Figure 3.

Chemokines are up-regulated in tumors with ectopic lymph node structures. A: Heat map of mean-centered intensities, averaged within each probe set across all tumors shown. For each gene, a single representative probe set with the highest dynamic range across all profiled samples was picked up from all probe sets that mapped to a given gene symbol. Genes are clustered using Pearson's correlation distance metric; tumors are clustered using Euclidean distance metric. Ward's linkage criterion was applied for both tumors and genes. Along the y axis, red versus blue identifiers indicate CRCs with versus without lymphoid structures. B: Hierarchical clustering of tumors with and without lymphoid structures was done on a selected set of known chemokines. The chemokine score is the mean value of chemokines as averaged across all probe sets shown for the heat map.