The Arctic is changing rapidly as strong air temperature warming induces a multitude of feedback mechanisms including changes in the snow cover and warming and thawing of permafrost soils. Due to the high interannual variability, multi-year datasets are needed to asses the complex interaction between climate and soil variables. However, such data series are scarce in the Arctic and some areas such as North-east Siberia are widely understudied. Here we present a comprehensive dataset covering time series of 2012 to 2021 of soil and climate variables at the center of Samoylov Island, Lena River Delta, Siberia (72.3742°N, 126.4959°E). The data cover the spatial variability of a polygonal tundra landscape as one profile was installed at the elevated dry polygon rim and the second at the lower inundated polygon center. The time series include in total 16 soil temperature measurements at depths down to 1m, 4 ground heat flux series, two water level measurements in wells, 9 time series of soil moisture and the associated dielectricity, and 4 time series of soil thermal properties (thermal conductivity and heat capacity). Auxiliary measurements at the soil station include air temperature at 70cm height, 4 component radiation at polygon rim and center, snow depth, and snow dielectricity at two heights. The dataset includes comprehensive metadata and is suitable for integration in physically based climate and permafrost models.