PXD029082-1

PXD029082 is an original dataset announced via ProteomeXchange.

Title	Proteogenomic Discovery of Neoantigens Facilitates Personalized Multi-antigen Targeted T cell Immunotherapy for Brain Tumors
Description	Neoantigen discovery in pediatric brain tumors is hampered by their low mutational burden and scant tissue availability. We developed a low-input proteogenomic approach combining tumor DNA/RNA sequencing and mass spectrometry proteomics to identify tumor-restricted (neoantigen) peptides arising from multiple genomic aberrations to generate a highly target-specific, autologous, personalized T cell immunotherapy. Our data indicate that novel splice junctions are the primary source of neoantigens in medulloblastoma, a common pediatric brain tumor. Proteogenomically identified tumor-specific peptides are immunogenic and generate MHC II-based T cell responses. Moreover, polyclonal and polyfunctional T cells specific for tumor-specific peptides effectively eliminated tumor cells in vitro. Targeting novel tumor-specific antigens obviates the issue of central immune tolerance while potentially providing a safety margin favoring combination with other immune-activating therapies. These findings demonstrate the proteogenomic discovery of immunogenic tumor-specific peptides and lay the groundwork for personalized targeted T cell therapies for children with brain tumors.
HostingRepository	PRIDE
AnnounceDate	2021-11-02
AnnouncementXML	Submission_2021-11-02_05:30:21.400.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Samuel Rivero-Hinojosa
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; acetylated residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2021-10-12 08:05:17	ID requested
⏵ 1	2021-11-02 05:30:21	announced
2	2023-04-11 06:15:55	announced	2023-04-11: Updated project metadata.

Dataset with its publication pending

submitter keyword: Pediatric Brain Tumors, Medulloblastoma, LC-MSMS

Brian R Rood
contact affiliation	Attending Physician Medical Director, Brain Tumor Institute Principal Investigator, Center for Cancer and Immunology Research, Children Research Institute Associate Professor of Pediatrics - The George Washington University School of Medicine and Health Sciences Executive co-Chair, Childrens Brain Tumor Network www.CBTN.org
contact email	brood@childrensnational.org
lab head
Samuel Rivero-Hinojosa
contact affiliation	Center for Cancer and Immunology Research, Children s Research Institute, Children s National Health System
contact email	sriverohin@childrensnational.org
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/2021/11/PXD029082

PRIDE project URI

• PRIDE
  1. PXD029082
     1. Label: PRIDE project
     2. Name: Proteogenomic Discovery of Neoantigens Facilitates Personalized Multi-antigen Targeted T cell Immunotherapy for Brain Tumors