PXD037658

PXD037658 is an original dataset announced via ProteomeXchange.

Title	Identifying interaction partners of noncanonical peptides.
Description	Studies have revealed dozens of functional peptides in putative ‘noncoding’ regions and raised the question of how many proteins are encoded by noncanonical open reading frames (ORFs). We comprehensively annotated genome-wide translated ORFs across five eukaryotic by analyzing ribosome profiling reads. We revealed pervasive translation in annotated untranslated regions of mRNAs or off-frame regions (i.e., uORFs, dORFs, and iORFs). We developed a logistic regression model based on ORF features to calculate the peptide functional probability in humans. Systematic ectopic expression experiments showed that peptides encoded by ncORFs follow the basic principles governing conventional protein subcellular localization and carry out diverse biological functions.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:42:00.637.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Zhe Ji
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2022-10-24 01:03:46	ID requested
1	2024-05-23 00:56:27	announced
⏵ 2	2024-10-22 06:42:08	announced	2024-10-22: Updated project metadata.

Yang H, Li Q, Stroup EK, Wang S, Ji Z, Widespread stable noncanonical peptides identified by integrated analyses of ribosome profiling and ORF features. Nat Commun, 15(1):1932(2024) [pubmed]

10.1038/s41467-024-46240-9;

submitter keyword: Human, interaction protein, mass spectrometry, noncanonical open reading frames (ncORFs), peptide

Zhe Ji
contact affiliation	1Department of Pharmacology,Feinberg School of Medicine,Northwestern University, Chicago 2Department of Biomedical Engineering, McCormick School of Engineering, Northwestern University,Northwestern University, Evanston
contact email	zhe.ji@northwestern.edu
lab head
Zhe Ji
contact affiliation	Northwestern University
contact email	zhe.ji@northwestern.edu
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/2024/05/PXD037658

PRIDE project URI

• PRIDE
  1. PXD037658
     1. Label: PRIDE project
     2. Name: Identifying interaction partners of noncanonical peptides.