Using infection of human cerebral organoids to assess protein changes, we show CMV infection dysregulates localisation and expression of DYRK pathway (DYRK1A, DYRK1B) and SHH pathway (Shh morphogen, Gli2 transactivator, ULK3 kinase, and Rb tumor suppressor protein) proteins. This evidence concerns the gene SHH and cytomegalovirus infection.