Identification of glycan branching patterns using multistage mass spectrometry with spectra tree analysis

doi:10.1016/j.jprot.2020.103649

	Identification of glycan branching patterns using multistage mass spectrometry with spectra tree analysis
	Wang, Hui 1,4; Zhang, Jingwei 1,3; Dong, Junchuan 1,4; Hou, Meijie 1,4; Pan, Weiyi 1,4; Bu, Dongbo 1,4; Zhou, Jinyu 2,4; Zhang, Qi 1,4; Wang, Yaojun 1,5; Zhao, Keli 2,4; Li, Yan 2,4; Huang, Chuncui 2,4; Sun, Shiwei 1,4
	2020-04-15
发表期刊	JOURNAL OF PROTEOMICS
ISSN	1874-3919
卷号	217 页码:7
摘要	Glycans are crucial to a wide range of biological processes, and their biological activities are closely related to the branching patterns of structures. Different from the simple linear chains of proteins, branching patterns of glycans are more complicated, making their identification extremely challenging. Tandem mass spectrometry (MS2) cannot provide sufficient structural information to deduce glycan branching patterns even with the assistance of various bioinformatic tools and algorithms.The promising technology to identify glycan branching patterns is multi-stage mass spectrometry (MSn). The production-relationship among MSn spectra of a glycan is essentially a tree, making deducing glycan structures from MSn spectra a great challenge. In the present study, we report an approach called glyBranch (glycan Branching pattern identification based on spectra tree) to fully exploit the information contained in the MSn spectra tree for glycan identification. Using 14 glycan standards, including 2 pairs with isomeric sequence, and 16 complex N-glycans isolated from RNase B and IgG, we demonstrated the successful application of glyBranch to branching pattern analysis. The source code of glyBranch is available at https://github.com/bigict/glyBranch/. We have also developed a web-server, which is freely accessible at http://glycan.ict.ac.cn/glyBranch/. Significance: Glycans are crucial in various biological processes and their functions are closely related to the details of their structures; thus, the identification of glycan branching patterns is of great significance to biological studies. Multistage mass spectrometry (MSn) can provide detailed structural information by generating multiple-level fragments through consecutive fragmentation; however, the interpretation of numerous MSn spectra is extremely challenging. In this study, we present an approach called glyBranch (glycan Branching pattern identification based on spectra tree) to exploit the information contained in MSn spectra tree for glycan identification. This approach will greatly facilitate the automated identification of glycan structures and related biological studies.
关键词	Multi-stage mass spectrometry Glycan branching pattern Glycan identification Spectra tree Isomeric glycan
DOI	10.1016/j.jprot.2020.103649
收录类别	SCI
语种	英语
资助项目	National Key Research and Development Program of China[2018YFC0910405] ; National Natural Science Foundation of China[31671369] ; National Natural Science Foundation of China[31600650] ; National Natural Science Foundation of China[31770775] ; International Partnership Program of Chinese Academy of Sciences[153311KYSB20150012]
WOS研究方向	Biochemistry & Molecular Biology
WOS类目	Biochemical Research Methods
WOS记录号	WOS:000527374100003
出版者	ELSEVIER
引用统计	被引频次：5[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/2XEOYT63/15426
专题	中国科学院计算技术研究所期刊论文_英文
通讯作者	Huang, Chuncui; Sun, Shiwei
作者单位	1.Chinese Acad Sci, Inst Comp Technol, Key Lab Intelligent Informat Proc, Beijing 100190, Peoples R China 2.Chinese Acad Sci, Inst Biophys, Beijing 100101, Peoples R China 3.SUNY Stony Brook, Dept Comp Sci, Stony Brook, NY 11794 USA 4.Univ Chinese Acad Sci, Beijing 100049, Peoples R China 5.China Agr Univ, Coll Informat & Elect Engn, Beijing 100083, Peoples R China
推荐引用方式 GB/T 7714	Wang, Hui,Zhang, Jingwei,Dong, Junchuan,et al. Identification of glycan branching patterns using multistage mass spectrometry with spectra tree analysis[J]. JOURNAL OF PROTEOMICS,2020,217:7.
APA	Wang, Hui.,Zhang, Jingwei.,Dong, Junchuan.,Hou, Meijie.,Pan, Weiyi.,...&Sun, Shiwei.(2020).Identification of glycan branching patterns using multistage mass spectrometry with spectra tree analysis.JOURNAL OF PROTEOMICS,217,7.
MLA	Wang, Hui,et al."Identification of glycan branching patterns using multistage mass spectrometry with spectra tree analysis".JOURNAL OF PROTEOMICS 217(2020):7.