Fig. 3

Quality control of RNA-seq transcriptomics data presented in box plot before differentially expressed gene analysis in S. aureus exposed to tonsillar cells. The three biological replicates consist of S. aureus only 3 h (C3h), S. aureus exposed to tonsillar cells 1 h (T1h) and S. aureus exposed to tonsillar cells 3 h (T3h). There were two replicates for S. aureus only 1 h (C1h), as one sample was lost under preparation ahead of RNA-seq. The DESeq2 uses the median of ratio method for normalizing the counts and is depicted in log2 fold change. A: The distribution of raw counts before normalization. B: The counts after performing DESeq2 normalization