Prioritizing Candidate Genes for Type 2 Diabetes Mellitus using Integrated Network  and Pathway Analysis

Tejaswini  Prakash; Nallur B  Ramachandra

doi:10.18502/ajmb.v14i3.9831

Tejaswini Prakash Genetics and Genomics Lab, Department of Studies in Genetics and Genomics, University of Mysore, Manasagangothri, Mysuru – 570 006, Karnataka, India
Nallur B Ramachandra Genetics and Genomics Lab, Department of Studies in Genetics and Genomics, University of Mysore, Manasagangothri, Mysuru – 570 006, Karnataka, India

DOI: https://doi.org/10.18502/ajmb.v14i3.9831

Keywords: Gene ontology, Hub genes identification, In silico analysis, Text mining, Type 2 diabetes mellitus

Abstract

Background: Type 2 Diabetes Mellitus (T2DM) has emerged as a major threat to global health that fosters life-threatening clinical complications, taking a huge toll on our society. More than 65 million Indians suffer from T2DM, making it one of the leading causes of death. T2DM and associated complications have to be constantly monitored and managed which reduces the overall quality of life and increases socioeconomic burden. Therefore, it is crucial to develop specific treatment and management strategies. In order to achieve this, it is essential to understand the underlying genetic causes and molecular mechanisms.

Methods: Integrated gene network and ontology analyses facilitate prioritization of plausible candidate genes for T2DM and also aid in understanding their mechanistic pathways. In this study, T2DM-associated genes were subjected to sequential interaction network and gene set enrichment analysis. High ranking network clusters were derived and their interrelation with pathways was assessed.

Results: About 23 significant candidate genes were prioritized from 615 T2DM-associ-ated genes which were overrepresented in pathways related to insulin resistance, type 2 diabetes, signaling cascades such as insulin receptor signaling pathway, PI3K signaling, IGFR signaling pathway, ERBB signaling pathway, MAPK signaling pathway and their regulatory mechanisms.

Conclusion: Of these, two tyrosine kinase receptor genes-EGFR and IGF1R were identified as common nodes and can be considered to be significant candidate genes in T2DM.