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PXD024101-1

PXD024101 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleCommunity Evaluation of Glycoproteomics Informatics Solutions Reveals High-Performance Search Strategies for Glycopeptide Analysis
DescriptionMass spectrometry-based glycoproteomics studies now routinely report thousands of intact glycopeptides. Diverse informatics solutions aiding the challenging glycopeptide identification process have recently appeared, but their strengths and weaknesses have not been established leaving a critical knowledge gap that prevents rapid progress in the field. This interlaboratory study comprising both expert users (13 teams) and developers (9 teams) of glycoproteomics software is the first to evaluate the relative performance of current informatics solutions for accurate and comprehensive N- and O-glycopeptide identification. Two LC-MS/MS datasets of intact glycopeptides from serum proteins were shared with all teams. The relative team performance for large-scale glycopeptide analysis was systematically established through 11 orthogonal performance tests based on the assigned spectra reported by each team. This study has found that a diversity of approaches exists for comprehensive glycopeptide data analysis, has demonstrated the team-to-team (vari)ability of identifying intact glycopeptides from shared datasets, and, importantly, has revealed several high-performance informatics solutions and search strategies that will be useful to improve the challenging glycoproteomics data analysis in the immediate future.
HostingRepositoryPRIDE
AnnounceDate2021-11-03
AnnouncementXMLSubmission_2021-11-03_06:14:21.730.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterRebeca Sakuma
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListiodoacetic acid derivatized residue; complex glycosylation
InstrumentOrbitrap Fusion Lumos
Dataset History
RevisionDatetimeStatusChangeLog Entry
02021-02-10 00:06:41ID requested
12021-11-03 06:14:22announced
Publication List
Dataset with its publication pending
Keyword List
ProteomeXchange project tag: Biology/Disease-Driven Human Proteome Project (B/D-HPP), Human Proteome Project, Glycoproteomics (B/D-HPP)
submitter keyword: Glycoproteomics, glycopeptide, informatics, software, mass spectrometry, search engine
Contact List
Morten Thaysen-Andersen
contact affiliationDepartment of Molecular Sciences, Macquarie University, Sydney, NSW, Australia; Biomolecular Discovery Research Centre, Macquarie University, Sydney, NSW, Australia
contact emailmorten.andersen@mq.edu.au
lab head
Rebeca Sakuma
contact affiliationUniversity of Sao Paulo
contact emailrebecasakuma@gmail.com
dataset submitter
Full Dataset Link List
Dataset FTP location
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