RIGI and infection: Compared to pre-infection, the 1 week post-infection sample showed strong upregulation of interferon (IFN)-stimulated genes (ISGs; including GBP3, MX2, DDX58, and APOBEC3B) and pro-inflammatory chemokines CCL8 and CXCL10, as well as platelet markers PPBP, ALAS2, CAVIN2, and PRR35. This sample also showed downregulation of cell type-specific marker genes including CCR7, CD8B, GZMK, and CD14, suggestive of a composition shift with decreased monocytes and lymphocytes and increased platelets (Additional file 1: Fig. S3).