Fig. 4

Transcriptional changes in HBV-infected PHHs. a) Venn diagrams of RNA-seq Differentially Expressed Genes (DEGs) at 2 h (light green) and 72 h (dark green) p.i. in three independent experiments (S1 = donor 1; S2 = donor 2 and S3 = donor 3). The pipeline for the identification of Differentially Expressed Transcripts (DETs) and the definition of a unique list of Differentially Expressed Genes (DEGs) is detailed in the Supplementary information. b) Principal Component Analysis (PCA) of S1, S2 and S3 RNA-seq global transcriptomic profiles at 2 h p.i. (upper panel) and 72 h p.i. (lower panel). For each time point the reference space of the PCA has been computed using the Mock samples (blue dots, triangles and squares), following by the projection of the infected samples (red dots). At 72 h p.i. we can appreciate a more evident clustering of the transcriptomic profiles upon HBV infection (red dots, triangles and squares). c) KEGG pathways (Release 86.1; yellow bars) and HALLMARK MSigDB modules significantly enriched from the Differentially Expressed Genes (DEGs) at 72 h p.i. (ShinyGO 0.76 tool) are sorted by–Log (FDR) values. Fold enrichment ranks the relative number of genes included in each enriched pathway (see Table S7). d) Ingenuity Pathways Analysis (IPA) of the DEGs identified at 72 h p.i