【摘 要】
:
Population genomic approaches,which take advantages of high-throughput genotyping,are powerful yet costly methods to scan for selective sweeps.DNA-pooling strat
【机 构】
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Faculty of Basic Medical Science,Beijing Institute of Genomics,The Institute of Translational Medici
【出 处】
:
基因组蛋白质组与生物信息学报(英文版)
【基金项目】
:
National Key Laboratory Specific Fund;Educational Department of Jiangxi Province;国家自然科学基金
论文部分内容阅读
Population genomic approaches,which take advantages of high-throughput genotyping,are powerful yet costly methods to scan for selective sweeps.DNA-pooling strategies have been widely used for association studies because it is a cost-effective alternative to large-scale individual genotyping.Here,we performed an SNP-MaP(single nucleotide polymorphism microarrays and pooling)analysis using samples from Eurasia to evaluate the efficiency of pooling strategy in genome-wide scans for selection.By conducting simulations of allelotype data,we first demonstrated that the boxplot with average heterozygosity(HET)is a promising method to detect strong selective sweeps with a moderate level of pooling error.Based on this,we used a sliding window analysis of HET to detect the large contiguous regions(LCRs)putatively under selective sweeps from Eurasia datasets.This survey identified 63 LCRs in a European population.These signals were further supported by the integrated haplotype score(iHS)test using HapMap Ⅱ data.We also confirrned the European-specific signatures of positive selection from several previously identified genes(KEL,TRPV5,TRPV6,EPHB6).In summary,our results not only revealed the high credibility of SNP-MaP strategy in scanning for selective sweeps,but also provided an insight into the population differentiation.
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