Detecting SNP Combinations Discriminating Human Populations From HapMap Data


The genomes of various persons are similar. There are solely a comparatively little range of genetic variations between individuals. The genetic variations between people are very ought to have study. Researchers have proposed the fixation index FST measurement to seek out the only nucleotide polymorphisms (SNPs) which will mirror human population differences. However, most SNPs have interactions and they work along, that results in the variations among human populations. The amount of all attainable m-locus combinations chosen from n SNPs grows exponentially. Most ways concern on 2-locus interactions. During this paper, we propose a novel methodology to find a brand new coordinate system underneath that the energy distributions of different populations are quite different. We choose out candidate SNPs from n SNPs by using the data of the axes in the coordinate system. The number of candidate SNPs is little, thus SNP-SNP interactions can be searched efficiently. The method can additionally find interactions of additional than two loci. These interactions should be ready to mirror the evolution of human populations from another method. The numbers of SNP-SNP interactions are thought to be the variations between pairwise populations and a hierarchical clustering algorithm is used to construct the evolutionary tree. Within the experiments, we have a tendency to apply the method to SNP knowledge of 4 chromosomes separately and also the trees constructed on these four chromosomes are highly consistent. Furthermore, the trees are also in line with previous studies, which indicates that evolutionary information is well mined. The method provides a brand new insight to analyze the human population differences.

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