Figure 6

Enrichment plots for representative gene sets in Table3. Enrichment plots for the top genes set Reactome pathway synthesis of DNA (A) and the corresponding heat map for the “leading edge genes” (B). The upper panel (A) shows a plot of enrichment scores (ES) versus rank positions of gene set members. Similar enrichment plot for the Reactome pathway triglyceride metabolism (C) and the corresponding heat map for the “leading edge genes” (D) are shown. On the horizontal axes (A and C), the genes are sorted based on expression correlation (absolute Pearson ranking metric) with PCB 153 treated samples (genes with high correlation, top ranked on the left end). The “hit” positions (vertical lines) of genes are shown on the horizontal bars colored from deep red (top rank) to light blue (lowest rank). Genes with the hits clustered before each peak constitute “leading edge” list up- or down-regulated in PCB 153 treated samples, and are shown on the heat map on the right of each plot (B and D). The heat maps show relative expression levels from deep red (highest) to dark blue (lowest) of the leading edge genes in each fish of the control, 0.5, 2 and 8 mg/kg BW PCB 153 treated groups (n = 3–4 per group) as indicated. NES, normalized ES; FDR q, False Discovery Rate q-value.