PXD042316

PXD042316 is an original dataset announced via ProteomeXchange.

Title	Presentation of DNAJB1-PRKACA fusion neoantigens by different HLA class I alleles
Description	Fibrolamellar carcinoma (FLC) is a liver tumor with a high mortality burden and few treatment options. A promising therapeutic vulnerability in this disease is its highly conserved driver mutation: a gene fusion between DNAJB1 and PRKACA, which is expressed in virtually all FLC tumors and could be an ideal neoantigen target for immunotherapy. In this study, we aimed to define endogenous CD8 T cell responses to this fusion in FLC patients and evaluate fusion-specific T cell receptors (TCRs) as candidates for novel cellular immunotherapies. Although fusion-specific T cells in FLC appear to be rare, we nevertheless defined an endogenous functional T cell response in an FLC patient.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:42:37.143.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD042316
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Kirti Pandey
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; deamidated residue
Instrument	timsTOF Pro 2

Revision	Datetime	Status	ChangeLog Entry
0	2023-05-18 02:36:58	ID requested
1	2024-05-24 02:18:10	announced
⏵ 2	2024-10-22 06:42:45	announced	2024-10-22: Updated project metadata.

10.6019/PXD042316;

Kirk AM, Crawford JC, Chou CH, Guy C, Pandey K, Kozlik T, Shah RK, Chung S, Nguyen P, Zhang X, Wang J, Bell M, Mettelman RC, Allen EK, Pogorelyy MV, Kim H, Minervina AA, Awad W, Bajracharya R, White T, Long D, Gordon B, Morrison M, Glazer ES, Murphy AJ, Jiang Y, Fitzpatrick EA, Yarchoan M, Sethupathy P, Croft NP, Purcell AW, Federico SM, Stewart E, Gottschalk S, Zamora AE, DeRenzo C, Strome SE, Thomas PG, cell responses that potentiate cell therapy for fibrolamellar carcinoma. Cell Rep Med, 5(3):101469(2024) [pubmed]

10.1016/j.xcrm.2024.101469;

submitter keyword: fusion neoantigens, HLA class I, CD8 T cell,DNAJB1-PRKACA, Fibrolamellar carcinoma

Anthony Wayne Purcell
contact affiliation	Department of Biochemistry, Monash University, Clayton,3168, Australia
contact email	anthony.purcell@monash.edu
lab head
Kirti Pandey
contact affiliation	Monash University
contact email	kirti.pandey1@monash.edu
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/2024/05/PXD042316

PRIDE project URI

• PRIDE
  1. PXD042316
     1. Label: PRIDE project
     2. Name: Presentation of DNAJB1-PRKACA fusion neoantigens by different HLA class I alleles