Table 4

Results of the module search algorithm on the parameter sets found in Table 3
Set No. No. of KEGG No. of modules Average No.
pathways with Allb Significantc Non-redundantd of modules
modules a per pathwaye
1 3 5 5 5 1.66
2 72 957 375 278 3.86
3 25 290 162 122 4.88
4 69 934 434 306 4.43
5 45 514 202 143 3.17

The parameter sets 1-5 are listed in Table 3 and described in the Methods section. aThe number of pathways for which significant modules (p-value<0.0001) were found; bThe number of modules found by the enumeration algorithm in the pathways counted in a; cThe number of modules with p-value<0.0001 among the modules in b; dThe number of non-redundant modules among the modules in c. A module is considered to be redundant, if there is another module in the same pathways which is identical to it in gene and miRNA content, except for a variation of up to one gene or one miRNA; eThe average number of non-redundant modules for the pathways in a. Note that set number 1 corresponds to the results of running the algorithm of [15] on the datasets in this paper.

Veksler-Lublinsky et al.

Veksler-Lublinsky et al. BMC Bioinformatics 2012 13:322   doi:10.1186/1471-2105-13-322

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