Early diagnosis of cancer is crucial to effective treatment of the patients and to higher survival rates. Tumor marker detection as an effective and noninvasive cancer diagnosis method has important clinical significance. N1, N12-diacetylspermine (DAS) is a new tumor marker. The development of its detection methods is an urgent need for medical diagnosis and human health monitoring. The conventional detection methods of DAS are labor-intensive and time-consuming approaches. In this work, a novel electrochemical detection platform was established by integrating an organic electrochemical transistor (OECT) with a microfluidic chip and applied for trace measurement of DAS. The sensing unit is a gate electrode in the OECT modified with molecularly imprinted polymers (MIPs), which can be used as an artificial receptor to realize label-free detection. The high specific recognition ability of MIPs films combined with the amplified function of an OECT yielded a highly sensitive and selective electrochemical detection chip. The integrated microfluidic channel controlledthe exact amount of solution to be delivered and provided real-time detection of DAS. The experimental results indicated that changes in channel current was proportional to DAS concentrations from 1 nM to 10 μM, with the detection limits of 0.8 nM. It is the first demonstration of the integration of a microfluidic system with a MIP-gated OECT for real-time tumor marker detection. The study results of this work helped to develop Point-Of-Care (POC) tools for the early diagnosis of lung cancer, colon cancer and breast cancer.