PXD017918

PXD017918 is an original dataset announced via ProteomeXchange.

Title	Extending the Comprehensiveness of Immunopeptidome Analyses Using Isobaric Peptide Labeling
Description	Defining the repertoire of peptides presented by the major histocompatibility complex class I (MHC I) is a key step towards the identification of relevant antigens for cancer immunotherapy. However, the identification of the cancer-specific antigens is a significant analytical challenge in view of their low abundance and low mutational load found in primary cancer specimens. Here, we describe the application of isobaric peptide labeling with tandem mass tag (TMT) to improve the detection of the MHC I peptides. Isobaric peptide labeling was found to promote the formation of multiply-charged ions and to enhance the formation of b-type fragment ions, thus resulting in a 50% improvement of MHC I peptide identification. The gain in sensitivity obtained using TMT labeling enabled the detection of low abundance MHC I peptides including tumor-specific antigens (TSAs) and minor histocompatibility antigens (MiHAs). We further demonstrate the application of this approach to quantify MiHAs presented by B-cell lymphocytes and determined their expression levels by LC-MS/MS using both synchronous precursor selection (SPS) and high field asymmetric waveform ion mobility spectrometry (FAIMS).
HostingRepository	PRIDE
AnnounceDate	2020-11-16
AnnouncementXML	Submission_2020-11-16_14:43:16.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD017918
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Eric Bonneil
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT; Deamidated; TMT6plex; Oxidation; monohydroxylated residue; deamidated residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2020-03-06 01:18:44	ID requested
⏵ 1	2020-11-16 14:43:17	announced

Pfammatter S, Bonneil E, Lanoix J, Vincent K, Hardy MP, Courcelles M, Perreault C, Thibault P, Extending the Comprehensiveness of Immunopeptidome Analyses Using Isobaric Peptide Labeling. Anal Chem, 92(13):9194-9204(2020) [pubmed]

submitter keyword: FAIMS, MHC, TMT, tumor specific antigens, minor antigens

Pierre Thibault
contact affiliation	IRIC-Université de Montréal
contact email	pierre.thibault@umontreal.ca
lab head
Eric Bonneil
contact affiliation	Proteomic Platform
contact email	eric.bonneil@umontreal.ca
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD017918
     1. Label: PRIDE project
     2. Name: Extending the Comprehensiveness of Immunopeptidome Analyses Using Isobaric Peptide Labeling