Figure 2

Hierarchical cluster analysis of gene expression in U373 cells after TNF treatment. The Gene expression matrix for the cluster algorithm contains the log-transformed medians of normalized ratios. Upregulated genes are depicted in shades of red, downregulated genes in shades of green. Each row represents the color coded expression of one gene at indicated time points after TNF treatment (columns). Genes with similar expression patterns are clustered together (dendrogram on the right). Clusters selected for further analysis are color coded in the dendrogram on the right. Fold changes, annotation and data used for clustering are presented in supplementary table 1 (supp_table1_cluster).