A microfluidic multi-well-based cell culture testing device is provided. The multi-well-based cell culture testing device has an array structure of a plurality of aligned microfluidic well units. Each of the microfluidic well units comprises an inlet through which a first fluid enters, an accommodation compartment adapted to accommodate a second fluid therein, a microfluidic channel through which the first fluid flows, and an air outlet adapted to facilitate the entering of the first fluid.