pGlyco 2.0 enables precision N-glycoproteomics with comprehensive quality control and one-step mass spectrometry for intact glycopeptide identification

doi:10.1038/s41467-017-00535-2

	pGlyco 2.0 enables precision N-glycoproteomics with comprehensive quality control and one-step mass spectrometry for intact glycopeptide identification
	Liu, Ming-Qi 1,2,3; Zeng, Wen-Feng 4,5; Fang, Pan 1,2; Cao, Wei-Qian 1,2; Liu, Chao 4; Yan, Guo-Quan 1,2; Zhang, Yang 1,2; Peng, Chao 6; Wu, Jian-Qiang 4,5; Zhang, Xiao-Jin 4,5; Tu, Hui-Jun 4,5; Chi, Hao 4; Sun, Rui-Xiang 4; Cao, Yong 7; Dong, Meng-Qiu 7; Jiang, Bi-Yun 1,2; Huang, Jiang-Ming 1,2; Shen, Hua-Li 1,2; Wong, Catherine C. L.6; He, Si-Min 4,5; Yang, Peng-Yuan 1,2,3
	2017-09-05
发表期刊	NATURE COMMUNICATIONS
ISSN	2041-1723
卷号	8 页码:14
摘要	The precise and large-scale identification of intact glycopeptides is a critical step in glycoproteomics. Owing to the complexity of glycosylation, the current overall throughput, data quality and accessibility of intact glycopeptide identification lack behind those in routine proteomic analyses. Here, we propose a workflow for the precise high-throughput identification of intact N-glycopeptides at the proteome scale using stepped-energy fragmentation and a dedicated search engine. pGlyco 2.0 conducts comprehensive quality control including false discovery rate evaluation at all three levels of matches to glycans, peptides and glycopeptides, improving the current level of accuracy of intact glycopeptide identification. The N-glycoproteome of samples metabolically labeled with N-15/C-13 were analyzed quantitatively and utilized to validate the glycopeptide identification, which could be used as a novel benchmark pipeline to compare different search engines. Finally, we report a large-scale glycoproteome dataset consisting of 10,009 distinct site-specific N-glycans on 1988 glycosylation sites from 955 glycoproteins in five mouse tissues.
DOI	10.1038/s41467-017-00535-2
收录类别	SCI
语种	英语
资助项目	National Key Research and Development Program[2016YFA0501300] ; National Natural Science Foundation of China[21227805] ; National Natural Science Foundation of China[31600665] ; National Natural Science Foundation of China[31570825] ; National Natural Science Foundation of China[31300680] ; National Natural Science Foundation of China[31500667] ; China Postdoctoral Science Foundation[2015M570324] ; CAS Interdisciplinary Innovation Team ; CAS Strategic Pioneer Project ; CAS Outstanding Technology Talent Program ; CAS Key Technology Talent Program ; National Basic Research Program of China[2012CB910602] ; National Basic Research Program of China[2, 013CB911203] ; Hi-Tech Research and Development Program of China[2014AA020902] ; Hi-Tech Research and Development Program of China[2014AA020901] ; Hi-Tech Research and Development Program of China[2015AA020104] ; Hi-Tech Research and Development Program of China[2015AA020108] ; Youth Innovation Promotion Association CAS[2014091] ; International S&T Cooperation Program of China[2014DFB30010]
WOS研究方向	Science & Technology - Other Topics
WOS类目	Multidisciplinary Sciences
WOS记录号	WOS:000409394300012
出版者	NATURE PUBLISHING GROUP
引用统计	被引频次：230[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/2XEOYT63/6641
专题	中国科学院计算技术研究所期刊论文_英文
通讯作者	Wong, Catherine C. L.; He, Si-Min; Yang, Peng-Yuan
作者单位	1.Fudan Univ, Inst Biomed Sci, Shanghai 200032, Peoples R China 2.Fudan Univ, Dept Chem, Shanghai 200032, Peoples R China 3.Fudan Univ, Dept Syst Biol Med, Basic Med Coll, Shanghai 20032, Peoples R China 4.Chinese Acad Sci, Inst Comp Technol, Key Lab Intelligent Informat Proc, Beijing 100190, Peoples R China 5.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 6.Chinese Acad Sci, Shanghai Inst Biol Sci, Inst Biochem & Cell Biol, Natl Ctr Prot Sci Shanghai, Shanghai 201210, Peoples R China 7.Natl Inst Biol Sci Beijing, Beijing 102206, Peoples R China
推荐引用方式 GB/T 7714	Liu, Ming-Qi,Zeng, Wen-Feng,Fang, Pan,et al. pGlyco 2.0 enables precision N-glycoproteomics with comprehensive quality control and one-step mass spectrometry for intact glycopeptide identification[J]. NATURE COMMUNICATIONS,2017,8:14.
APA	Liu, Ming-Qi.,Zeng, Wen-Feng.,Fang, Pan.,Cao, Wei-Qian.,Liu, Chao.,...&Yang, Peng-Yuan.(2017).pGlyco 2.0 enables precision N-glycoproteomics with comprehensive quality control and one-step mass spectrometry for intact glycopeptide identification.NATURE COMMUNICATIONS,8,14.
MLA	Liu, Ming-Qi,et al."pGlyco 2.0 enables precision N-glycoproteomics with comprehensive quality control and one-step mass spectrometry for intact glycopeptide identification".NATURE COMMUNICATIONS 8(2017):14.