Research on Neutral Mutation Algorithm in DNA Polymorphism Testing based on OpenMP

摘要：

　　Soybean genotypes are adopted as the data source and the Tajimas D statistical method is parallel implemented by OpenMP technology.This method is used for testing neutral mutation hypothesis of DNA polymorphism.By setting the sliding window size,all chromosomes containing the massive windows with multiple SNP sites are parallel processed,then the number of individual in sample,the number of segregating sites (S) and average number of nucleotide differences (π) are obtained.After parameters filtering,the Tajimas D values for the effective SNP sites in each sliding window are parallel calculated.According to the experimental data,the serial/parallel algorithms are compared and the conclusion shows that the efficiency of testing neutral mutation can be improved by using the OpenMP technology.It is a realistic significance for processing massive biological information data.

关键词： genotype Tajimas D OpenMP SNP

作者: Jun Li Jun Lu Ruiqing Jing Qiong Wang Cheng Chang

作者单位: College of Computer Science and Technology, Heilongjiang University College of Computer Science and Technology, Heilongjiang University; Key Laboratory of Database and

会议类型: 国际会议

会议名称: 2015 IEEE Advanced Information Technology, Electronic and Automation Control Conference(IAEAC 2015)(2015 IEEE先进信息技术,电子与自动化控制国际会议)

会议地点: 重庆

会议语种:英文

页码: 867-870

在线出版日期: 2015-12-19（万方平台首次上网日期，不代表论文的发表时间）