There are quick temporary changes on brain cortex on Bax, c-Fos mRNA, and protein after brain damage and c-Fos is related to biological factors such as cell cycle process and tumorigenesis. After ischemic damage, c-Fos quickly causes initial gene and transcription factor on CA1 area, and continuous inducing of c-Fos cause apoptosis after ischemic damage. In this study, LC series resonant boost converter is used on a magnetic stimulation device. Transcranial Magnetic Stimulation (TMS) was used to determine effects of Magnetic stimulation on Bax, Caspase-3, immunoreactive cell on 12 and 24 hours ischemia induced with apoptosis on ischemia. To control the experimental device, EICS affiliate AE32000C Processor Core was used. After magnetic stimulation with TMS device on an ischemia mouse, we determined effects of magnetic stimulation on Bax and c-Fos on cerebellum. We want to identify a more positive approach to apoptosis caused by early ischemic brain injury than electrotherapy by examining c-Fos protein changed large brain neuron after stimulating ST 36 on an ischemic mouse’s brain.