“…In a recent study, Fossat et al. 18 utilized covalent ligation of endogenous Argonaute-bound RNAs (CLEAR)-cross-linking immunoprecipitation (CLIP) to directly map viral and cellular microRNA interactions during SARS-CoV-2 infection in cultured cells. We utilized their publicly deposited data to further analyze the interactions of CoV2-miR-O8 with human RNA sequences.…”
Section: Resultsmentioning
confidence: 99%
“…To examine the potential nature of this mechanism RNAhybrid analyses were undertaken and predicted highly stable hybrid interactions between these human microRNAs and CoV-miR-O8 ( Figure 4 C). A functional enrichment analysis of the targets of the human microRNAs shown to interact with CoV2-miR-O8-5p in the Fossat CLEAR-CLIP data 18 was performed ( Figure S5 ) and interestingly the second most significant enrichment was with ‘viral process’. Figure 4 CoV2-miR-O8 targets host microRNA and mRNAs in COVID-19 infected patients Analysis of miR-O8-5p in CLEAR-CLIP data from COVID-19-infected cells.…”
Section: Resultsmentioning
confidence: 99%
“…The existence of chimeric sequences containing both CoV2-miR-O8 and human microRNA sequence in the CLEAR-CLIP experiments undertaken by Fossat et al. 18 in two different types of SARS-CoV-2 infected cells provides more direct evidence for association between these RNAs. However, it is not possible to discern whether this is due to interaction of these mammalian miRNA sequences and the SARS-CoV-2 RNA encoding CoV2-miR-O8, or whether CoV2-miR-O8 could be acting as a decoy for these microRNAs.…”
Section: Discussionmentioning
confidence: 96%
“…To analyze the CLEAR-CLIP data for miR-O8-5p from the study by Fossat et al., 18 raw sequencing files from A549hACE2 and VeroE6 cells infected with SARS-CoV-2 were obtained from GSE201894 ( https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE201894 ). Adapters were trimmed using the FASTX-Toolkit (fastx_clipper), and unique molecular identifiers (UMIs) were collapsed using BBMap (clumpify).…”
“…In a recent study, Fossat et al. 18 utilized covalent ligation of endogenous Argonaute-bound RNAs (CLEAR)-cross-linking immunoprecipitation (CLIP) to directly map viral and cellular microRNA interactions during SARS-CoV-2 infection in cultured cells. We utilized their publicly deposited data to further analyze the interactions of CoV2-miR-O8 with human RNA sequences.…”
Section: Resultsmentioning
confidence: 99%
“…To examine the potential nature of this mechanism RNAhybrid analyses were undertaken and predicted highly stable hybrid interactions between these human microRNAs and CoV-miR-O8 ( Figure 4 C). A functional enrichment analysis of the targets of the human microRNAs shown to interact with CoV2-miR-O8-5p in the Fossat CLEAR-CLIP data 18 was performed ( Figure S5 ) and interestingly the second most significant enrichment was with ‘viral process’. Figure 4 CoV2-miR-O8 targets host microRNA and mRNAs in COVID-19 infected patients Analysis of miR-O8-5p in CLEAR-CLIP data from COVID-19-infected cells.…”
Section: Resultsmentioning
confidence: 99%
“…The existence of chimeric sequences containing both CoV2-miR-O8 and human microRNA sequence in the CLEAR-CLIP experiments undertaken by Fossat et al. 18 in two different types of SARS-CoV-2 infected cells provides more direct evidence for association between these RNAs. However, it is not possible to discern whether this is due to interaction of these mammalian miRNA sequences and the SARS-CoV-2 RNA encoding CoV2-miR-O8, or whether CoV2-miR-O8 could be acting as a decoy for these microRNAs.…”
Section: Discussionmentioning
confidence: 96%
“…To analyze the CLEAR-CLIP data for miR-O8-5p from the study by Fossat et al., 18 raw sequencing files from A549hACE2 and VeroE6 cells infected with SARS-CoV-2 were obtained from GSE201894 ( https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE201894 ). Adapters were trimmed using the FASTX-Toolkit (fastx_clipper), and unique molecular identifiers (UMIs) were collapsed using BBMap (clumpify).…”
“…This miRNA has recently been found to specifically interact with one of the six regions on the viral RNA that are primarily bound by specific miRNAs, and its level has been found to be increased in hospitalized COVID-19 patients as well [49,50]. Likewise, the top identified TFs, such as STAT3, showed the highest number of published evidence for both diseases.…”
Section: Data Mining Approach For Validating Association Of Identifie...mentioning
Cognitive decline has been reported as a common consequence of COVID-19, and studies have suggested a link between COVID-19 infection and Alzheimer's disease (AD). However, the molecular mechanisms underlying this association remain unclear. To shed light on this link, we conducted an integrated genomic analysis using a novel Robust Rank Aggregation method to identify common transcriptional signatures of the frontal cortex, a critical area for cognitive function, between individuals with AD and COVID-19. We then performed various analyses, including the KEGG pathway, GO ontology, protein-protein interaction, hub gene, gene-miRNA, and gene-transcription factor interaction analyses to identify molecular components of biological pathways that are associated with AD in the brain also show similar changes in severe COVID-19. Our findings revealed the molecular mechanisms underpinning the association between COVID-19 infection and AD development and identified several genes, miRNAs, and TFs that may be targeted for therapeutic purposes. However, further research is needed to investigate the diagnostic and therapeutic applications of these findings.
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