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The tin (Sn)-tungsten (W) polymetallic ore concentrated district in SE Yunnan is distributed at the junction region of the Yangtze Block, the Cathaysian Block and the Indosinian Block, where there are several giant deposits of tin, tungsten, copper, silver, lead, zinc and indium closely associated with a large scale Late Cretaceous magmatism. Bi-dimensional empirical mode decomposition (BEMD) is used to extract aero-magnetic anomalous components at the survey scale of 1 : 200000 from the original aeromagnetic data of SE Yunnan. Four intrinsic mode functions (IMFs) and a residues component are obtained, which may reflect the geological structures and geological bodies at different spatial scales from high frequency to low frequency. The results are shown as follows: (1) Two different types of Precambrian basement in the study area were recognized: one is the Yangtze Block basement characterized by a strong positive magnetic anomaly, the other is the Cathaysian Block basement with a weak negative magnetic anomaly. The former consists of high grade metamorphic rocks including metamorphosed basic igneous rocks, while the latter consists of low grade met-amorphosed sedimentary rocks. (2) The aeromagnetic anomalies associated with Sn-W polymetallic miner-alization and related to granites in the study area illustrate a pattern of a skarnized alteration-mineralization zone with a positive ring magnetic anomaly enclosing a granitic intrusion with negative magnetic anomaly; (3) The ring positive magnetic anomaly zones enclosing the negative magnetic anomaly are defined as the Sn-W polymetallic ore-searching targets in the study area.