Expression pattern of Cox-2 dependent genes. A. Two-dimensional self-ordering matrix (SOM) cluster showing relative expression level of all Cox-2 dependent genes identified in this study (p > 0.05). Up- or down-regulations are indicated by red, or blue shading respectively. Black shading indicates similar gene expression in both samples. The right panel shows the cluster derived from the gene expression pattern in NS398 treated mice (V+Hp vs NS398+Hp). The left panel shows the expression of the same genes in infected mice (unclustered). Gene functions and literature references relevant to H. pylori infection are shown in Table 3. Genes fitting the most prominent functional categories are highlighted with colour: proliferation/apoptosis (pale blue), epithelial integrity (orange), inflammatory response (red) and gastric physiology (green) B. Diagram summarizing the overall physiological effect of Cox-2 dependent genes over the period of the experiment, gene categories are coloured as in A.