Chaos game representation for discriminating thermophilic from mesophilic protein sequences

摘要：

Can sequence analysis tell us about the function of protein? A basic question in protein science is which kind of proteins extent thermostability. Chaos game representation (CGR) can investigate the patterns hiding in protein sequence, visually revealing previously unknown structure. In this paper, we convert every protein sequence into a 20-dimensional vector by CGR algorithm, and based on these vectors we discriminate thermophiles from mesophiles using support vector machine (SVM). The overall accuracy achieves 100％ in resubstitution test, and 87.12％ in Jackknife test. Moreover, Matthews correlation coefficients (MCC) is 0.745.

关键词： and Phrases CGR Thermophilic mesophilic Protein sequence Support vector machine

作者: Xue-Hai Hu Jing-Bo Xia Xiao-Hui Niu Xuan Ma Chao-Hong Song Feng Shi

作者单位: College of Science Huazhong Agricultural University Wuhan,Hubei 430070

会议类型: 国际会议

会议名称: The 3rd International Conference on Bioinformatics and Biomedical Engineering(iCBBE 2009)(第三届生物信息与生物医学工程国际会议)

会议地点: 北京

会议语种:英文

页码: 1-4

在线出版日期: 2009-06-11（万方平台首次上网日期，不代表论文的发表时间）