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PXD023980 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleGproDIA enables intact glycopeptide characterization using data‚Äźindependent acquisition glycoproteomics with comprehensive statistical control
DescriptionLarge-scale profiling of intact glycopeptides is critical but challenging in glycoproteomics. Data independent acquisition (DIA) is an emerging technology with deep proteome coverage and accurate quantitative capability in proteomic studies, but is still in the early stage of development in the field of glycoproteomics. We propose GlycoSWATH, a pipeline for the proteome-wide characterization of intact glycopeptides from DIA data with comprehensive statistical control by a 2-dimentional false discovery rate approach and a glycoform inference algorithm, enabling accurate identification of intact glycopeptide using wide isolation windows. We further adapt a semi-empirical spectrum prediction strategy to expand the coverage of spectral libraries of glycopeptides. We benchmark our method for N-glycopeptide profiling on DIA data of yeast and human serum samples, demonstrating that DIA with GlycoSWATH outperforms the state-of-the-art DDA method for glycoproteomics in terms of capacity and data completeness of identification, as well as accuracy and precision of quantification. We expect that this work can provide a powerful tool for glycoproteomic studies.
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterYi Yang
SpeciesList scientific name: Schizosaccharomyces pombe; NCBI TaxID: 4896; scientific name: Saccharomyces cerevisiae; NCBI TaxID: 4932; scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationListN-glycosylated residue; acetylated residue; oxidation
InstrumentOrbitrap Fusion
Dataset History
RevisionDatetimeStatusChangeLog Entry
02021-02-03 20:47:45ID requested
12021-09-08 20:59:47announced
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: glycoproteomics,intact glycopeptide,data-independent acquisition
Contact List
Liang Qiao
contact affiliationFudan University
contact emailliang_qiao@fudan.edu.cn
lab head
Yi Yang
contact affiliationFudan University
contact email13307110210@fudan.edu.cn
dataset submitter
Full Dataset Link List
iProX dataset URI