A Systems Biology Approach to Reveal Putative Host-Derived Biomarkers of Periodontitis by Network Topology Characterization of MMP-REDOX/NO and Apoptosis Integrated Pathways

Frontiers in Cellular and Infection Microbiology
Fares Zeidán-ChuliáUlvi Kahraman Gursoy

Abstract

Periodontitis, a formidable global health burden, is a common chronic disease that destroys tooth-supporting tissues. Biomarkers of the early phase of this progressive disease are of utmost importance for global health. In this context, saliva represents a non-invasive biosample. By using systems biology tools, we aimed to (1) identify an integrated interactome between matrix metalloproteinase (MMP)-REDOX/nitric oxide (NO) and apoptosis upstream pathways of periodontal inflammation, and (2) characterize the attendant topological network properties to uncover putative biomarkers to be tested in saliva from patients with periodontitis. Hence, we first generated a protein-protein network model of interactions ("BIOMARK" interactome) by using the STRING 10 database, a search tool for the retrieval of interacting genes/proteins, with "Experiments" and "Databases" as input options and a confidence score of 0.400. Second, we determined the centrality values (closeness, stress, degree or connectivity, and betweenness) for the "BIOMARK" members by using the Cytoscape software. We found Ubiquitin C (UBC), Jun proto-oncogene (JUN), and matrix metalloproteinase-14 (MMP14) as the most central hub- and non-hub-bottlenecks among the 211 genes...Continue Reading

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Citations

Oct 7, 2016·Tumour Biology : the Journal of the International Society for Oncodevelopmental Biology and Medicine·Anuj KumarTarun Kumar Bhatt
Mar 9, 2018·Medical Sciences : Open Access Journal·Ben-Hur Neves de OliveiraFares Zeidán-Chuliá
Jul 6, 2018·Journal of Periodontal Research·F Zeidán-ChuliáU K Gürsoy
Jul 13, 2017·International Journal of Molecular Sciences·Sachio TsuchidaFumio Nomura

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Methods Mentioned

BETA
genotyping

Software Mentioned

GALANT ( GrAph LANdscape VisualizaTion )
NetworkAnalyzer
GALANT
BIOMARK
Cytoscape
Ensembl
STRING
R

Related Concepts

Related Feeds

Apoptosis

Apoptosis is a specific process that leads to programmed cell death through the activation of an evolutionary conserved intracellular pathway leading to pathognomic cellular changes distinct from cellular necrosis