Ground-based observations of land-atmosphere fluxes are necessary to progressively improve global climate models. Observed data can be used for model evaluation and to develop or tune process models. In arctic permafrost regions, climate-carbon feedbacks are amplified. Therefore, increased efforts to better represent these regions in global climate models have been made in recent years. We present a multi-annual time series of land-atmosphere carbon dioxide fluxes measured in situ with the eddy covariance technique in the Siberian Arctic (72'22° N, 126'30° E). The site is part of the international network of eddy covariance flux observation stations (FLUXNET; site ID: Ru-Sam). The data set includes consistently processed fluxes based on concentration measurements of closed-path and open-path gas analyzers. With parallel records from both sensor types, we were able to apply a site-specific correction to open-path fluxes. This correction is necessary due to a deterioration of data, caused by heat generated by the electronics of open-path gas analyzers. Parameterizing this correction for subperiods of distinct sensor setups yielded good agreement between open- and closed-path fluxes. We compiled a long-term (2002 to 2017) carbon dioxide flux time series that we additionally gap-filled with a standardized approach. The data set was uploaded to the Pangaea database and can be accessed through https://doi.org/10.1594/PANGAEA.892751.