GameTag: A New Sequence Tag Generation Algorithm Based on Cooperative Game Theory

doi:10.1002/pmic.202000021

	GameTag: A New Sequence Tag Generation Algorithm Based on Cooperative Game Theory
	Fei, Zhengcong 1,2; Wang, Kaifei 1,2; Chi, Hao 1,2
	2020-09-30
发表期刊	PROTEOMICS
ISSN	1615-9853
页码	9
摘要	Sequence tag-based peptide search is a critical technology in proteomics for the characterization of proteins from tandem mass spectrometry data. However, the main reason for hindering the full application of such an approach lies that accurately extracting sequence tags responsible for each experimental spectrum. Toward that end, GameTag, a novel cooperative game framework for sequence tag generation is proposed, which includes a tag generator and a tag discriminator to collaboratively generate sequence tags. Specifically, the tag generator works to extract as many correct tag candidates as possible and the tag discriminator serves to determine the correctness of tag candidates and reduce the total number of output tags simultaneously. Through the dynamic two-player game, the number of extracted tags is decreased while the number of correct tags gets boosted. The performance of the proposed method is also investigated under various hyperparameter and structure settings. Extensive experiments on a wide variety of data sets from different species demonstrate that GameTag outperforms previous state-of-the-art methods, InsPecT, PepNovo+, DirecTag, and the existing tag-extraction method in Open-pFind, increasing by at least 10% the number of spectra extracted more than one correct tag.
关键词	cooperative game deep learning proteomics sequence tag generation
DOI	10.1002/pmic.202000021
收录类别	SCI
语种	英语
资助项目	National Key Research and Development Program of China[2016YFA0501300] ; Youth Innovation Promotion Association CAS[2016091]
WOS研究方向	Biochemistry & Molecular Biology
WOS类目	Biochemical Research Methods ; Biochemistry & Molecular Biology
WOS记录号	WOS:000573853300001
出版者	WILEY
引用统计	被引频次：3[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/2XEOYT63/15613
专题	中国科学院计算技术研究所期刊论文_英文
通讯作者	Chi, Hao
作者单位	1.Chinese Acad Sci, Key Lab Intelligent Informat Proc, Inst Comp Technol, 6 Zhongguancun South Rd, Beijing 100190, Peoples R China 2.Univ Chinese Acad Sci, 19 A Yuquan Rd, Beijing 100049, Peoples R China
推荐引用方式 GB/T 7714	Fei, Zhengcong,Wang, Kaifei,Chi, Hao. GameTag: A New Sequence Tag Generation Algorithm Based on Cooperative Game Theory[J]. PROTEOMICS,2020:9.
APA	Fei, Zhengcong,Wang, Kaifei,&Chi, Hao.(2020).GameTag: A New Sequence Tag Generation Algorithm Based on Cooperative Game Theory.PROTEOMICS,9.
MLA	Fei, Zhengcong,et al."GameTag: A New Sequence Tag Generation Algorithm Based on Cooperative Game Theory".PROTEOMICS (2020):9.