PXD034818

PXD034818 is an original dataset announced via ProteomeXchange.

Title	LC-MSMS of primary breast cancer samples
Description	CD8 T cells drive the anti-cancer immune response through the recognition of MHC I-associated peptides. In order to identify relevant targets for cancer immunotherapy in breast cancer, we characterized the immunopeptidome of 26 primary breast cancer samples from two different subtypes, hormone-receptor positive (n=14) and triple negative (n=12). We were able to identify tumor-specific and tumor associated antigens in both subtypes of breast cancer, which can be used for the development of anti-cancer vaccines or as targets for engineered T-cells.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:14:29.928.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD034818
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Courcelles Mathieu
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; monohydroxylated residue; deamidated residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2022-06-22 02:02:35	ID requested
1	2023-11-15 11:06:04	announced
⏵ 2	2024-10-22 06:14:30	announced	2024-10-22: Updated project metadata.

10.1172/jci166740;

10.6019/PXD034818;

Kina E, Laverdure JP, Durette C, Lanoix J, Courcelles M, Zhao Q, Apavaloaei A, Larouche JD, Hardy MP, Vincent K, Gendron P, Hesnard L, Th, é, riault C, Ruiz Cuevas MV, Ehx G, Thibault P, Perreault C, Breast cancer immunopeptidomes contain numerous shared tumor antigens. J Clin Invest, 134(1):(2024) [pubmed]

submitter keyword: LC-MSMS,Breast cancer, immunopeptidome, MHC class I

Pierre Thibault
contact affiliation	All liquid chromatography MS/MS (LC-MS/MS) data were searched against the relevant database using PEAKS 10.5 or Peaks X Pro (Bioinformatics Solution Inc.). For peptide identification, tolerance was set at 10 ppm and 0.01 Da for precursor and fragment ions, respectively. The occurrences of oxidation (M), deamidation and TMT modification were set as variable modifications
contact email	pierre.thibault@umontreal.ca
lab head
Courcelles Mathieu
contact affiliation	IRIC
contact email	mathieu.courcelles@umontreal.ca
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/2023/11/PXD034818

PRIDE project URI

• PRIDE
  1. PXD034818
     1. Label: PRIDE project
     2. Name: LC-MSMS of primary breast cancer samples