Computer Engineering and Applications Vol. 8, No. 1, February 2019 ISSN: 2252-4274 (Print) 41 ISSN: 2252-5459 (Online) Identification of Significant Proteins Associated with Diabetes Mellitus Using Network Analysis of Protein-Protein Interactions M. Syafiuddin Usman 1 , Wisnu Ananta Kusuma 1,4* , Farit Mochamad Afendi 2,4 , Rudi Heryanto 3,4 1 Department of Computer Science, Bogor Agricultural University 2 Department of Statistics, Bogor Agricultural University 3 Department of Chemistry, Bogor Agricultural University 4 Tropical Biopharmaca Research Center, Bogor Agricultural University *ananta@apps.ipb.ac.id ABSTRACT Computation approach to identify significance of proteins related with disease was proposed as one of the solutions from the problem of experimental method application which is generally high cost and time consuming. The case of study was conducted on Diabetes Melitus (DM) type 2 diseases. Identification of significant proteins was conducted by constructing protein-protein interactions network and then analyzing the network topology. Dataset was obtained from Online Mendelian Inheritance in Man (OMIM) and Search Tool for the Retrieval of Interacting Genes/Proteins (STRING) which provided protein data related with a disease and Protein-Protein Interaction (PPI), respectively. The results of topology analysis towards Protein-Protein Interaction (PPI) showed that there were 21 significant protein associated with DM where INS as a network center protein and AKTI, TCF7L2, KCNJ11, PPARG, GCG, INSR, IAPP, SOCS3 were proteins that had close relation directly with INS. Keywords: Diabetes Melitus, Protein-Protein Interaction (PPI) Network, OMIM, Protein-Protein Significance, STRING 1. INTRODUCTION The existence of significant proteins in our body is very essential for growth because proteins are the place where all nutritions are needed[1]. Germs infection (Wolfe et al. 2007) or unhealthy lifestyle [2] can cause some diseases in fungtional disorders of those significant proteins[3] and the worst result of them is the malfunction of certain vital organs in our body[4]. One of the diseases caused by functional disorder of significant proteins is DM. Therapy by using proper medication needs to be done to restore those proteins in their normal functions[3]. The initial step in the discovery process of proper medication is identification of the significant proteins associated with the disease[5]. The application of experimental methode to identify the significant proteins such as single gen knockouts[6], interferenceof RNA [7] and conditional knockouts [8] can be conducted. However, the application of these methods is generally constrained by great cost and long time[9]. Computation approach for identifying significant proteins associated with disease is proposed as solutions against experimental constrain. One of them is by constructing and analyzing network topology of protein-protein interaction [9][10].