Table 2

Paired datasets of S. bayanus and S. cerevisiae for condition-specific LNS calculation
S. bayanus dataset S. cerevisiae dataset Number of diverged genes (lower than average of randomization, cutoff) P -value Median LNS
MMS [51] 1498 (−0.02515) 1.67E-153 0.2348
Heat shock [52] 1032 (−0.00467) 4.25E-271 0.2259
Sorbitol [52] 1330 (0.00561) 3.35E-163 0.1678
Uracil [53] 1590 (0.001) 5.75443E-82 0.1031
Rapamycin [54] 1896 (−0.0101) 1.63545E-33 0.07464
Alpha factor [55] 1438 (−0.006) 5.5186E-102 0.0848
Sporulation [56] 922 (0.0038) 3.7792E-288 0.08923
Cell cycle [57] 1124 (0.0047) 1.7278E-226 0.09546
Diauxic shift [58] 947 (0.00656) 1.1322E-257 0.3741

We permuted gene-gene correlations to simulate the LNS distribution of a randomized network. The numbers of genes below the average LNS for these random networks were counted. We also calculated the p-value by randomizing the matches between orthologs to simulate non-conservation. The average LNS for each matched dataset pair was calculated.

Guan et al.

Guan et al. BMC Genomics 2013 14:33   doi:10.1186/1471-2164-14-33

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