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Network Biology, 2018, 8(3): 98-112
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Article

Development of a network model and investigation of hub proteins for asthma exacerbation

Tahmina Hossain1,2, Nazmir-Nur Showva2, Saleh Ahmed2, Md. Mudassir Billah3, Armugan Ashraf4, Md. Fahmid Islam5, Md. Shaifur Rahman6, KM Taufiqur Rahman7
1Department of Mathematics and Natural Sciences, BRAC University, Dhaka-1212, Bangladesh
2Department of Biotechnology and Genetic Engineering, Jahangirnagar University, Dhaka-1342, Bangladesh
3Institute of Disaster Management and Vulnerability Studies (IDMVS), University of Dhaka, Dhaka-1000, Bangladesh
4Department of Biology, University of Saskatchewan, Saskatoon, S7N 5C8, Canada
5Department of Biochemistry, University of Saskatchewan, Saskatoon, S7N 5E5, Canada
6Institute for Stem Cell Research and Regenerative Medicine, University Hospital Duesseldorf, Duesseldorf 40225, Germany
7Research and Development Division, Incepta Vaccine Limited, Zirabo, Savar, Dhaka 1341, Bangladesh

Received 2 February 2018;Accepted 15 March 2018;Published 1 September 2018
IAEES

Abstract
Asthma is a long-term inflammatory disease known to affect the airways in the lungs with variable and recurring symptoms. A large number of genes, transcription factors and proteins are involved in this process, which makes it polygenic. We investigated the responsible proteins for asthma by conducting in-depth analysis in the database of asthma proteins and subsequently examining their differential role in disease progression following a computational biological approach. Firstly, we constructed a protein-protein interaction network among 1152 proteins, and identified top 20 high degree nodes (known as hubs); considering threshold score of ¡Ý100 by using Cytoscape 3.1.0 software package. Also we identified seven asthma signal transduction pathways from KEGG database and compared them with the pathways derived from NetWalker platform to determine the constituted proteins. Secondly, we conducted MCODE (molecular complex detection) analysis that divided the network into 27 clusters having threshold score of ¡Ý4.0. These individual clusters of constituted proteins were compared with the hubs and the results demonstrated their functional role in asthma. We also identified the proteins involved in the regulatory, reactome and metabolic reaction interaction for asthma exacerbation, classified different lung functional roles of these proteins, and found hyper-geometric pvalue of ¡Ü0.05. Thus, our in-depth analysis suggests some important consequences for interpreting the resulting data significantly and gives more insight about asthma exacerbation.

Keywords asthma;protein interaction network;molecular complex;signal transduction pathways.


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