[ + ]