A factor of the association between gene geographical data and populations of the mapped region was analyzed. This allowed for correction of the equations for the major statistical parameters of gene geographical maps (mean, variance, etc.) and gene geographical methods of estimating the spatial nonstationarity of data within a mapped region. The proposed approach is based on the use of the population density in a mapped region as a factor reflecting the anisotropy of the geographical space. The population density of the North Eurasian indigenous populations was mapped, and the application of the resulting map was illustrated with an example.