RNA-Seq of Hepa1-6 cells: wildtype 3
Paired-end sequence files (fastq) were mapped to the reference genome using Hisat2 (Hierarchical Indexing for Spliced Alignment of Transcripts, version 2.0.5).The output SAM (sequencing alignment/map) files were converted to BAM (binary alignment/map) files and sorted using SAMtools (version 1.3.1).Gene abundance was expressed as fragments per kilobase of exon per million reads mapped (FPKM).Stringtie software was used to count the fragment within each gene, and TMM algorithm was used for normalization.Differential expression analysis for mRNA was performed using R package edgeR. Differentially expressed RNAs with |log2(FC)| value >1 and q value <0.05, considered as significantly modulated, were retained for further analysis.