PXD054368

PXD054368 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Site-specific glycoform analysis of mouse tissue N-glycoproteomes by the Glyco-RIDGE method
Description	To understand biological and pathological functions of protein glycosylations, it is crucial to uncover glycan heterogeneities, which depend on the type and status of cells, for each glycosite of single glycoprotein. For evaluating the glycan heterogeneities at macro-, micro-, and meta-levels, a reliable strategy is needed to compare site-specific glycoforms of glycoproteins in two and more samples, such as different tissues, in a comprehensive manner. To analyze this "inter-heterogeneity" of samples, we have developed a MS1-based glycopeptide detection method named "Glycan heterogeneity-based Relational Identification of Glycopeptide signals on Elution profile (Glyco-RIDGE)." In the present study, to elucidate inter-tissue glycan heterogeneities, the Glyco-RIDGE method was applied to site-specific N-glycoform analysis of six mouse tissues. To improve the sensitivity of analysis, glycopeptides prepared from the tissues were desialylated and fractioned, and then analyzed using the Glyco-RIDGE method. The validity of the MS1-based method was confirmed for the liver using MS2 spectra. This method estimated 11,325 site-specific N-glycoforms with 239 glycan compositions on 1,260 sites of 800 glycoproteins, revealing inter-tissue differences in macro-, micro-, and meta-glycan heterogeneities.
HostingRepository	jPOST
AnnounceDate	2024-12-16
AnnouncementXML	Submission_2025-02-10_16:45:25.451.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Chiaki Nagai-Okatani
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	S-carboxamidomethyl-L-cysteine; unknown modification; unknown modification; L-methionine sulfoxide; unknown modification; deamidated L-glutamine
Instrument	LTQ Orbitrap Velos

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2024-07-30 00:03:23	ID requested
⏵ 1	2025-02-10 16:45:26	announced

Publication List

Tomita S, Nagai-Okatani C, Expanding the recognition of monosaccharides and glycans: A comprehensive analytical approach using chemical-nose/tongue technology and a comparison to lectin microarrays. BBA Adv, 7():100129(2025) [pubmed]

Tomita S, Nagai-Okatani C, Expanding the recognition of monosaccharides and glycans: A comprehensive analytical approach using chemical-nose/tongue technology and a comparison to lectin microarrays. BBA Adv, 7():100129(2025) [pubmed]

Keyword List

submitter keyword: glycoproteomics, site-specific N-glycoform, glycan heterogeneity, Glyco-RIDGE, mouse tissue

submitter keyword: glycoproteomics, site-specific N-glycoform, glycan heterogeneity, Glyco-RIDGE, mouse tissue

Contact List

Chiaki Nagai-Okatani
lab head
Chiaki Nagai-Okatani
contact affiliation	National Institute of Advanced Industrial Science and Technology (AIST)
dataset submitter

Full Dataset Link List

jPOST dataset URI
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jPOST dataset 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.jpostdb.org/JPST003232/