PXD047641 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | NeoDisc: A neoantigen discovery pipeline for the development of personalized cancer immunotherapy |
Description | The accurate identification and prioritization of antigenic peptides presented by class-I and -II human leukocyte antigens (HLA-I and -II) recognized by autologous T cells is crucial for the development of cancer immunotherapies. While several clinical neoantigen prediction pipelines are now publicly available, none of them allows the direct integration of mass spectrometry immunopeptidomics data that can uncover antigenic peptides derived from various canonical and non-canonical sources. Therefore, we have developed and shared a unique ‘end-to-end’ clinical proteo-genomic pipeline, called NeoDisc. NeoDisc is a fast and modular computational pipeline that combines state-of-the-art publicly available and in-house software for genomics, transcriptomics, mass-spectrometry-based immunopeptidomics, and in silico tools for the identification, prediction, and prioritization of tumor-specific and immunogenic antigens from multiple sources. We demonstrated the application of NeoDisc for personalized antigen discovery, in the context of heterogenic antigenic landscape and defective cellular antigen presentation machineries, and we highlighted its clinical implementation. |
HostingRepository | PRIDE |
AnnounceDate | 2024-08-30 |
AnnouncementXML | Submission_2024-08-30_13:41:03.466.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Michal Bassani-Sternberg |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | monohydroxylated residue |
Instrument | Q Exactive HF |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2023-12-08 02:13:34 | ID requested | |
⏵ 1 | 2024-08-30 13:41:03 | announced | |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: Neoantigens, proteogenomics, prediction, immunopeptidomics, antigen discovery |
Contact List
Michal Bassani-Sternberg |
contact affiliation | Department of oncology UNIL CHUV Ludwig Institute for Cancer Research Lausanne Office B25A/04/94 Rue du Bugnon 25a, CH-1005 Lausanne |
contact email | Michal.bassani@chuv.ch |
lab head | |
Michal Bassani-Sternberg |
contact affiliation | UNIL/CHUV |
contact email | michal.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/2024/08/PXD047641 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD047641
- Label: PRIDE project
- Name: NeoDisc: A neoantigen discovery pipeline for the development of personalized cancer immunotherapy