In this paper, we designed two preprocessing adaptive filter - high pass filter and notch filter - using FPGA. For minimizing the calculation load of multi-channel and high-resolution ECG system, we utilize FPGA rather than digital signal processing chip. To implement the designed filters in FPGA, we utilize FPGA design tool(Altera corporation, MAX-PLUS II) and CSE database as test data. In order to evaluate the performance in terms of processing time, we compared the designed filters with the digital filters implemented by ADSP21061(Analog Devices). As a result, the filters implemented by FPGA showed better performance than the filters based on ADSP21061. As a consequence of examination, we conclude that FPGA is a useful solution in multi-channel and high-resolution signal processing.