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Geochemical data from ancient marine sediments are crucial for studying palaeo-environments, palaeo-climates, and elemental cycles. With increased accessibility to geochemical data, many databases have emerged. However, there remains a need for a more comprehensive database that focuses on deep-time marine sediment records. Here, we introduce the Deep-Time Marine Sedimentary Element Database (DM-SED). The DM-SED has been built upon the Sedimentary Geochemistry and Paleoenvironments Project (SGP) database with a new compilation of 34 874 data entries from 433 studies, totalling 63 627 entries. The DM-SED contains 2 522 255 discrete marine sedimentary data points, including major and trace elements and some stable isotopes. It includes 9207 entries from the Precambrian and 54 420 entries from the Phanerozoic, thus providing significant references for reconstructing deep-time Earth system evolution. The data files described in this paper are available at https://doi.org/10.5281/zenodo.14771859 (Lai et al., 2025).