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Supplementary material
Supplementary Table 1 – The cytokinesis cofactor profile. The table shows all genes that are a)
induced (log2(fold change) > 0.7) in swi2, snf1 (in minimal media) and bur6 (YPD) b) repressed
(log2(fold change) < -0.9) in rsc3 and c) not significantly responding (-1 < log2(fold change) < 1) in
rsc30. Only 18 genes satisfy this criterion, eight of which belong to module #126 and three are cell
wall associated. Out of the remaining eight genes, six are structural enzymes in glycogen or related
metabolism and two are uncharacterized.
Supplementary Figure 1 – Joint distribution of the number of genes and properties in
modules. The graph shows the fraction of modules with particular numbers of genes and
properties. We used logarithmic size bins.
Supplementary Figure 2 – Correlation of module #232 (Ribosomal Proteins) and module #524
(RNA processing). The graph shows the mean expression of the two modules across more than
1500 gene expression profiles.
Supplementary Figure 3 – Correlation between expression of the HAP4 gene and of the Hap4regulon. The graph shows the expression of the HAP4 gene and the mean expression of module
#536 across more than 1500 gene expression profiles.
Supplementary Figure 4 – Hog1-Ssk1 dependent repression of module #524. We plot the
change in expression of all the genes in module #524 (RNA processing) in the wt strain (X axis)
and in the hog1, ssk1 and ste11 strains (Y axis), 20 minutes after treatment in KCl. The strains that
disrupt the osmotic stress-specific signaling pathway (ssk1, hog1) exhibit reduced repression in
both high (a) and low (b) KCl doses. The ste11 strain behaves similarly to the wildtype.
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Supplementary table 1
Gene
Process
DSE1
DSE3
DSE2
AMN1
EGT2
CTS1
BUD9
SCW11
YRO2
WSC4
YGP1
ENO1
TDH1
PGM2
GSY2
GCV1
ADE17
YER067W
YOL106W
Mod #126
Mod #126
Mod #126
Mod #126
Mod #126
Mod #126
Mod #126
Mod #126
cell wall
cell wall
cell wall
glycolysis
glycolysis
glycogen
glycogen
glycogen
purines
unknown
unknown
snf1
minimal
media
2.44
0.88
1.83
1.42
1.75
1.37
0.85
2.22
3.72
2.53
1.96
0.96
1.69
0.86
1.69
1.26
0.77
1.29
1.63
swi2
minimal
media
2.24
0.78
1.60
1.13
1.47
0.99
0.73
1.80
3.86
2.42
2.03
1.11
1.54
0.92
1.19
1.57
0.84
1.31
1.54
3
rsc3
rsc30
bur6
-2.42
-1.88
-2.75
-1.97
-1.18
-1.55
-0.92
-2.74
-2.04
-1.57
-1.30
-1.55
-2.74
-2.16
-1.55
-2.14
-1.35
-1.66
-1.79
-0.22
0.38
0.41
0.01
-0.80
-1.00
0.05
-0.26
-0.74
0.48
-0.32
-0.62
-0.59
-0.61
-0.75
0.76
0.52
-0.61
-0.54
0.79
1.11
1.33
0.99
1.01
1.58
1.24
0.84
1.23
1.58
1.01
0.78
2.13
4.35
2.21
1.70
1.51
2.83
1.43