Table 1

Strain divergence in modular coexpression structure.

Diameter (%)

Sig. modules (%)

Overlap (% of diameter)

Excess %


25 (0.4)

1507.3 (24.8)

1.2 (4.8)

4.39

100 (1.6)

1645.7 (27.0)

10.6 (10.6)

8.96

500 (8.2)

3220.4 (52.9)

88.0 (17.6)

9.38

880 (14.5)

3389.2 (55.7)

215.6 (24.5)

10.03

1314 (21.6)

3625.3 (59.6)

408.6 (31.1)

9.49

2500 (41.1)

3972.1 (65.3)

1207.5 (48.3)

7.20


A module is defined for every gene as the set of its k top correlating genes by Pearson correlation of temporal expression profiles, where k is the diameter, shown as number of genes and as genome-wide proportion (of 6,082 genes). Sig. modules reports the number and percentage of significant gene modules (P < 1/250) averaged over all pairs of strains. Overlap reports the number of genes overlapping for a given module between a pair of strains, at the specified diameter k, averaged over all significant modules and all pairs of strains. This is also shown in parentheses as a percentage of diameter. Excess shows the excess percentage of overlap compared to random expectation using binomial sampling. The excess percentage averaged over all k is 8.24%.

Simola et al. Genome Biology 2010 11:R105   doi:10.1186/gb-2010-11-10-r105

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