PXD001898

PXD001898 is an original dataset announced via ProteomeXchange.

Title	Global proteogenomic analysis of human MHC I peptides derived from non­canonical reading frames
Description	Using high­throughput mass spectrometry, we probed the six­reading­frame translation of human B cells’ transcriptome. We report that about 10% of MHC I­associated peptides (MAPs) derive from non­canonical reading frames. These so­called cryptic MAPs originate from allegedly non- coding genomic sequences and from out­of­frame translation. Their biogenesis and properties differ in many ways from those of conventional MAPs. Thus, cryptic MAPs come from very short proteins with atypical C­termini, and they are coded by transcripts bearing long UTRs selectively enriched in destabilizing elements. Cryptic MAPs increase the complexity of the immunopeptidome and represent an heretofore unexploited source of potential tumor­specific epitopes. In a more general context, the features of cryptic MAPs suggest that mRNA instability is instrumental in the biogenesis of MAPs. Associated RNA-seq accession: GSE67174 .
HostingRepository	PRIDE
AnnounceDate	2017-10-24
AnnouncementXML	Submission_2017-10-24_00:49:02.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD001898
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Olivier Caron-Lizotte
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	cysteinylation (disulfide with free L-cysteine); phosphorylated residue; monohydroxylated residue; deamidated residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2015-03-10 09:30:12	ID requested
1	2016-01-28 02:39:55	announced
2	2016-01-29 00:30:34	announced	Updated project metadata.
3	2017-06-06 00:30:27	announced	Updated project metadata.
⏵ 4	2017-10-24 00:49:04	announced	Updated project metadata.

Laumont CM, Daouda T, Laverdure JP, Bonneil É, Caron-Lizotte O, Hardy MP, Granados DP, Durette C, Lemieux S, Thibault P, Perreault C, Global proteogenomic analysis of human MHC class I-associated peptides derived from non-canonical reading frames. Nat Commun, 7():10238(2016) [pubmed]

ProteomeXchange project tag: Human Immuno-Peptidome Project (HUPO-HIPP), Biology/Disease-Driven Human Proteome Project (B/D-HPP), Human Proteome Project

curator keyword: Biological

submitter keyword: proteogenomic cryptic MHC lc-msms MAPS

Olivier Caron-Lizotte
contact affiliation	IRIC - University of Montreal
contact email	olivier.caron-lizotte@umontreal.ca
lab head
Olivier Caron-Lizotte
contact affiliation	University of Montreal - IRIC
contact email	olivier.caron-lizotte@umontreal.ca
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD001898
     1. Label: PRIDE project
     2. Name: Global proteogenomic analysis of human MHC I peptides derived from non­canonical reading frames