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Introduction: Stroke is the third cause of death in the world. Ischemic stroke can be observed in the 85 to 90% of strokes. In the condition, cerebral blood flow due to the blockage of blood vessels is interrupted and a very complex process, literally called the cascade of ischemic, begins to occur at the cellular and tissue level, which eventually leads to tissue damage and the expression of ischemic stroke. Approaches in this area are weak and a further knowledge of the molecular mechanisms contributing to more effective diagnosis and treatment. Of the valuable tools for the understanding of molecular processes involved in ischemic stroke is proteomics method that provides us a snapshot of the proteins expressed at the cellular or tissue level, and can give us valuable information for the characteriza-tion of its biological processes. Materials & Methods: In this study, the data from human brain proteome changes in ischemic stroke using two-dimensional gel electrophoresis and mass spectrometry were analyzed by DAVID program. The lists of genes with altered protein expression were obtained from the article “the proteome of human brain after ischemic stroke”. Findings were analyzed by the DAVID bio-informatics software. The association betw-een ischemic stroke genes and other dise-ases, stroke clustering of proteins based on biological processes and intra cellular sites and molecular functions of the genes was performed via "GO" database. Findings: Of 39 genes involved in ischemic stroke, totally four biological pathways ch-art were obtained which were associated with central nervous system diseases such as Parkinson, Alzheimer and Huntington. Most of the proteins were located in mitochondria and more significantly invol-ved in the response to oxidative stress, apoptosis and necrosis processes. Discussion & Conclusion: The data from two-dimensional gel electrophoresis-based proteomics experiments are important for understanding of the processes that occur during ischemic stroke. Proteins identific-ation may be used as treatment targets or as biological markers for diagnostic and prog-nostic purposes in the management of stro-ke.