In the RP11-114F3.5:CRLF2 pair, the CRLF2 gene shows a >2-fold downregulation 12 h post-infection, followed by an increase in gene expression at 24 h (as reflected by the “on” signal in all six transcriptomic comparisons at 24 h post-infection), leading to a >8-fold increase in expression in infected cells seven days post-infection (Table 4). Here, CRLF2 is linked to infection.