Precise, fast and comprehensive analysis of intact glycopeptides and modified glycans with pGlyco3

doi:10.1038/s41592-021-01306-0

	Precise, fast and comprehensive analysis of intact glycopeptides and modified glycans with pGlyco3
	Zeng, Wen-Feng 1,2,8; Cao, Wei-Qian 3,4,5,6; Liu, Ming-Qi 3,4,5,6; He, Si-Min 1,2; Yang, Peng-Yuan 3,4,5,6,7
	2021-11-25
发表期刊	NATURE METHODS
ISSN	1548-7091
页码	15
摘要	Great advances have been made in mass spectrometric data interpretation for intact glycopeptide analysis. However, accurate identification of intact glycopeptides and modified saccharide units at the site-specific level and with fast speed remains challenging. Here, we present a glycan-first glycopeptide search engine, pGlyco3, to comprehensively analyze intact N- and O-glycopeptides, including glycopeptides with modified saccharide units. A glycan ion-indexing algorithm developed for glycan-first search makes pGlyco3 5-40 times faster than other glycoproteomic search engines without decreasing accuracy or sensitivity. By combining electron-based dissociation spectra, pGlyco3 integrates a dynamic programming-based algorithm termed pGlycoSite for site-specific glycan localization. Our evaluation shows that the site-specific glycan localization probabilities estimated by pGlycoSite are suitable to localize site-specific glycans. With pGlyco3, we confidently identified N-glycopeptides and O-mannose glycopeptides that were extensively modified by ammonia adducts in yeast samples. The freely available pGlyco3 is an accurate and flexible tool that can be used to identify glycopeptides and modified saccharide units. pGlyco3 is a glycan-first glycopeptide search engine for the identification and localization of site-specific N- and O-glycopeptides, including glycopeptides with modified glycans.
DOI	10.1038/s41592-021-01306-0
收录类别	SCI
语种	英语
资助项目	Max Planck Society
WOS研究方向	Biochemistry & Molecular Biology
WOS类目	Biochemical Research Methods
WOS记录号	WOS:000722557100006
出版者	NATURE PORTFOLIO
引用统计	被引频次：100[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://119.78.100.204/handle/2XEOYT63/18132
专题	中国科学院计算技术研究所期刊论文_英文
通讯作者	Zeng, Wen-Feng
作者单位	1.Chinese Acad Sci, Inst Comp Technol, Key Lab Intelligent Informat Proc, CAS, Beijing, Peoples R China 2.Univ Chinese Acad Sci, Beijing, Peoples R China 3.Fudan Univ, Shanghai Peoples Hosp 5, Shanghai, Peoples R China 4.Fudan Univ, Inst Biomed Sci, Shanghai, Peoples R China 5.Fudan Univ, NHC Key Lab Glycoconjugates Res, Shanghai, Peoples R China 6.Fudan Univ, Shanghai Key Lab Med Epigenet & Int Colab Med Epi, Minist Sci & Technol, Shanghai, Peoples R China 7.Fudan Univ, Dept Chem, Shanghai, Peoples R China 8.Max Planck Inst Biochem, Prote & Signal Transduct, Martinsried, Germany
推荐引用方式 GB/T 7714	Zeng, Wen-Feng,Cao, Wei-Qian,Liu, Ming-Qi,et al. Precise, fast and comprehensive analysis of intact glycopeptides and modified glycans with pGlyco3[J]. NATURE METHODS,2021:15.
APA	Zeng, Wen-Feng,Cao, Wei-Qian,Liu, Ming-Qi,He, Si-Min,&Yang, Peng-Yuan.(2021).Precise, fast and comprehensive analysis of intact glycopeptides and modified glycans with pGlyco3.NATURE METHODS,15.
MLA	Zeng, Wen-Feng,et al."Precise, fast and comprehensive analysis of intact glycopeptides and modified glycans with pGlyco3".NATURE METHODS (2021):15.