Instead of relying on traditional medical electrotherapy, we seek to determine a more positive approach to early ischemic brain injury by researching the effect of applying a magnetic stimulation device in an SD mouse’s brain to stop apoptosis, where a 64-Bit-EISC Processor Core delivers transcranial magnetic stimulation (TMS). We determined the change of the post-ischemic stimulatory effects on the Bax, caspase-3, and immune-reactive perikarya over time by stimulating the mouse’s brain. c-Fos and Cox-2 were used to find a crucial determining factor regarding inflammation-related cytotoxicity. The cerebral ischemia caused a biochemical change in the brain tissue and increased the neuronal genes within a few minutes. The genes showed that these very fast reactions involve an early gene. Next, we found an approach that is more favorable than electrotherapy for the apoptosis that is caused by early ischemic brain injury by researching the c-Fos protein that changes largebrain neurons; this was achieved after we stimulated the ischemic mouse brain using a two-tank LLC resonant converter as part of the TMS experimental equipment.