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N-Linked Glycopeptide Identification Based on Open Mass Spectral Library Search
An, Zhiwu1,2; Shu, Qingbo2,3; Lv, Hao1,2,4; Shu, Lian2,3; Wang, Jifeng3; Yang, Fuquan2,3; Fu, Yan1,2
2018
Source PublicationBIOMED RESEARCH INTERNATIONAL
ISSN2314-6133
Pages11
AbstractConfident characterization of intact glycopeptides is a challenging task in mass spectrometry-based glycoproteomics due to microheterogeneity of glycosylation, complexity of glycans, and insufficient fragmentation of peptide bones. Open mass spectral library search is a promising computational approach to peptide identification, but its potential in the identification of glycopeptides has not been fully explored. Here we present pMatchGlyco, a new spectral library search tool for intact N-linked glycopeptide identification using high-energy collisional dissociation (HCD) tandem mass spectrometry (MS/MS) data. In pMatchGlyco, (1) MS/MS spectra of deglycopeptides are used to create spectral library, (2) MS/MS spectra of glycopeptides are matched to the spectra in library in an open (precursor tolerant) manner and the glycans are inferred, and (3) a false discovery rate is estimated for top-scored matches above a threshold. The efficiency and reliability of pMatchGlyco were demonstrated on a data set of mixture sample of six standard glycoproteins and a complex glycoprotein data set generated from human cancer cell line OVCAR3.
DOI10.1155/2018/1564136
Language英语
Funding ProjectInternational S&T Cooperation Program of China[2014DFB30010] ; National Key R & D Program of China[SQ2018YFA050014] ; Strategic Priority Research Programs of the Chinese Academy of Sciences[XDB13040600] ; Strategic Priority Research Programs of the Chinese Academy of Sciences[XDA12030202] ; National Key Basic Research Program of China[2015CB554406] ; National Natural Science Foundation of China[31670185] ; National Natural Science Foundation of China[91640112] ; NCMIS CAS
WOS Research AreaBiotechnology & Applied Microbiology ; Research & Experimental Medicine
WOS SubjectBiotechnology & Applied Microbiology ; Medicine, Research & Experimental
WOS IDWOS:000442867000001
PublisherHINDAWI LTD
Citation statistics
Document Type期刊论文
Identifierhttp://ir.amss.ac.cn/handle/2S8OKBNM/31102
Collection应用数学研究所
Affiliation1.Chinese Acad Sci, Acad Math & Syst Sci, Natl Ctr Math & Interdisciplinary Sci, Key Lab Random Complex Struct & Data Sci, Beijing 100101, Peoples R China
2.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
3.Chinese Acad Sci, Inst Biophys, Lab Prote, Beijing 100101, Peoples R China
4.Chinese Acad Sci, Comp Network Informat Ctr, Beijing 100101, Peoples R China
Recommended Citation
GB/T 7714
An, Zhiwu,Shu, Qingbo,Lv, Hao,et al. N-Linked Glycopeptide Identification Based on Open Mass Spectral Library Search[J]. BIOMED RESEARCH INTERNATIONAL,2018:11.
APA An, Zhiwu.,Shu, Qingbo.,Lv, Hao.,Shu, Lian.,Wang, Jifeng.,...&Fu, Yan.(2018).N-Linked Glycopeptide Identification Based on Open Mass Spectral Library Search.BIOMED RESEARCH INTERNATIONAL,11.
MLA An, Zhiwu,et al."N-Linked Glycopeptide Identification Based on Open Mass Spectral Library Search".BIOMED RESEARCH INTERNATIONAL (2018):11.
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