PXD033351

PXD033351 is an original dataset announced via ProteomeXchange.

Title	Pan-cancer tumor-specific antigens and membrane targets from transposable elements
Description	Cryptic promoters within transposable elements (TEs) are transcriptionally reactivated in tumors to create novel TE-gene chimeric transcripts, which can produce immunogenic antigens. We performed the most comprehensive screen to date for these TE exaptation events in 33 TCGA tumor types, 675 cancer cell lines, and 11,686 GTEx adult tissue transcriptomes and identified 1,068 TE-exapted candidates with the potential to generate shared tumor-specific TE-chimeric antigens (TS-TEAs). Resultant whole lysate and HLA-pulldown mass spectrometry data confirmed that TS-TEAs are presented on cancer cell surfaces. In addition, we highlight the tumor-specific membrane proteins transcribed from TE promoters that can expose novel epitopes on the extracellular surface of cancer cells. Here, we showcase the high pan-cancer prevalence of TS-TEAs and atypical membrane proteins that can be therapeutically exploited through immunotherapy approaches.
HostingRepository	PRIDE
AnnounceDate	2023-01-21
AnnouncementXML	Submission_2023-01-20_21:10:02.623.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Ju HeonMaeng
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2022-04-21 06:57:16	ID requested
⏵ 1	2023-01-20 21:10:03	announced

Dataset with its publication pending

submitter keyword: Human, transposable element, antigen, Cancer, MHC pulldown, LC-MS/MS

TingWang
contact affiliation	Department of Genetics, Washington University School of Medicine, St Louis, MO, USA The Edison Family Center for Genome Sciences and Systems Biology, Washington University School of Medicine, St. Louis, MO, USA McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO, USA
contact email	twang@genetics.wustl.edu
lab head
Ju HeonMaeng
contact affiliation	Washington University in St. Louis
contact email	j.maeng@wustl.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/2023/01/PXD033351

PRIDE project URI

• PRIDE
  1. PXD033351
     1. Label: PRIDE project
     2. Name: Pan-cancer tumor-specific antigens and membrane targets from transposable elements