Multi-omic analysis reveals enriched pathways associated with COVID-19 and COVID-19 severity.
Multi-omic analysis reveals enriched pathways associated with COVID-19 and COVID-19 severity.
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DOI：
10.1371/journal.pone.0267047
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发表时间：
2022
期刊：
影响因子：
3.7
通讯作者：
Chekouo T
中科院分区：
文献类型：
--
作者：
Lipman D;Safo SE;Chekouo T
COVID-19 是一种临床结果看似不可预测的疾病。为了更好地了解该疾病的分子特征，最近进行了一项多组学研究，该研究着眼于生物分子之间的相关性，并使用基于树的机器学习方法来预测临床结果。这项研究专门研究了入院且出现 COVID-19 或类似 COVID-19 症状的患者。在本文中，我们检查了相同的多组学数据，但我们采用了不同的方法，并确定了感兴趣的稳定分子以进行进一步的通路分析。我们对蛋白质组学、代谢组学、脂质组学和RNA测序数据使用稳定性选择、正则回归模型、富集分析和主成分分析，确定了疾病严重程度和疾病状态的关键分子和生物学途径。除了个体组学分析之外，我们还执行稀疏多重典型相关分析的综合方法来分析不同数据视图的关系。我们的研究结果表明，COVID-19 状态与细胞周期和死亡以及炎症反应有关。这种关系反映在所分析的所有四组分子中。我们进一步观察到，代谢过程，特别是与维生素吸收和胆固醇有关的过程与 COVID-19 的状态和严重程度有关。
COVID-19 is a disease characterized by its seemingly unpredictable clinical outcomes. In order to better understand the molecular signature of the disease, a recent multi-omics study was done which looked at correlations between biomolecules and used a tree- based machine learning approach to predict clinical outcomes. This study specifically looked at patients admitted to the hospital experiencing COVID-19 or COVID-19 like symptoms. In this paper we examine the same multi-omics data, however we take a different approach, and we identify stable molecules of interest for further pathway analysis. We used stability selection, regularized regression models, enrichment analysis, and principal components analysis on proteomics, metabolomics, lipidomics, and RNA sequencing data, and we determined key molecules and biological pathways in disease severity, and disease status. In addition to the individual omics analyses, we perform the integrative method Sparse Multiple Canonical Correlation Analysis to analyse relationships of the different view of data. Our findings suggest that COVID-19 status is associated with the cell cycle and death, as well as the inflammatory response. This relationship is reflected in all four sets of molecules analyzed. We further observe that the metabolic processes, particularly processes to do with vitamin absorption and cholesterol are implicated in COVID-19 status and severity.
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