PXD041935

PXD041935 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	N- and O-Glycoproteomic Analysis of Complex Proteoglycans
Description	Proteoglycans are a small but diverse family of proteins that play a wide variety of roles at the cell surface and extracellular matrix. In addition to their glycosaminoglycan (GAG) chains, they are also N- and O-glycosylated. All of these types of glycosylation are crucial to their function, but present a considerable analytical challenge. Using serial proteolysis and electron capture/higher energy collisional dissociation (EThcD) we seek to improve the sequence coverage of several complex proteoglycans. In many cases, the use of HCD alone allows for the identification of more glycopeptides, but EThcD allows for the confident assignment of glycan compositions on multiply glycosylated peptides. Additionally, glycoproteomics searches identify glycopeptides in otherwise poorly covered regions of proteoglycans. The development of these and other analytical tools may permit glycoproteomic similarity comparisons in biological samples.
HostingRepository	PRIDE
AnnounceDate	2025-05-06
AnnouncementXML	Submission_2025-05-06_09:35:20.868.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD041935
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Margaret Downs
SpeciesList	scientific name: Bos taurus (Bovine); NCBI TaxID: 9913; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2023-05-02 19:08:54	ID requested
⏵ 1	2025-05-06 09:35:21	announced

Publication List

10.6019/PXD041935;
10.1007/s00216-023-04934-x;
Downs M, Curran J, Zaia J, Sethi MK, Analysis of complex proteoglycans using serial proteolysis and EThcD provides deep N- and O-glycoproteomic coverage. Anal Bioanal Chem, 415(28):6995-7009(2023) [pubmed]

10.6019/PXD041935;

10.1007/s00216-023-04934-x;

Downs M, Curran J, Zaia J, Sethi MK, Analysis of complex proteoglycans using serial proteolysis and EThcD provides deep N- and O-glycoproteomic coverage. Anal Bioanal Chem, 415(28):6995-7009(2023) [pubmed]

Keyword List

submitter keyword: Proteoglycans, glycoproteomics, tandem mass spectrometry

submitter keyword: Proteoglycans, glycoproteomics, tandem mass spectrometry

Contact List

Joseph Zaia
contact affiliation	Boston University Chobanian & Avedisian School of Medicine, Department of Biochemistry and Cell Biology
contact email	jzaia@bu.edu
lab head
Margaret Downs
contact affiliation	Boston University Chobanian & Avedisian School of Medicine
contact email	downsm@bu.edu
dataset submitter

Full Dataset Link List

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PRIDE project URI

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/2025/05/PXD041935

PRIDE project URI

Repository Record List

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