Project description:Genome wide RNA-Seq screen was did to detect gene expression of HSV-1 and Hela . We constructed a HeLa cell line that stably expresses the plasmids of SAFA or SAFA-ADAR1 catalytic domain(SAFA-ADAR1cd) or SAFA-ADAR1 catalytic domain E488Q(SAFA-ADAR1cd E488Q) . The RNAs were harvested followed by RNA sequencing to identify the edited RNA.
Project description:We found that the germline transcription factor double homeobox 4 (DUX4) is upregulated upon infection with wild-type herpes simplex virus-1 (HSV-1). The goal of this experiment was to compare the cellular transcriptome of HEK293T cells that were infected with HSV-1 (KOS strain), or transfected with a plasmid encoding human DUX4.
Project description:wild-type and safa-/- THP-1 cells, or Flag-SAFA and Flag-Del-RGG stable expressed SAFA-/- cells were infected with VSV for 24 hours, samples were collected and send for RNA-seq.
Project description:Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is an emerging and highly pathogenic coronavirus that causes coronavirus disease (COVID-19), and might even lead to death. The long terminal repeat of the endogenous retrovirus (LTR ERVs), a type of mammalian genome elements derived from ancient viruses which infected the host and now accounts for 8% of human genome, are implicated in multi viral pathogenesis and host immune responses. However, their expression patterns and functions during SARS-CoV-2 infection still remain to be uncover. We first identified that SARS-CoV-2 infection could upregualted the expression of TEs and ERVs from the published RNA-seq data. Then in this study, we also conducted the genome-wide analysis of ERVs from wild-type mice Bone Marrow Derived Macrophages (BMDMs) after VSV and HSV infection. Collectively, these results provides the first glimpse into the expression patterns and potentail roles of ERVs after viral infection, and would serve as a valuable resource for future studies on SARS-CoV-2 infection and pathogenesis.
Project description:Genome wide RNA-Seq screen was did to detect gene expression. We used immortalized bone-marrow-derived macrophages cells that were uninfected or infected with HSV-1 for 6 hours to detect the expression levels of genes, and we found that interferon stimulated genes were increased and some of genes that inhibit interferon production were decreased in HSV-1 infected iBMDMs, compared to wild-type iBMDMs. we choose some genes that are unknown about their functions on antiviral innate immunity, and adress how they participate in antiviral innate immunity.