PXD055054

PXD055054 is an original dataset announced via ProteomeXchange.

Title	Autonomous Dissociation-type Selection for Glycoproteomics using a Real-Time Library Search
Description	Tandem mass spectrometry (MS/MS) is the gold standard for intact glycopeptide identification, enabling peptide sequence elucidation and site-specific localization of glycan compositions. Beam-type collisional activation is generally sufficient for N-glycopeptides, while electron-driven dissociation is crucial for site localization in O-glycopeptides. Modern glycoproteomic methods often employ multiple dissociation techniques within a single LC-MS/MS analysis, but this approach frequently sacrifices sensitivity when analyzing multiple glycopeptide classes simultaneously. Here we explore the utility of intelligent data acquisition for glycoproteomics through real-time library searching (RTLS) to match oxonium ion patterns for on-the-fly selection of the appropriate dissociation method. By matching dissociation method with glycopeptide class, this autonomous dissociation-type selection (ADS) generates equivalent numbers of N-glycopeptide identifications relative to traditional beam-type collisional activation methods while also yielding comparable numbers of site-localized O-glycopeptide identifications relative to conventional electron transfer dissociation-based methods. The ADS approach represents a step forward in glycoproteomics throughput by enabling site-specific characterization of both N-and O-glycopeptides within the same LC-MS/MS acquisition.
HostingRepository	PRIDE
AnnounceDate	2024-11-15
AnnouncementXML	Submission_2024-11-15_15:07:35.249.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Emmajay Sutherland
SpeciesList	scientific name: Bos taurus (Bovine); NCBI TaxID: 9913; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Eclipse

Revision	Datetime	Status	ChangeLog Entry
0	2024-08-22 06:08:22	ID requested
⏵ 1	2024-11-15 15:07:35	announced

10.1021/ACS.JPROTEOME.4C00723;

submitter keyword: N-glycopeptides,Glycoproteomics, intelligent data acquisition, tandem mass spectrometry, beam-type collisional dissociation, O-glycopeptides, product-dependent triggering, real-time library search, electron transfer dissociation

Nicholas M. Riley
contact affiliation	Department of Chemistry, University of Washington, Seattle, WA, USA
contact email	nmriley@uw.edu
lab head
Emmajay Sutherland
contact affiliation	University of Washington
contact email	emmajay.sutherland@gmail.com
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/2024/11/PXD055054

PRIDE project URI

• PRIDE
  1. PXD055054
     1. Label: PRIDE project
     2. Name: Autonomous Dissociation-type Selection for Glycoproteomics using a Real-Time Library Search