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Bioinformatics approach to identify common gene signatures of patients with coronavirus 2019 and lung adenocarcinoma

Coronavirus disease 2019 (COVID-19) continues as a global pandemic. Patients with lung cancer infected with COVID-19 may develop severe disease or die. Treating such patients severely burdens overwhelmed healthcare systems. Here, we identified potential pathological mechanisms shared between patient...

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Autores principales: Liang, Xiao, Chen, Yali, Fan, Yuchao
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Berlin Heidelberg 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8590527/
https://www.ncbi.nlm.nih.gov/pubmed/34775559
http://dx.doi.org/10.1007/s11356-021-17321-9
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author Liang, Xiao
Chen, Yali
Fan, Yuchao
author_facet Liang, Xiao
Chen, Yali
Fan, Yuchao
author_sort Liang, Xiao
collection PubMed
description Coronavirus disease 2019 (COVID-19) continues as a global pandemic. Patients with lung cancer infected with COVID-19 may develop severe disease or die. Treating such patients severely burdens overwhelmed healthcare systems. Here, we identified potential pathological mechanisms shared between patients with COVID-19 and lung adenocarcinoma (LUAD). Co-expressed, differentially expressed genes (DEGs) in patients with COVID-19 and LUAD were identified and used to construct a protein–protein interaction (PPI) network and to perform enrichment analysis. We used the NetworkAnalyst platform to establish a co-regulatory of the co-expressed DEGs, and we used Spearman’s correlation to evaluate the significance of associations of hub genes with immune infiltration and immune checkpoints. Analysis of three datasets identified 112 shared DEGs, which were used to construct a protein-PPI network. Subsequent enrichment analysis revealed co-expressed genes related to biological process (BP), molecular function (MF), and cellular component (CC) as well as to pathways, specific organs, cells, and diseases. Ten co-expressed hub genes were employed to construct a gene-miRNA, transcription factor (TF)-gene, and TF-miRNA network. Hub genes were significantly associated with immune infiltration and immune checkpoints. Finally, methylation level of hub genes in LUAD was obtained via UALCAN database. The present multi-dimensional study reveals commonality in specific gene expression by patients with COVID-19 and LUAD. These findings provide insights into developing strategies for optimising the management and treatment of patients with LUAD with COVID-19. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s11356-021-17321-9.
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spelling pubmed-85905272021-11-15 Bioinformatics approach to identify common gene signatures of patients with coronavirus 2019 and lung adenocarcinoma Liang, Xiao Chen, Yali Fan, Yuchao Environ Sci Pollut Res Int Research Article Coronavirus disease 2019 (COVID-19) continues as a global pandemic. Patients with lung cancer infected with COVID-19 may develop severe disease or die. Treating such patients severely burdens overwhelmed healthcare systems. Here, we identified potential pathological mechanisms shared between patients with COVID-19 and lung adenocarcinoma (LUAD). Co-expressed, differentially expressed genes (DEGs) in patients with COVID-19 and LUAD were identified and used to construct a protein–protein interaction (PPI) network and to perform enrichment analysis. We used the NetworkAnalyst platform to establish a co-regulatory of the co-expressed DEGs, and we used Spearman’s correlation to evaluate the significance of associations of hub genes with immune infiltration and immune checkpoints. Analysis of three datasets identified 112 shared DEGs, which were used to construct a protein-PPI network. Subsequent enrichment analysis revealed co-expressed genes related to biological process (BP), molecular function (MF), and cellular component (CC) as well as to pathways, specific organs, cells, and diseases. Ten co-expressed hub genes were employed to construct a gene-miRNA, transcription factor (TF)-gene, and TF-miRNA network. Hub genes were significantly associated with immune infiltration and immune checkpoints. Finally, methylation level of hub genes in LUAD was obtained via UALCAN database. The present multi-dimensional study reveals commonality in specific gene expression by patients with COVID-19 and LUAD. These findings provide insights into developing strategies for optimising the management and treatment of patients with LUAD with COVID-19. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s11356-021-17321-9. Springer Berlin Heidelberg 2021-11-13 2022 /pmc/articles/PMC8590527/ /pubmed/34775559 http://dx.doi.org/10.1007/s11356-021-17321-9 Text en © The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature 2021 This article is made available via the PMC Open Access Subset for unrestricted research re-use and secondary analysis in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the World Health Organization (WHO) declaration of COVID-19 as a global pandemic.
spellingShingle Research Article
Liang, Xiao
Chen, Yali
Fan, Yuchao
Bioinformatics approach to identify common gene signatures of patients with coronavirus 2019 and lung adenocarcinoma
title Bioinformatics approach to identify common gene signatures of patients with coronavirus 2019 and lung adenocarcinoma
title_full Bioinformatics approach to identify common gene signatures of patients with coronavirus 2019 and lung adenocarcinoma
title_fullStr Bioinformatics approach to identify common gene signatures of patients with coronavirus 2019 and lung adenocarcinoma
title_full_unstemmed Bioinformatics approach to identify common gene signatures of patients with coronavirus 2019 and lung adenocarcinoma
title_short Bioinformatics approach to identify common gene signatures of patients with coronavirus 2019 and lung adenocarcinoma
title_sort bioinformatics approach to identify common gene signatures of patients with coronavirus 2019 and lung adenocarcinoma
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8590527/
https://www.ncbi.nlm.nih.gov/pubmed/34775559
http://dx.doi.org/10.1007/s11356-021-17321-9
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