Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Nrl-/- Retinal Transcriptomes

Purpose: Next-generation sequencing (NGS) will be used to quantify whole transcriptome changes during genetic perturbations and viral infections Methods: RNA was harvested in Trizol 488 (Thermo Fisher). RNA was extracted using the manufacturer's protocol and quantified by nanodrop. PANC1 wild-type or ARID1A knockout total RNA was sequenced by The Centre for Applied Genomics (TCAG) at The Hospital for Sick Children (Toronto, Canada) using the Illumina HiSeq2500 platform to generate single-end 100 bp reads. Adapters were trimmed using Trimmomatic and adapter-free reads were mapped to the human genome (hg19). Results: We have identified ARID1A KO to make cells more suceptible to viral infection due to decreased basal level of expression of ISGs Conclusions: Our study represents the first look at the role of ARID1A in the context of viral infection. Overall design: PanC1 mRNA profile during VSV infection of WT or ARID1A KO