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PXD021196

PXD021196 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleRe-analysis of glycoproteomics data with MSFragger-Glyco
DescriptionReanalysis of submissions PXD011533 and PXD009476 using MSFragger-Glyco mode. Processed MSFragger results files (pepXML) and PSM tables (psm.tsv) supporting MSFragger-Glyco manuscript (Fast and Comprehensive N- and O-glycoproteomics analysis with MSFragger-Glyco. Recent advances in methods for enrichment and mass spectrometric analysis of intact glycopeptides have produced large-scale glycoproteomics datasets, but interpreting this data remains challenging. We present MSFragger-Glyco, aa new glycoproteomics mode of the MSFragger search engine, called MSFragger-Glyco, for fast and sensitive identification of N- and O-linked glycopeptides and open glycan searches. Reanalysis of recent N-glycoproteomics data resulted in annotation of 80% more glycopeptide-spectrum matches (glycoPSMs) than previously reported. In published O-glycoproteomics data, our method more than doubled the number of glycoPSMs annotated when searching the same glycans as the original search and yielded 4-6-fold increases when expanding searches to include additional glycan compositions and other modifications. Expanded searches also revealed many sulfated and complex glycans that remained hidden to the original search.
HostingRepositoryPRIDE
AnnounceDate2020-10-06
AnnouncementXMLSubmission_2020-10-05_23:02:27.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterDaniel Polasky
SpeciesList scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListglycosylated residue
InstrumentQ Exactive HF; Orbitrap Fusion Lumos
Dataset History
RevisionDatetimeStatusChangeLog Entry
02020-08-30 23:38:46ID requested
12020-10-05 23:02:27announced
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: glycoproteomics, glycan, glycopeptide, MSFragger, reanalysis, glycosylation, N-glycosylation, O-glycosylation
Contact List
Alexey Nesvizhskii
contact affiliationDepartment of Pathology, University of Michigan Medical School
contact emailnesvi@med.umich.edu
lab head
Daniel Polasky
contact affiliationUniversity of Michigan
contact emaildpolasky@umich.edu
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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