title: RNA-Seq of A549 cell cultures either mock, acute, or persistently infected with Parainfluenza Virus Type 5.
design: Cells were seeded in six cm diameter dishes and treated as indicated in figure legends. At 18 hpi, total RNA was extracted using the RNeasy Plus Mini Kit (QIAGEN, Germantown, MD, USA) as per manufacturers instructions and subsequent quality control was performed using Nanodrop (Thermo Scientific) to ensure A260/280 ratio of ~ 2.0. RNA samples were then diluted to 50 ng/ml and shipped to Genewiz (South Plainfield, NJ, USA) for RNA-Sequencing. RNA (1.5 g) was used to select polyadenylated RNA sequencing libraries with the Illumina RNA prep kit. RNA integrity, library size, and concentrations were evaluated on the Agilent TapeStation and with the Qubit instrument (LifeTech) according to GeneWiz specifications. Libraries were then sequenced on an Illumina HiSeq 2500 2 x 150 bp with a single index and paired-end reads were generated.