series7_GSE147507 : SARS-CoV-2 (USA-WA1/2020) viral gene expression from infected (MOI 2.0) Calu3 Cells

RNA-Seq reads (FASTQ) of biological triplicates from Calu3 cells infected with SARS-CoV-2 (USA-WA1/2020, MOI 2.0) (series7_GSE147507) were downloaded from NCBI SRA, and data analysis was performed using CLC Genomics workbench (CLC v20). The reads were first aligned to the human genome (hg38) with annotations (Ensemble v91), and then all unmapped reads were aligned to the SARS-Cov-2 reference genome NC_045512. The expression of each virus gene is quantified and reported as total counts and transcripts per million (TPM).