PXD024415

PXD024415 is an original dataset announced via ProteomeXchange.

Title	Discovery of Non-Canonical Peptides Derived from Novel Small Open Reading Frames as MHC-I Epitopes
Description	Immunopeptides that are translated in cells and presented at the cell surface by major histocompatibility complex (MHC) mole-cules are important epitopes in basic Immunology and translational cancer immunotherapy. While most of the reported immuno-peptides are derived from protein coding sequence, the non-canonical peptides translated from “non-coding” regions are emerging and have attracted much attention in recent years. However, sensitive and accurate identification of such peptides remains a challenging task. Here we report an optimized approach integrating Ribo-seq and mass spectrometry to identify hundreds of non-canonical MHC-binding peptides. Three pipelines for analyzing Ribo-seq data were compared to generate small open reading frame (sORF) databases. Meanwhile, we have also combined bottom-up and de novo searching in proteomics data analysis and identified more immunopeptides. 7902 canonical and 308 non-canonical immunopeptides have been identified with selected ones vigorously validated. The present study provides a handy solution for identifying non-canonical MHC epitopes. The novel im-munopeptides resolving mechanisms of cancer antigen presentation, as well as applications in cancer immunotherapies.
HostingRepository	PRIDE
AnnounceDate	2021-11-03
AnnouncementXML	Submission_2021-11-03_05:23:13.419.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yuanliang Zhang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2021-02-28 22:53:23	ID requested
⏵ 1	2021-11-03 05:23:17	announced

Chen L, Zhang Y, Yang Y, Yang Y, Li H, Dong X, Wang H, Xie Z, Zhao Q, An Integrated Approach for Discovering Noncanonical MHC-I Peptides Encoded by Small Open Reading Frames. J Am Soc Mass Spectrom, 32(9):2346-2357(2021) [pubmed]

submitter keyword: sORF, MHC-I, non-canonical peptides, RiboTISH, PRICE, LC-MS

Zhao Qian
contact affiliation	Zhao lab, Department of Applied Biology and Chemical Technology(ABCT)
contact email	q.zhao@polyu.edu.hk
lab head
Yuanliang Zhang
contact affiliation	The Hong Kong Polytechnic University
contact email	yuanliang.zhang@connect.polyu.hk
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD024415
     1. Label: PRIDE project
     2. Name: Discovery of Non-Canonical Peptides Derived from Novel Small Open Reading Frames as MHC-I Epitopes