A proximity-based method to identify genomic regions correlated with a continuously varying environmental variable.

ABSTRACT: Knowledge of markers in the human genome which show spatial patterns and display extreme correlation with different environmental determinants play an important role in understanding the factors which affect the biological evolution of our species. We used the genotype data of more than half a million single nucleotide polymorphisms (SNPs) from the data set Human Genome Diversity Panel (HGDP-CEPH -CEPH) and we calculated Spearman's correlation between absolute latitude and one of the two allele frequencies of each SNP. We selected SNPs with a correlation coefficient within the upper 1% tail of the distribution. We then used a criterion of proximity between significant variants to focus on DNA regions showing a continuous signal over a portion of the genome. Based on external information an

SUBMITTER: Di Gaetano C 

PROVIDER: S-EPMC3565544 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature