PXD027004-1

PXD027004 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Analysis of O-glycoproteomics data with MS-Decipher, MetaMorpheus, MSFragger-Glyco and Mascot
Description	We presented a user-friendly proteomic database search platform, MS-Decipher, for the identification of peptides from MS data. Two scoring schemes, rank score and hyperscore, could be used for peptide spectra matching. FDR controlling strategies could be used after searching, and it was found that MS-Decipher performs well compared to traditional database searching software. In addition, a special search mode, O-search, is presented to search O-glycopeptides for the O-glycoproteomics analysis. Data and result files in several formats could be used in searching and validation. Dataset of tryptic peptides from serum were used to evaluate the performance of our software in analysis of O-glycoproteomics . The searches using the same parameters were also performed by other commonly used software, like MetaMorpheus, MSFragger-Glyco and Mascot, to compare the performance.
HostingRepository	jPOST
AnnounceDate	2022-01-13
AnnouncementXML	Submission_2022-01-12_16:35:43.870.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	He Zhu
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	S-carboxamidomethyl-L-cysteine; L-methionine sulfoxide; deamidated L-glutamine; deamidated L-asparagine; Hex1HexNAc1NeuAc1O-glycosylated threonine; Hex1HexNAc1NeuAc1 O-glycosylated serine; Hex1HexNAc1NeuAc2 O-glycosylated threonine; Hex1HexNAc1NeuAc2 O-glycosylated serine; Hex(1)HexNAc(1); Hex(1)HexNAc(1)
Instrument	LTQ Orbitrap

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2021-06-30 01:45:11	ID requested
⏵ 1	2022-01-12 16:35:44	announced
2	2022-09-18 03:53:09	announced	2022-09-18: Updated FTP location.

Publication List

Dataset with its publication pending

Dataset with its publication pending

Keyword List

submitter keyword: intact glycopeptide, serum O-glycoproteome

submitter keyword: intact glycopeptide, serum O-glycoproteome

Contact List

Mingliang Ye
lab head
He Zhu
contact affiliation	CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences (CAS)
dataset submitter

Full Dataset Link List

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.biosciencedbc.jp/archive/jpostrepos/JPST001208

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.biosciencedbc.jp/archive/jpostrepos/JPST001208