Volume 4, Issue 3 (2018)                   Pharm Biomed Res 2018, 4(3): 9-25 | Back to browse issues page

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Elengoe A, Hamdan S. Mapping of TP53 protein network using cytoscape software. Pharm Biomed Res. 2018; 4 (3) :9-25
URL: http://pbr.mazums.ac.ir/article-1-210-en.html
1- Department of Biotechnology, Faculty of Science, Lincoln University College, 47301 Petaling Jaya, Selangor, Malaysia
2- Department of Biosciences And Health Sciences, Faculty of Science, Universiti Teknologi Malaysia, 81310 Skudai, Johor, Malaysia
Abstract:   (2014 Views)
TP53 acts as a tumor suppressor in cancer. It induces cell cycle arrest or apoptosis in response to cellular stress and damage. p53 gene alteration could cause uncontrolled cell proliferation.In the present study, we used TP53 gene as the seed in the construction of a protein-protein functional association network to identify genes that might involve in tumorgenesis process with TP53. TP53 protein interaction database was obtained from STRING version 9.1 program. High-throughput experimental data, literature data and hypothetical studies have been used to determine the roles of candidate genes in TP53 pathway. A total 500 genes from STRING database loaded into Cytoscape version 2.8.3. The 1762 protein interactions were assembled and visualized in y organic form. We found eight specific non-overlapping clusters of various sizes, which emerged from the huge network of protein-interactors using MCODE version 1.32 clustering algorithm. Biological Networks Gene Ontology (BiNGO) was used to determine two ontologies (molecular function and biological process) involved in the protein network. Most of the genes mainly participated in gene and protein expression, cell signaling and metabolism. A better understanding of the relationship between the genes could aid in developing prognostic markers and better therapeutic strategies in cancer treatment.
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