Platelet and Haemostasis are the Main Targets in Severe Cases of COVID-19 Infection; a System Biology Study
Archives of Academic Emergency Medicine,
Vol. 9 No. 1 (2021),
1 January 2021
,
Page e27
https://doi.org/10.22037/aaem.v9i1.1108
Abstract
Introduction: Many proteomics-based and bioinformatics-based efforts are made to detect the molecular mechanism of COVID-19 infection. Identification of the main protein targets and pathways of severe cases of COVID-19 infection is the aim of this study.
Methods: Published differentially expressed proteins were screened and the significant proteins were investigated via protein-protein interaction network using Cytoscape software V. 3.7.2 and STRING database. The studied proteins were assessed via action map analysis to determine the relationship between individual proteins using CluePedia. The related biological terms were investigated using ClueGO and the terms were clustered and discussed.
Results: Among the 35 queried proteins, six of them (FGA, FGB, FGG, and FGl1 plus TLN1 and THBS1) were identified as critical proteins. A total of 38 biological terms, clustered in 4 groups, were introduced as the affected terms. “Platelet degranulation” and “hereditary factor I deficiency disease” were introduced as the main class of the terms disturbed by COVID-19 virus.
Conclusion: It can be concluded that platelet damage and disturbed haemostasis could be the main targets in severe cases of coronavirus infection. It is vital to follow patients’ condition by examining the introduced critical differentially expressed proteins (DEPs).
- COVID-19
- Proteins
- Bioinformatics
- Computational Biology
- Network analysis
How to Cite
References
Marietta M, Ageno W, Artoni A, De Candia E, Gresele P, Marchetti M, et al. COVID-19 and haemostasis: a position paper from Italian Society on Thrombosis and Haemostasis (SISET). Blood Transfusion. 2020;18(3):167.
Madsbad S. COVID-19 infection in people with diabetes. Endocrinology. 2020;2020:1.
Wang Y, Duan Z, Ma Z, Mao Y, Li X, Wilson A, et al. Epidemiology of mental health problems among patients with cancer during COVID-19 pandemic. Translational psychiatry. 2020;10(1):1-10.
Cazzola M, Skoda RC. Translational pathophysiology: a novel molecular mechanism of human disease. Blood, The Journal of the American Society of Hematology. 2000;95(11):3280-8.
Li X, Geng M, Peng Y, Meng L, Lu S. Molecular immune pathogenesis and diagnosis of COVID-19. Journal of Pharmaceutical Analysis. 2020.
Hosoki K, Chakraborty A, Sur S. Molecular mechanisms and epidemiology of COVID-19 from an allergist’s perspective. Journal of Allergy and Clinical Immunology. 2020.
Chambers G, Lawrie L, Cash P, Murray GI. Proteomics: a new approach to the study of disease. The Journal of pathology. 2000;192(3):280-8.
Brusic V, Marina O, Wu CJ, Reinherz EL. Proteome informatics for cancer research: from molecules to clinic. Proteomics. 2007;7(6):976-91.
Blueggel M, Chamrad D, Meyer HE. Bioinformatics in proteomics. Current pharmaceutical biotechnology. 2004;5(1):79-88.
Guingab-Cagmat J, Cagmat E, Hayes RL, Anagli J. Integration of proteomics, bioinformatics, and systems biology in traumatic brain injury biomarker discovery. Frontiers in neurology. 2013;4:61.
Zamanian-Azodi M, Rezaei-Tavirani M, Rahmati-Rad S, Hasanzadeh H, Tavirani MR, Seyyedi SS. Protein-Protein Interaction Network could reveal the relationship between the breast and colon cancer. Gastroenterology and Hepatology from bed to bench. 2015;8(3):215.
Safari-Alighiarloo N, Taghizadeh M, Rezaei-Tavirani M, Goliaei B, Peyvandi AA. Protein-protein interaction networks (PPI) and complex diseases. Gastroenterology and Hepatology from bed to bench. 2014;7(1):17.
Rual J-F, Venkatesan K, Hao T, Hirozane-Kishikawa T, Dricot A, Li N, et al. Towards a proteome-scale map of the human protein–protein interaction network. Nature. 2005;437(7062):1173-8.
Bu D, Zhao Y, Cai L, Xue H, Zhu X, Lu H, et al. Topological structure analysis of the protein–protein interaction network in budding yeast. Nucleic acids research. 2003;31(9):2443-50.
Rezaei-Tavirani M, Tavirani MR, Azodi MZ, Farshi HM, Razzaghi M. Evaluation of skin response after erbium: yttrium–aluminum–garnet laser irradiation: a network analysis approach. Journal of lasers in medical sciences. 2019;10(3):194.
Rezaei Tavirani M, Mansouri V, Rezaei Tavirani S, Hesami Tackallou S, Rostami-Nejad M. Gliosarcoma protein-protein interaction network analysis and gene ontology. International Journal of Cancer Management. 2018;11(5).
Schlicker A, Lengauer T, Albrecht M. Improving disease gene prioritization using the semantic similarity of Gene Ontology terms. Bioinformatics. 2010;26(18):i561-i7.
Shu T, Ning W, Wu D, Xu J, Han Q, Huang M, et al. Plasma proteomics identify biomarkers and pathogenesis of COVID-19. Immunity. 2020;53(5):1108-22. e5.
Messner CB, Demichev V, Wendisch D, Michalick L, White M, Freiwald A, et al. Ultra-high-throughput clinical proteomics reveals classifiers of COVID-19 infection. Cell systems. 2020;11(1):11-24. e4.
Whetton AD, Preston GW, Abubeker S, Geifman N. Proteomics and informatics for understanding phases and identifying biomarkers in COVID-19 disease. Journal of proteome research. 2020;19(11):4219-32.
Zhang D, Qiao W, Zhao Y, Fang H, Xu D, Xia Q. Curdione attenuates thrombin-induced human platelet activation: β1-tubulin as a potential therapeutic target. Fitoterapia. 2017;116:106-15.
Isenberg JS, Romeo MJ, Yu C, Yu CK, Nghiem K, Monsale J, et al. Thrombospondin-1 stimulates platelet aggregation by blocking the antithrombotic activity of nitric oxide/cGMP signaling. Blood, The Journal of the American Society of Hematology. 2008;111(2):613-23.
Peyvandi F. Epidemiology and treatment of congenital fibrinogen deficiency. Thrombosis research. 2012;130:S7-S11.
Bornikova L, Peyvandi F, Allen G, Bernstein J, Manco‐Johnson M. Fibrinogen replacement therapy for congenital fibrinogen deficiency. Journal of Thrombosis and Haemostasis. 2011;9(9):1687-704.
Ruggeri ZM, Mendolicchio GL. Adhesion mechanisms in platelet function. Circulation research. 2007;100(12):1673-85.
Marcus AJ. Platelet function. New England Journal of Medicine. 1969;280(22):1213-20.
White D, MacDonald S, Edwards T, Bridgeman C, Hayman M, Sharp M, et al. Evaluation of COVID‐19 coagulopathy; laboratory characterization using thrombin generation and nonconventional haemostasis assays. International journal of laboratory hematology. 2020.
- Abstract Viewed: 1415 times
- pdf Downloaded: 589 times