Cluster Analysis of Tumor Gene Expression Data at 25 Weeks

1. Looking only at 25-week data • Hierarchical clustering -> two clusters which are up (yellow) in KO tumor and not (blue) in WT tumor. • Select 389 genes (marked in green in the heat maps) • Use k-means clustering to identify profiles of interest (eg differing between WT and KO tumor) -> three sets of genes (see cluster profiles)

6. Arrangement for k-means clustering WT KO T Uninv MCA T T Uninv MCA

8. Similar to “up in WT tumor”

9. Anticorrelated with “up in wt tumor”

10. Similar to “up in KO tumor”

11. UKT

12. UKT

13. DWT

14. DWT

15. UWT

16. UWT