Abstract:The objective of this study was to characterize and compare the water and salt soluble proteins from rat liver and muscle by using sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE) and sodium dodecyl sulphate polymer-filled capillary gel electrophoresis (SDS-CGE). The evaluation and comparison of separations realized with the use of both techniques was done. It was found that although the main separation mechanism have similar in both cases. However, it was considered that, SDS-CGE seems to have a potential to be the alternative, efficient tool for the separation of tissue proteins based purely on their molecular weights.