Figure 6
Top-scored canonical pathways of the three gene subsets obtained from the cross analysis comparing WLT (n = 996) and LCM (n = 1,204) gene lists: (A) LCM-WLT-common genes (n = 736); (B) WLT-unique genes (n = 260); (C) LCM-unique genes (n = 468). The top-scored canonical pathways of LCM-WLT-common and WLT-unique genes show a striking majority of down-regulated pathways involved in metabolic processes (A and B). In contrast, the LCM-unique genes (C) are characterized by a predominance of up-regulated pathways involving cell remodeling and cell motility. Expression of actin/cytoskeleton-, integrins-, and adherens junctions-related pathways suggests cell remodeling activity, whereas Rac- and Rho-associated pathways are indicative of increased cell motility of malignant hepatocytes. Columns (left axis) represent the percentage ratio of the number of genes in a given pathway divided by the total number of genes that make up that pathway. Green and red columns indicate down- and up-regulated genes, respectively. Blue points (right axis) display the -log of p-value calculated by Fisher’s exact test right-tailed. (Ingenuity Pathway Analysis, www.ingenuity.com). For each dataset, pathways are ordered from the most significant p-values.