Single cell transcriptional profile of Zika-infected human primary fetal brain cells

We used single cell RNA sequencing to evaluate the transcriptional response to Zika infection in human primary fetal brain tissue. Two separate isolates of Asian-lineage Zika virus were used to infect cells, and exogenous treatment with interferon-beta was used as a control. The experimental design consisted of two virally-infected samples, each infected for 48hrs with a separate strain of Zika virus; a Brazilian isolate (BRZ) and a Cambodian isolate (FSS). As a control for viral infection, a third (MOCK) sample was treated with 5% FBS (to mimic viral inoculation medium). A fourth sample was treated with interferon beta (100 IU/mL) for six hours.