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	The utility of supertype clustering in prediction for class ii mhc-peptide binding
	Shen, Wen-Jun1; Zhang, Xun1; Zhang, Shaohong2; Liu, Cheng1; Cui, Wenjuan3
刊名	Molecules
	2018-11-01
卷号	23期号:11页码:18
关键词	Class ii mhc Mhc-peptide binding Supertype Ensemble learning
ISSN号	1420-3049
DOI	10.3390/molecules23113034
通讯作者	Shen, wen-jun(wjshen@stu.edu.cn)
英文摘要	Motivation: extensive efforts have been devoted to understanding the antigenic peptides binding to mhc class i and ii molecules since they play a fundamental role in controlling immune responses and due their involvement in vaccination, transplantation, and autoimmunity. the genes coding for the mhc molecules are highly polymorphic, and it is difficult to build computational models for mhc molecules with few know binders. on the other hand, previous studies demonstrated that some mhc molecules share overlapping peptide binding repertoires and attempted to group them into supertypes. herein, we present a framework of the utility of supertype clustering to gain more information about the data to improve the prediction accuracy of class ii mhc-peptide binding. results: we developed a new method, called supermhc, for class ii mhc-peptide binding prediction, including three mhc isotypes of hla-dr, hla-dp, and hla-dq, by using supertype clustering in conjunction with rls regression. the supertypes were identified by using a novel repertoire dissimilarity index to quantify the difference in mhc binding specificities. the supermhc method achieves the state-of-the-art performance and is demonstrated to predict binding affinities to a series of mhc molecules with few binders accurately. these results have implications for understanding receptor-ligand interactions involved in mhc-peptide binding.
WOS关键词	HLA-DR ; MICROARRAYS ; DATABASES ; DQA
WOS研究方向	Biochemistry & Molecular Biology ; Chemistry
WOS类目	Biochemistry & Molecular Biology ; Chemistry, Multidisciplinary
语种	英语
出版者	MDPI
WOS记录号	WOS:000451641900306
内容类型	期刊论文
URI标识	http://www.corc.org.cn/handle/1471x/2374268
专题	计算机网络信息中心
通讯作者	Shen, Wen-Jun
作者单位	1.Shantou Univ, Coll Med, Dept Bioinformat, Shantou 515000, Peoples R China 2.Guangzhou Univ, Dept Comp Sci, Guangzhou 510000, Guangdong, Peoples R China 3.Chinese Acad Sci, Comp Network Informat Ctr, Beijing 100190, Peoples R China
推荐引用方式 GB/T 7714	Shen, Wen-Jun,Zhang, Xun,Zhang, Shaohong,et al. The utility of supertype clustering in prediction for class ii mhc-peptide binding[J]. Molecules,2018,23(11):18.
APA	Shen, Wen-Jun,Zhang, Xun,Zhang, Shaohong,Liu, Cheng,&Cui, Wenjuan.(2018).The utility of supertype clustering in prediction for class ii mhc-peptide binding.Molecules,23(11),18.
MLA	Shen, Wen-Jun,et al."The utility of supertype clustering in prediction for class ii mhc-peptide binding".Molecules 23.11(2018):18.

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