Data were analyzed to study the role of an winter ice cover for methane cycles of three different stages in the lake-lagoon-shelf transition in a region of rapidly thawing permafrost in northeast Siberia. Dissolved methane concentrations and stable carbon isotopic signature of methane as well as hydrochemical parameters, as stable water isotope composition, electrical conductivity, dissolved organic carbon and temperature were analyzed in ice cores. The ice cores were taken at Tiksi Bay (core 27-30), Polar Fox Lagoon (core 31 and 32), and Goltsovoye Lake (core 20-24) in April 2017.