Objective To investigate the visualization effect and imaging clarity of magnetic resonance T2 sequence versus susceptibility-weighted imaging （SWI） sequence in the subthalamic nucleus （STN） and the error between the surgical target located by different sequences and the actual target， to calculate the error amount， and to guide preoperative surgical planning and imaging selection.Methods A total of 11 patients who received deep brain stimulation for Parkinson’s disease in The First Affiliated Hospital of Henan University from December 2018 to December 2020 and met the inclusion criteria of this study were enrolled and analyzed， and all patients underwent preoperative 3.0T high-resolution magnetic resonance imaging with 3DT1 Bravo， T2， and SWI sequences. T2 sequence and SWI sequence were used to formulate the surgical plan and generate the corresponding surgical coordinates， and all patients received deep brain electrode implantation in the bilateral STN， with a total of 22 sides. High-resolution thin-layer craniocerebral CT was reexamined after surgery and was fused with preoperative MRI. The location coordinates of the electrode tip were reconstructed after surgery and were compared with the coordinates of the T2 plan or the SWI plan to analyze the error amount.Results As for the Z-axis difference， the coordinate of left SWI was 2.16±1.02 mm deeper than that of T2， and the coordinate of right SWI was 2.13±1.62 mm deeper than that of T2.Conclusions The depth of the STN on the SWI sequence is about 2 mm greater than that on the T2 sequence and is more consistent with the electrophysiological depth.