Table 3.

The 58 Predictions That Could Be Validated by YPD of the 100 Strongest Functional Relationships Detected by NMF

Coregulated
dfr1	ecm34
gyp1	yap7
ade16	sir1
hpt1	sir1
rml2	ymr293c
cbp2	mrpl33
mrpl33	rml2
cnb1	yor072w
ade16	ymr041c
gfd1	utr4
cla4 (haploid)	KAR2 (tet promoter)
yel001c	ymr141c
ckb2	gcn4
arg5,6	rpl8a
mrt4	rpl12a
clb6	whi2
erp2	ymr141c
erp2	yel001c
erp2	yor015w
rpl12a	yel033w
ckb2	rtg1
eca39	ras1
Identical Genes
isw1	isw1, isw2
dig1, dig2	dig1, dig2 (haploid)
fks1 (haploid)	FKS1 (tet promoter)
bub3	bub3 (haploid)
Binding
cla4 (haploid)	CDC42 (tet promoter)
qcr2 (haploid)	rip1
far1 (haploid)	ste4 (haploid)
bub1 (haploid)	bub3
bub1 (haploid)	bub3 (haploid)
Cell Wall
fks1 (haploid)	2-deoxy-D-glucose
2-deoxy-D-glucose	Glucosamine
gas1	Tunicamycin
fks1 (haploid)	Glucosamine
yer083c	Tunicamycin
ste12 (haploid)	ste5 (haploid)
Mating
ste5 (haploid)	ste7 (haploid)
fus3, kss1 (haploid)	ste5 (haploid)
ste18 (haploid)	ste5 (haploid)
ste12 (haploid)	ste18 (haploid)
ste18 (haploid)	ste7 (haploid)
fus3, kss1 (haploid)	ste18 (haploid)
fus3, kss1 (haploid)	ste7 (haploid)
fus3, kss1 (haploid)	ste12 (haploid)
ste12 (haploid)	ste7 (haploid)
Ergosterol Pathway
erg3 (haploid)	Itraconazole
erg2	Itraconazole
yer044c (haploid)	ERG11 (tet promoter)
ERG11 (tet promoter)	Itraconazole
erg3 (haploid)	ERG11 (tet promoter)
erg3 (haploid)	yer044c (haploid)
erg2	erg3 (haploid)
erg2	yer044c (haploid)
erg2	ERG11 (tet promoter)
Vacuolar ATPase
cup5	mac1
mac1	vma8
cup5	vma8

Coregulated genes were found to be coregulated by other functional genomics studies. Binding refers to genes whose proteins have been shown to bind each other. Cell Wall, Mating, and Ergosterol Pathway are all genes that have been experimentally shown to be involved in the named cellular function