Analysis of Roquin targetome during HCMV infection

To investigate how Roquin regulates cellular transcripts during Human cytomegalovirus (HCMV) infection, we examined the levels of cellular transcripts in cells treated control or Roquin-targeting siRNA during HCMV replication. Also, we performed Roquin crosslinking and immunoprecipitation followed by high-throughput sequencing (Roquin CLIP-seq) in HCMV-infected cells to identify which transcripts are directly bound by Roquin. Human fibroblasts (HFFs) were treated with control siRNA (siCon) or two different Roquin-targeting siRNAs (siRoq), and RNA-seq was performed in in uninfected cells (NI) or at 6, 24, or 72 hours post-infection (hpi). CLIP-seq was performed in uninfected or infected cells at 24 and 72 hpi using two different antibodies against Roquin.