Figure 5.

Analysis tools available in scMOVIR. (A) Viral Infection Gene Signature Analysis assesses associations between user-defined gene sets and viral infection-related diseases or phenotypes. Given an input gene list (e.g. inflammatory cytokines IL6, IL1B, TNF, CXCL10, CXCL9, CCL2), enrichment analysis across viral datasets is performed using Fisher’s exact test. The output comprises a gene–virus association map, an enrichment overview stratified by disease state, and differential expression statistics, thereby enabling the identification of infection-associated signatures and facilitating cross-dataset comparisons. (B) Integrated Viral Infection Atlas aggregates large-scale, patient-derived single-cell RNA sequencing datasets to delineate immune cell remodeling and transcriptional dynamics during viral infection. Using HIV as an example, disease annotations from all related experiments are harmonized, and the scVI model is applied to construct a reference framework anchored to healthy controls. The output provides cell type annotations, cell composition profiles, differential gene expression, and pathway enrichment analyses, offering mechanistic insights into specific virus–host interactions.