Water channel is a protein which regulates transcellular water permeability. Among mRNA expression of six principal mammalian water channels, AQ4 mRNA expression was highest in the brain. Water channels are supposed to regulate cerebral edema but the detailed physiological and pathological function is unknown. Brain edema has been analyzed as an aspect of ion channel injury or membrane injury. However the transportation of water molecule itself following cerebral ischemia is unknown. As water channels transport only water molecules, the functional changes of water channels following cerebral ischemia are of great interest. To evaluate the role of water channels in cerebral edema following cerebral ischemia, the changes of water channel mRNA expression were evaluated. Cerebral edema was induced by suture method. The extraction of water channel mRNA was performed according to Chomczynsli and Sacchi. RT-PCR was applied to extracted mRNA. Water channel mRNA electrophoresis was performed. For semi-quantified evaluation of water channel, mRNA intensities of the infarct hemisphere and normal hemisphere were compared. The expression of water channel mRNA was decreased following cerebral ischemia. This damage leads to loose physiological control of water permeability of the cell membrane in the neuron, glia and endothelial cells which leads to brain edema.