PXD007203

PXD007203 is an original dataset announced via ProteomeXchange.

Title	MHC-I peptidome analysis of human foreskin fibroblasts
Description	Ribosome profiling (Ribo-seq) recently revealed the expression of thousands of short open reading frames (sORFs) in eukaryotic cells. They encode for a class of instable peptides, which evade experimental validation by whole-proteome mass spectrometry. Here, we show that computational elimination of experimental noise from Ribo-seq data unravels fundamental new aspects of sORF biology. Based on the revised annotation of cellular sORFs, we show that sORF-derived peptides are efficiently incorporated into MHC-I. sORFs thus encode a novel class of stress-responsive antigens in human cells. Our findings have broad implications on the functional, regulatory and immunogenic role of sORFs in fundamental cellular processes like infection and cancer.
HostingRepository	PRIDE
AnnounceDate	2018-04-05
AnnouncementXML	Submission_2018-04-05_03:43:04.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Florian Erhard
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	2017-08-07 01:24:37	ID requested
⏵ 1	2018-04-05 03:43:05	announced

Erhard F, Halenius A, Zimmermann C, L'Hernault A, Kowalewski DJ, Weekes MP, Stevanovic S, Zimmer R, D, ö, lken L, Improved Ribo-seq enables identification of cryptic translation events. Nat Methods, 15(5):363-366(2018) [pubmed]

curator keyword: Biological

submitter keyword: Human, HFF, MHC-I, peptidome

Stefan Stevanović
contact affiliation	University of Tübingen Interfaculty Institute for Cell Biology Department of Immunology Auf der Morgenstelle 15 D-72076 Tübingen, Germany
contact email	stefan.stevanovic@uni-tuebingen.de
lab head
Florian Erhard
contact affiliation	Institut für Virologie und Immunbiologie, Julius-Maximilians-Universität Würzburg
contact email	Florian.Erhard@uni-wuerzburg.de
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/2018/04/PXD007203

PRIDE project URI

• PRIDE
  1. PXD007203
     1. Label: PRIDE project
     2. Name: MHC-I peptidome analysis of human foreskin fibroblasts