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Table 1 Non-random distribution of stress-related genes in budding yeast

From: Non-random clustering of stress-related genes during evolution of the S. cerevisiae genome

Dataset Number of genes in dataset Number of genes in dataset within 1 kb ORC binding site(% genes in dataset) Number of genes in starvation-induced clusters (% genes in dataset) Number of genes in starvation-repressed clusters (% genes in dataset) Number of potentially silenced genes (% genes in dataset)
all genes 7104 1164 (16.4%)    
orc2-1 -induced genes 524 151 (28.8%) (+) 205 (38.9%) (+) 43 (8.0%) (-)  
potentially silenced genes 2111 431 (20.4%) (+) 644 (30.5%) (+) 238 (11.3%) (-) 2111 (100%)
Starvation and other stress-related genes
starvation-induced genes 2213 443 (20.0%) (+) 1073 (48.5%) (+) 137 (6.2%) (-) 1086 (51.4%) (+)
starvation-induced clusters 1404 323 (23.1%) (+) 1404 (100%) 32 (2.3%) (-) 644 (45.9%) (+)
starvation-repressed genes 2020 224 (12.1%) (-) 105 (5.2%) (-) 1091 (54.0%) (+) 296 (19.6%) (-)
starvation-repressed clusters 1416 185 (13.0%) (-) 32 (2.3%) (-) 1416 (100%) 238 (16.8%) (-)
starvation-induced genes† 2042 400 (20%) (+) 676 (33.1%) (+) 148 (7.2%) (-) 999 (49.0%) (+)
MMS)-induced genes 452 93 (20.6%) (+) 181 (40.0%) (+) 55 (12.2%) (-) 210 (46.4%) (+)
MMS)-repressed genes 217 33 (15.2%*) (-) 20 (9.2%) (-) 87 (40.1%) (+) 26 (12.0%) (-)
HU-induced genes 116 24 (20.5%*) (+) 41 (35.3%) (+) 14 (12.1%) (-) 62 (53.4%) (+)
HU-repressed genes 71 7 (9.8) (-) 14 (19.7%*) (-) 29 (40.8%) (+) 21 (29.6%*) (-)
H 2 0 2 -induced genes 1379 255 (18.5%*) (+) 434 (31.5%) (+) 167 (12.1%) (-) 598 (43.4%) (+)
H 2 0 2 -repressed genes 1536 235 (15.3%) (-) 224 (14.6%) (-) 457 (29.8%) (+) 479 (31.1%*) (+)
ESR-induced genes 282 63 (22.3%) (+) 123 (43.6%) (+) 14 (5.0%) (-) 153 (54.2%) (+)
ESR-repressed genes 585 75 (12.8%) (-) 14 (2.4%) (-) 322 (55%) (+) 32 (5.5%) (-)
Essential growth genes and genes required for stress resistance in cycling cells
Genes essential for growth 1106 130 (11.8%) (-) 106 (9.6%) (-) 355 (32.1%) (+) 161 (14.6%) (-)
MMS-resistance 103 11 (10.7%) (-) 6 (5.8%) (-) 20 (19.4%*) (-) n.d.
Camptothecin resistance 83 8 (9.6%) (-) 7 (8.4%) (-) 14 (16.9%*) (-) n.d.
HU-resistance 136 13 (9.6%) (-) 9 (6.6%) (-) 28 (20.6%*) (+) n.d.
H 2 0 2 -resistance 123 15 (12.2%) (-) 13 (10.6%) (-) 24 (19.5%*) (-) n.d.
Oxidative stress resistance 685 87 (12.8%) (-) 95 (13.9%) (-) 158 (23.0%*) (+) n.d.
UV-resistance 307 34 (11.1%) (-) 30 (9.8%) (-) 56 (18.2%) (-) n.d.
All stress-resistance 974 115 (11.8%) (-) 129 (13.2%) (-) 208 (21.3%*) (+) 251 (25.8%) (-)
Slowly and rapidly evolving paralogues
slowly evolving paralogues 115 15 (13.0%) (-) 22 (19.1%*) (-) 34 (29.6%*) (+) 19 (16.5%) (-)
rapidly evolving paralogues 115 26 (22.6%) (+) 30 (26.0%*) (+) 16 (13.9%) (-) 57 (49.6%) (+)
  1. (+) indicates more than expected by chance (-) indicates less than expected by chance n.d. = not determined
  2. *denotes values that are not significantly different compared to values expected by chance. All other values are statistically significant (p ≤ 0.05).
  3. †Starvation-induced dataset from Radonjic et al. [3] – other starvation datasets are from Gasch et al. (2000) [1]. Additional information for datasets is provided in Materials and Methods.