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Table 3 Composition of the C. elegans superimposed network

From: A global analysis of genetic interactions in Caenorhabditis elegans

Network Links Nodes Supported links Genetically supported links (A) Genetically supported links (B) Physically supported links Coexpression supported links Co-phenotype supported links
Superimposed network 75,283 7,825 929 (7.2) NA NA NA NA NA
SGI 1,246 461 63 (2.0) 43 (1.6) 53 (1.8) 9 (5.6) 2 (9.0) 4 (5.9)*
Lehner 341 161 25 (5.5) 13 (10.8) 23 (7.3) 3 (22.7) 1 (17.9) 1 (30.3)
Fine genetic interactions 2,279 1,022 152 (4.6) NA 48 (1.7) 61 (27.8) 23 (36.1) 22 (20.2)
Transposed SGA 7,527 426 66 (2.3) 5 (4.5) 5 (3.2)* 43 (2.2) 14 (3.0) 4 (1.3)*
Interolog 12,796 4,339 723 (9.9) 61 (27.8) 110 (4.8) NA 577 (14.6) 42 (3.9)
C. elegans protein interaction 3,967 2,624 27 (3.7) 7 (10.6) 10 (4.2) NA 13 (3.8) 5 (3.4)*
Eukaryotic coexpression 43,363 5,232 695 (11.8) 23 (36.1) 40 (7.2) 577 (14.6) NA 84 (6.1)
C. elegans co-phenotype 8,862 913 153 (5.2) 22 (20.2) 30 (6.1) 42 (3.9) 84 (6.1) NA
  1. The supported links column gives the number of links supported by other data within the superimposed network. The fold-enrichment over the average number obtained from 1,000 randomly permuted superimposed networks (representation factor) is given in brackets. Genetically supported links (A) refers to the number of links supported by fine genetic analysis reported in WormBase (release 170). Genetically supported links (B) refers to the number of links supported by genetic interactions reported in WormBase (release 170), Lehner et al. [24] or SGI. Physically supported links refers to the number of links supported by eukaryotic physical interactions (interologs; see text for details). Coexpression-supported links refers to the number of links supported by eukaryotic mRNA coexpression analysis (see text for details). Co-phenotype-supported links refers to the number of links supported by C. elegans co-phenotype correlations (see text for details). Unless followed by an asterisk, P values of the representation factor < 10-4. NA, not applicable.