Figure 3

Screenshot of the 'Cluster' graphical display of TRAM software (detail). Two example clusters, identified by default analysis of the biological model (Table 1) described in the text, are shown. The length of each horizontal bar is proportional to the mean 'A'/'B' ratio gene expression across all samples. Bar red colour indicates gene over-expression according to set criteria. Genes without associated expression values in the samples are shown but are not considered in the cluster construction. 'Gap' parameter was set equal to 1, so a maximum of one not over-expressed gene (hot pink colour bar) may separate two consecutive over-expressed genes. The cluster mean expression value, derived from all genes included in each cluster, is shown. The number of data points from which each value was derived, p-, q-value and length for each over/under-expressed cluster are also calculated (not shown here).