Table 1

Logistic regression coefficients with metabolic and physical interactions

Input

Intercepts

Coefficients

R² value

CoExp

Metabolic

-5.01*

2.44*

0.00766

Physical

-8.82*

7.25*

0.0588

ChIP-chip

Metabolic

-3.37*

0.568^†

0.000603

Physical

-4.95*

2.11*

0.00666

ChIP-chip*CoExp

Metabolic

-4.32*

5.02*

0.0246

Physical

-6.39*

9.17*

0.0745

CoExp4Sp

Metabolic

-2.32*

2.36^†

0.00706

Physical

-2.97*

6.33*

0.0546

CoExp2Sp

Metabolic

-4.02*

2.55*

0.00594

Physical

-8.16*

10.5*

0.103

CoExpPar

Metabolic

-2.62*

-2.07*

0.00484

Physical

-7.48*

6.17*

0.0373

GenNeigh

Metabolic

-2.69*

2.96*

0.0280

Physical

-5.65*

6.20*

0.219

CoOcc

Metabolic

-1.71*

1.49*

0.0223

Physical

-3.69*

3.27*

0.120

GenInt

Metabolic

-4.18*

4.06*

0.0120

Physical

-3.16*

11.3*

0.113

Y2H

Metabolic

-3.35*

-3.89*

0.106

Physical

-2.30*

4.29*

0.119

TAP-tag Gavin

Metabolic

-3.85*

-0.153

1.87e-06

Physical

-10.3*

24.5*

0.298

TAP-tag Krogan

Metabolic

-3.68*

0.0350

9.19e-08

Physical

-8.99*

18.37*

0.146

TAP-tag (G+K)

Metabolic

-3.78*

-0.54

1.77e-05

Physical

-12.3*

32.7*

0.322

The scores of the 'omics' datasets were in turn considered as the continuous independent variable to fit a logit function to the presence/absence of interactions. *P < 2e-16; ^†P < 0.0001. CoExp, correlated mRNA expression; ChIP-chip, shared binding of transcription factors; ChIP-chip*CoExp, co-regulation; CoExp4Sp, conserved co-expression between four species; CoExp2Sp, conserved co-expression between two species; CoExpPar, paralogous conserved co-expression; GenNeigh, CoOcc, correlated phylogenetic profiles; GenInt, shared genetic interactions; Y2H, yeast-two-hybrid; TAP-tag Gavin, TAP-tag purifications (Gavin et al. [3]); TAP-tag Krogan, TAP-tag purifications (Krogan et al. [4]); TAP-tag (G+K), the sum of SA scores derived from the two TAP-tag purification data sets.

van Noort et al. Genome Biology 2007 8:R197   doi:10.1186/gb-2007-8-9-r197