Identification of biological correlates associated with respiratory failure in COVID-19

Oh, Jung Hun; Tannenbaum, Allen; Deasy, Joseph O.

doi:10.1186/s12920-020-00839-1

Cited by 12 publications

(7 citation statements)

References 32 publications

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“…The CCR5 Δ32 variant produces a truncated protein and observably decreases receptor formulation, suppressing the immune response 82 , which may lead to increased virus susceptibility. A bioinformatics study has analysed the summary statistics of the GWAS dataset from patients with respiratory failure of COVID-19 and found that the first 10 BP involved the CCR5 83 . In an epidemiological study, CCR5 Δ32 allele frequency positively correlated with COVID-19 mortality 84 , suggesting CCR5 plays an important role in susceptibility and severity of COVID-19.…”

Section: Discussionmentioning

confidence: 99%

Potential Genes Associated with COVID-19 and Comorbidity

Feng¹,

Song²,

Guo³

et al. 2022

Int. J. Med. Sci.

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Hypertension, diabetes mellitus, and coronary artery disease are common comorbidities and dangerous factors for infection and serious COVID-19. Polymorphisms in genes associated with comorbidities may help observe susceptibility and disease severity variation. However, specific genetic factors and the extent to which they can explain variation in susceptibility of severity are unclear. Therefore, we evaluated candidate genes associated with COVID-19 and hypertension, diabetes mellitus, and coronary artery disease. In particular, we performed searches against OMIM, NCBI, and other databases, protein-protein interaction network construction, and GO and KEGG pathway enrichment analyses. Results showed that the associated overlapping genes were TLR4, NLRP3, MBL2, IL6, IL1RN, IL1B, CX3CR1, CCR5, AGT, ACE, and F2. GO and KEGG analyses yielded 302 GO terms (q < 0.05) and 29 signaling pathways (q < 0.05), respectively, mainly including coronavirus disease-COVID-19 and cytokine-cytokine receptor interaction. IL6 and AGT were central in the PPI, with 8 and 5 connections, respectively. In this study, we identified 11 genes associated with both COVID-19 and three comorbidities that may contribute to infection and disease severity. The key genes IL6 and AGT are involved in regulating immune response, cytokine activity, and viral infection. Therefore, RAAS inhibitors, AGT antisense nucleotides, cytokine inhibitors, vitamin D, fenofibrate, and vaccines regulating non-immune and immune factors could be potential strategies to prevent and cure COVID-19. The study provides a basis for further investigation of genes and pathways with predictive value for the risk of infection and prognosis and could help guide drug and vaccine development to improve treatment efficacy and the development of personalised treatments, especially for COVID-19 individuals with common comorbidities.

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Section: Discussionmentioning

confidence: 99%

Potential Genes Associated with COVID-19 and Comorbidity

Feng¹,

Song²,

Guo³

et al. 2022

Int. J. Med. Sci.

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“…Table 1 summarizes ultra-rare, rare and common human variants, haplotypes, and susceptibility gene polymorphisms detected in several studies, through various approaches [11][12][13][14][15][16][17].…”

Section: Discussionmentioning

confidence: 99%

Update on human genetic susceptibility to COVID-19: susceptibility to virus and response

et al. 2021

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“…The Mediator subunit gene MED23 has emerged before in SARS-CoV-2 screens, with a critical role of this complex during infection and death suggested [77]. GATA4 has been observed previously in the context of the top significant biological processes likely associated with respiratory failure in COVID-19 patients [78].…”

Section: Ratio Testmentioning

confidence: 88%

Cross-GWAS coherence test at the gene and pathway level

Krefl

Bergmann

2021

Preprint

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We devise a significance test for covariance of samples not drawn independently, but with known inter-sample covariance structure. The test distribution we propose is a linear combination of χ2 distributions, with positive and negative coefficients. The corresponding cumulative distribution function can be efficiently calculated with Davies algorithm at high precision. As an application, we propose a test for dependence between SNP-wise effect sizes of two genome-wide association studies at the level of genes. The test can be extended to detect gene-wise causal links. We illustrate this method by uncovering potential shared genetic links between severity of Covid-19, taking of class M05B medication (drugs affecting bone structure and mineralization), Vitamin D (25OHD) and Calcium concentrations. In particular, our method detects a potential role played by chemokine receptor genes linked to TH1 versus TH2 immune reaction, a gene related to integrin beta-1 cell surface expression, and other genes potentially impacting severity of Covid-19.

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Identification of biological correlates associated with respiratory failure in COVID-19

Cited by 12 publications

References 32 publications

Potential Genes Associated with COVID-19 and Comorbidity

Potential Genes Associated with COVID-19 and Comorbidity

Update on human genetic susceptibility to COVID-19: susceptibility to virus and response

Cross-GWAS coherence test at the gene and pathway level

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