Figure 2

Self-organizing map (SOM) analysis of microarray expression data in the LacIv- fos system during morphological transformation and reversion. (A) Results of SOM analysis of genes depicting co-regulated clusters of genes across the seven time points throughout v-Fos mediated morphological transformation and reversion. Genes whose expression did not change significantly across time points were eliminated by using a variance filter (see Methods). The 3766 probe sets (out of a possible 8799) that passed the variation filter were grouped into 18 clustered patterns. Blue bars at the top of each graph represent the relative number of probe sets included within the SOM bin. (B) A gene-expression heat map of genes within group 8. This bin represents genes dramatically upregulated specifically during the 72 hour v-Fos transformation period (-IPTG). (C) Gene-expression heat map of genes within group 11. This bin represents genes displaying sustained downregulation during the 72 hr v-Fos transformation period (+ITPG). Red signal represents upregulated genes and green represents downregulated genes. (D-E) Normalized expression values of all genes within group 8 (D) or group 11 (E) are plotted to demonstrate the reliability of the representative SOM patterns shown in panel A.