CD4 and HIV infectious disease: Based on cell type, gene and functional enrichments, we summarize the shared (≥2 participants) immune responses with sustained gene expression over the course of the first month of HIV infection, their potential drivers and putative cell–cell signaling, emphasizing CD4+ T cells, which was the only cell type expressing genes downstream of proinflammatory cytokines (Fig. 3j,k and Extended Data Fig. 7b).