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Co-expression analysis to identify key modules and hub genes associated with COVID19 in Platelets

View ORCID ProfileAhmed B. Alarabi, View ORCID ProfileAttayeb Mohsen, View ORCID ProfileKenji Mizuguchi, View ORCID ProfileFatima Z. Alshbool, View ORCID ProfileFadi T. Khasawneh
doi: https://doi.org/10.1101/2021.09.01.458644
Ahmed B. Alarabi
1Department of Pharmacy Practice, Irma Lerma Rangel College of Pharmacy, Texas A&M University, Kingsville, Texas, USA
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Attayeb Mohsen
2Laboratory of Bioinformatics, Artificial Intelligence Center for Health and Biomedical Research (ArCHER), National Institutes of Biomedical Innovation, Health and Nutrition, 7-6-8 Saito-Asagi, Ibaraki, Osaka 567-0085, Japan
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Kenji Mizuguchi
2Laboratory of Bioinformatics, Artificial Intelligence Center for Health and Biomedical Research (ArCHER), National Institutes of Biomedical Innovation, Health and Nutrition, 7-6-8 Saito-Asagi, Ibaraki, Osaka 567-0085, Japan
3Institute for Protein Research, Osaka University, 3-2 Yamadaoka, Suita, Osaka, Japan
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Fatima Z. Alshbool
1Department of Pharmacy Practice, Irma Lerma Rangel College of Pharmacy, Texas A&M University, Kingsville, Texas, USA
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Fadi T. Khasawneh
4Department of Pharmaceutical Sciences, Irma Lerma Rangel College of Pharmacy, Texas A&M University, Kingsville, Texas, USA
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  • For correspondence: fkha-sawneh@tamu.edu
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Abstract

The severe acute respiratory syndrome corona virus 2 (SARS-CoV-2) is a highly contagious virus that causes a severe respiratory disease known as Corona virus disease 2019 (COVID19). Indeed, COVID19 increases the risk of cardiovascular occlusive/thrombotic events and is linked to poor outcomes. The pathophysiological processes underlying COVID19-induced thrombosis are complex, and remain poorly understood. To this end, platelets play important roles in regulating our cardiovascular system, including via contributions to coagulation and inflammation. There is an ample of evidence that circulating platelets are activated in COVID19 patients, which is a primary driver of the thrombotic outcome observed in these patients. However, the comprehensive molecular basis of platelet activation in COVID19 disease remains elusive, which warrants more investigation. Hence, we employed gene co-expression network analysis combined with pathways enrichment analysis to further investigate the aforementioned issues. Our study revealed three important gene clusters/modules that were closely related to COVID19. Furthermore, enrichment analysis showed that these three modules were mostly related to platelet metabolism, protein translation, mitochondrial activity, and oxidative phosphorylation, as well as regulation of megakaryocyte differentiation, and apoptosis, suggesting a hyperactivation status of platelets in COVID19. We identified the three hub genes from each of three key modules according to their intramodular connectivity value ranking, namely: COPE, CDC37, CAPNS1, AURKAIP1, LAMTOR2, GABARAP MT-ND1, MT-ND5, and MTRNR2L12. Collectively, our results offer a new and interesting insight into platelet involvement in COVID19 disease at the molecular level, which might aid in defining new targets for treatment of COVID19–induced thrombosis.

key points

  • Co-expression analysis of platelet RNAseq from COVID19 patients show distinct clusters of genes (modules) that are highly correlated to COVID19 disease.

  • Identifying these modules might help in understanding the mechanism of thrombosis in COVID19 patients

Competing Interest Statement

The authors have declared no competing interest.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted September 02, 2021.
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Co-expression analysis to identify key modules and hub genes associated with COVID19 in Platelets
Ahmed B. Alarabi, Attayeb Mohsen, Kenji Mizuguchi, Fatima Z. Alshbool, Fadi T. Khasawneh
bioRxiv 2021.09.01.458644; doi: https://doi.org/10.1101/2021.09.01.458644
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Co-expression analysis to identify key modules and hub genes associated with COVID19 in Platelets
Ahmed B. Alarabi, Attayeb Mohsen, Kenji Mizuguchi, Fatima Z. Alshbool, Fadi T. Khasawneh
bioRxiv 2021.09.01.458644; doi: https://doi.org/10.1101/2021.09.01.458644

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