Integrative web-based analysis of omics data for study of drugs against SARS-CoV-2

Abstract Research on drugs against SARS-CoV-2 (cause of COVID-19) has been one of the major world concerns at present. There have been abundant research data and findings in this field. The interference of drugs on gene expression in cell lines, drug-target, protein-virus receptor networks, and immu...

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Autores principales:	ZhiGang Wang, YongQun He, Jing Huang, XiaoLin Yang
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/b6d90e2a3b1d498fa95c0cf72deb2d65
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spelling	oai:doaj.org-article:b6d90e2a3b1d498fa95c0cf72deb2d652021-12-02T14:42:00ZIntegrative web-based analysis of omics data for study of drugs against SARS-CoV-210.1038/s41598-021-89578-62045-2322https://doaj.org/article/b6d90e2a3b1d498fa95c0cf72deb2d652021-05-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-89578-6https://doaj.org/toc/2045-2322Abstract Research on drugs against SARS-CoV-2 (cause of COVID-19) has been one of the major world concerns at present. There have been abundant research data and findings in this field. The interference of drugs on gene expression in cell lines, drug-target, protein-virus receptor networks, and immune cell infiltration of the host may provide useful information for anti-SARS-CoV-2 drug research. To simplify the complex bioinformatics analysis and facilitate the evaluation of the latest research data, we developed OmiczViz ( http://medcode.link/omicsviz ), a web tool that has integrated drug-cell line interference data, virus-host protein–protein interactions, and drug-target interactions. To demonstrate the usages of OmiczViz, we analyzed the gene expression data from cell lines treated with chloroquine and ruxolitinib, the drug-target protein networks of 48 anti-coronavirus drugs and drugs bound with ACE2, and the profiles of immune cell infiltration between different COVID-19 patient groups. Our research shows that chloroquine had a regulatory role of the immune response in renal cell line but not in lung cell line. The anti-coronavirus drug-target network analysis suggested that antihistamine of promethaziney and dietary supplement of Zinc might be beneficial when used jointly with antiviral drugs. The immune infiltration analysis indicated that both the COVID-19 patients admitted to the ICU and the elderly with infection showed immune exhaustion status, yet with different molecular mechanisms. The interactive graphic interface of OmiczViz also makes it easier to analyze newly discovered and user-uploaded data, leading to an in-depth understanding of existing findings and an expansion of existing knowledge of SARS-CoV-2. Collectively, OmicsViz is web program that promotes the research on medical agents against SARS-CoV-2 and supports the evaluation of the latest research findings.ZhiGang WangYongQun HeJing HuangXiaoLin YangNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-11 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q ZhiGang Wang YongQun He Jing Huang XiaoLin Yang Integrative web-based analysis of omics data for study of drugs against SARS-CoV-2
description	Abstract Research on drugs against SARS-CoV-2 (cause of COVID-19) has been one of the major world concerns at present. There have been abundant research data and findings in this field. The interference of drugs on gene expression in cell lines, drug-target, protein-virus receptor networks, and immune cell infiltration of the host may provide useful information for anti-SARS-CoV-2 drug research. To simplify the complex bioinformatics analysis and facilitate the evaluation of the latest research data, we developed OmiczViz ( http://medcode.link/omicsviz ), a web tool that has integrated drug-cell line interference data, virus-host protein–protein interactions, and drug-target interactions. To demonstrate the usages of OmiczViz, we analyzed the gene expression data from cell lines treated with chloroquine and ruxolitinib, the drug-target protein networks of 48 anti-coronavirus drugs and drugs bound with ACE2, and the profiles of immune cell infiltration between different COVID-19 patient groups. Our research shows that chloroquine had a regulatory role of the immune response in renal cell line but not in lung cell line. The anti-coronavirus drug-target network analysis suggested that antihistamine of promethaziney and dietary supplement of Zinc might be beneficial when used jointly with antiviral drugs. The immune infiltration analysis indicated that both the COVID-19 patients admitted to the ICU and the elderly with infection showed immune exhaustion status, yet with different molecular mechanisms. The interactive graphic interface of OmiczViz also makes it easier to analyze newly discovered and user-uploaded data, leading to an in-depth understanding of existing findings and an expansion of existing knowledge of SARS-CoV-2. Collectively, OmicsViz is web program that promotes the research on medical agents against SARS-CoV-2 and supports the evaluation of the latest research findings.
format	article
author	ZhiGang Wang YongQun He Jing Huang XiaoLin Yang
author_facet	ZhiGang Wang YongQun He Jing Huang XiaoLin Yang
author_sort	ZhiGang Wang
title	Integrative web-based analysis of omics data for study of drugs against SARS-CoV-2
title_short	Integrative web-based analysis of omics data for study of drugs against SARS-CoV-2
title_full	Integrative web-based analysis of omics data for study of drugs against SARS-CoV-2
title_fullStr	Integrative web-based analysis of omics data for study of drugs against SARS-CoV-2
title_full_unstemmed	Integrative web-based analysis of omics data for study of drugs against SARS-CoV-2
title_sort	integrative web-based analysis of omics data for study of drugs against sars-cov-2
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/b6d90e2a3b1d498fa95c0cf72deb2d65
work_keys_str_mv	AT zhigangwang integrativewebbasedanalysisofomicsdataforstudyofdrugsagainstsarscov2 AT yongqunhe integrativewebbasedanalysisofomicsdataforstudyofdrugsagainstsarscov2 AT jinghuang integrativewebbasedanalysisofomicsdataforstudyofdrugsagainstsarscov2 AT xiaolinyang integrativewebbasedanalysisofomicsdataforstudyofdrugsagainstsarscov2
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Integrative web-based analysis of omics data for study of drugs against SARS-CoV-2

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