1. Computational modeling of human-nCoV protein-protein interaction network
- Author
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Sovan Saha, Anup Kumar Halder, Soumyendu Sekhar Bandyopadhyay, Piyali Chatterjee, Mita Nasipuri, and Subhadip Basu
- Subjects
FOS: Computer and information sciences ,PPIN, Protein-Protein Interaction Networks ,Computer Science - Artificial Intelligence ,Protein interaction network analysis ,Molecular Networks (q-bio.MN) ,MERS, Middle East Respiratory Syndrome ,Drug target ,Susceptible-infected-susceptible model ,Article ,General Biochemistry, Genetics and Molecular Biology ,BC, Betweenness Centrality ,SARS, Severe Acute Respiratory Syndrome ,Fuzzy model ,Humans ,Quantitative Biology - Molecular Networks ,Computer Simulation ,Spreadability index ,Protein Interaction Maps ,Molecular Biology ,Human-nCoV interactions ,SARS-CoV-2 ,COVID-19 ,Proteins ,CC, Closeness centrality ,High-quality interactions ,Artificial Intelligence (cs.AI) ,FOS: Biological sciences ,SARS-CoV2 ,Spreader nodes ,RNA, Viral ,Gene ontology ,LAC, Local average centrality - Abstract
COVID-19 has created a global pandemic with high morbidity and mortality in 2020. Novel coronavirus (nCoV), also known as Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV2), is responsible for this deadly disease. International Committee on Taxonomy of Viruses (ICTV) has declared that nCoV is highly genetically similar to SARS-CoV epidemic in 2003 (89% similarity). Limited number of clinically validated Human-nCoV protein interaction data is available in the literature. With this hypothesis, the present work focuses on developing a computational model for nCoV-Human protein interaction network, using the experimentally validated SARS-CoV-Human protein interactions. Initially, level-1 and level-2 human spreader proteins are identified in SARS-CoV-Human interaction network, using Susceptible-Infected-Susceptible (SIS) model. These proteins are considered as potential human targets for nCoV bait proteins. A gene-ontology based fuzzy affinity function has been used to construct the nCoV-Human protein interaction network at 99.98% specificity threshold. This also identifies the level-1 human spreaders for COVID-19 in human protein-interaction network. Level-2 human spreaders are subsequently identified using the SIS model. The derived host-pathogen interaction network is finally validated using 7 potential FDA listed drugs for COVID-19 with significant overlap between the known drug target proteins and the identified spreader proteins., Comment: Total number of pages is 12. Total number of figures is 7. Total number of tables is 1
- Published
- 2022
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