The article presents the results of the analysis of long-term regime observations of change in the concentrations of groundwater of Uzbekistan and adjacent territories. Based on these observations, the main factors affecting the changes of the quantitative content of helium. The results of the evaluation of the characteristics of the changes and distribution of helium in groundwater. The change of helium concentration in groundwater significantly influence the deformation and hydro-geodynamic and tectonic conditions. Described and quantified four factors with different concentrations of helium. They allow to correctly assess the variation of helium associated with seismic events.