Differential Analysis of Gene Expression in Nervous System Cells Infected with La Cross Virus Based on Single Cell Sequencing Data
Objective To analyze the expression differences of related genes in different subsets of human brain organoid cells infected by La Cross virus(LACV),and to reveal the transcriptome characteristics between different subsets.Methods The single-cell transcriptome data numbered GSE131434 in the GEO database was selected,including two samples,one for simulated COs infection as a negative control group,and one for COs infected by LACV.The R language"seurat"package was used to filter,normalize,principal component analysis,and UMAP cluster analysis of the data to find COs subsets.Gene annotation was performed by the"SingleR"package,and cell communication was analyzed by the"iTALK"package.Enrichment analysis of differential genes was performed by"clusterProfile"package,and then PPI network was constructed to screen key genes.Results Single-cell sequencing data analysis showed that infected COs could be divided into 7 cell subsets and 3 cell types,including plasmacytoid dendritic cells,progenitor cells,and myeloid dendritic cells.Cell communication mainly occurs between progenitor cells and plasmacytoid dendritic cells,especially in APOE-LDLR ligands and receptors.The differential genes of the samples were mainly enriched in the processes of translation initiation,mRNA and RNA decomposition,ribosome,etc.,which were related to the signaling pathways of coronavirus infection,Parkinson's disease and other diseases.The four key genes were RPS27A,UBA52,RPLP0 and RPL13A.Conclusion The differential expression of key genes in human brain organoid cells infected with La Cross virus and the cell communication involving APOE-LDLR may play a key role in the infection process,which provides important clues for future research.
La Crosse virusSingle cell sequencingHuman cerebral organoids
万方数据
维普
