“…Clustering Chemical-Genetic Profiles for Compounds with Similar Modes-of-Action and Genes with Similar Function We found that compounds with similar cellular effects showed similar chemical-genetic profiles and thereby cluster together on the vertical axis in Figure 1, revealing both anticipated and novel insights into their mode-ofaction. In particular, there are a number of examples where the cluster analysis groups compounds known to inhibit the same pathway or target (Figure 1, individual clusters indicated by roman numerals): (i) actin binding agents latrunculin B (Ayscough et al, 1997) and cytochalasin A (Torralba et al, 1998); (ii) cell wall synthesis inhibitors staurosporine, which targets Protein kinase C, a regulator of a MAP kinase cascade involved in cell wall metabolism (Yoshida et al, 1992), and caspofungin, which inhibits 1,3 b-glucan synthase (Douglas et al, 1994b); (iii) nystatin (Hosono, 2000) and amphotericin (Aoun, 2000), both of which act by increasing the permeability of the fungal cell membrane; (iv) clotrimazole and fluconazole, chemical analogs and antifungal agents that target Erg11 (Fromtling, 1988;Truan et al, 1994), a protein encoded by an essential gene in the ergosterol biosynthesis pathway; (v) radicicol and geldanamycin, although structurally unrelated, both act as highly selective inhibitors of Hsp90 function through their ability to bind within the ADP/ATP binding pocket of the chaperone (Roe et al, 1999); (vi) benomyl (Thomas et al, 1985) and nocodazole (Kunkel, 1980), two microtubule poisons; (vii) haloperidol (Moebius et al, 1996), fenipropimorph (Marcireau et al, 1990), and dyclonine (Hughes et al, 2000), are all thought to inhibit Erg2 function in yeast. Deletion mutants with similar chemical sensitivities also cluster together on the horizontal axis of Figure 1, grouping functionally related genes (Figure S1).…”