Fig. 3
Elevated snoRNA Expression as a Possible Viral-specific Mechanism of Lymphomagenesis. (A) Area proportional Venn diagram highlighting the number of differentially expressed (DE) snoRNAs among chronically infected groups. (B) Volcano plot of upregulated DE snoRNAs. Comparison groups with the highest number of DE snoRNAs are shown. Number of snoRNAs per group indicated in legend. Fold change and p-value cutoffs for differential expression indicated on x-axis and y-axis, respectively (dashed and dotted lines). Specific snoRNAs of interest are labeled and indicated with colored shapes. (C) Manual classification of DE snoRNA host gene function. (D) Violin plot of gene expression correlation (Pearson r) between DE snoRNAs and their corresponding host gene. Host genes are grouped by their function. Red circles indicate snoRNA-host gene pairs where the host gene is also differentially expressed. Plots show median (dashed line) and 25th and 75th percentiles (dotted lines). (E) Significantly enriched GO terms from transcriptome-wide analysis of genes whose expression highly correlates (Pearson r > 0.7) with at least one DE snoRNA. GO terms listed on the y-axis and color coded based on related function. Bars indicate enrichment ratio (top x-axis), and circles indicate p-value (bottom x-axis). (F) DE status of genes correlated with at least one of the DE snoRNAs identified in our study. DE, differentially expressed; FDR, false discovery rate; HD, healthy donor; lncRNA, long non-coding RNA; RBF, ribosome biogenesis factor. p < 0.0001, ****.
