PXD045630

PXD045630 is an original dataset announced via ProteomeXchange.

Title	Human serum glycoproteome - Glyco-Decipher
Description	Identification results of peptide-spectrum matches supporting Glyco-Decipher manuscript (Glyco-Decipher: Glycan database-independent peptide matching enables discovery of new glycans and in-depth characterization of site-specific N-glycosylation). Recently, several elegant bioinformatics tools have been developed to identify glycopeptides from tandem mass spectra for site-specific glycoproteomics studies. These glycan database-dependent tools have substantially improved glycoproteomics analysis but fail to identify glycopeptides with unexpected glycans. We present a platform called Glyco-Decipher to interpret the glycoproteomics data of N-linked glycopeptides. It adopts a glycan database-independent peptide matching scheme that allows the unbiased profiling of glycans and the discovery of new glycans linked with modifications. Reanalysis of several large-scale datasets showed that Glyco-Decipher outperformed the open search method in glycan blind searching and the popular glycan database-dependent software tools in glycopeptide identification. Our glycan database-independent search also revealed that modified glycans are responsible for a large fraction of unassigned glycopeptide spectra in shotgun glycoproteomics.
HostingRepository	iProX
AnnounceDate	2023-09-25
AnnouncementXML	Submission_2023-09-24_23:31:51.809.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Zheng Fang
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2023-09-24 23:30:38	ID requested
⏵ 1	2023-09-24 23:31:52	announced

Fang Z, Qin H, Mao J, Wang Z, Zhang N, Wang Y, Liu L, Nie Y, Dong M, Ye M, Glyco-Decipher enables glycan database-independent peptide matching and in-depth characterization of site-specific N-glycosylation. Nat Commun, 13(1):1900(2022) [pubmed]

submitter keyword: Glyco-Proteomics

Mingliang Ye
contact affiliation	Dalian Institute of Chemical Physics, Chinese Academy of Sciences
contact email	mingliang@dicp.ac.cn
lab head
Zheng Fang
contact affiliation	Dalian Institute of Chemical Physics, Chinese Academy of Sciences
contact email	zhengfang@dicp.ac.cn
dataset submitter

iProX dataset URI