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In this paper, we presented a design for an automated single cell loading and supply system that can be used with complex microfluidic applications requiring single cell loading such as the current nuclear transplantation method. The aim of the system is to automatically transfer mammalian donor (~15 Â¿m) or egg (~100 Â¿m) cells one by one from a container to a PDMS micro-channel and then transport them to other modules. The system consists of two main parts; a single cell suction module, and a PDMS-based microfluidic chip controlled by an external pump. The desired number of vacuumed cells can be directed into the microfluidic chip and stored in a docking area. From the batch, they can be moved to next module by activating pneumatic pressure valves located on two sides of the chip. The entire mechanism is combined with monitoring systems that perform the detection/tracking and control program.