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The application of Trend Surface Analysis (TSA) method an geological and geophysical research in map sheets 1813-1814, Balikpapan Waters and its surrounding, shows the significant value of residual anomaly. The magnetic disseverance of regional and total anomaly value obtained the negative anomaly between -50 nT and -350 nT and positive anomaly between +50 nT and +400 nT. The contour of total and regional anomaly shows the magnetic properties of rocks which characterizes the geological arrangements of the research areas. Residual anomaly yielded from the 2nd order value of regional anomaly might be correlated with the formation of basin structures in the central and northern parts of research area, which is interpreted as a part of Kutai Basin. Keywords : TSA method, magnetic anomaly, geology and geophisics, Balikpapan Waters.