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Table 2 The variance of protein evolutionary rate explained by PPID and ePPID when controlling for protein abundance.

From: Understanding protein evolutionary rate by integrating gene co-expression with protein interactions

Protein interaction datasets

n

Percent variance explained in dN

  

PPID(p)

PPID control for Log(abundance)(p)

ePPID (p)

ePPID control for Log(abundance) (p)

Y2H-union

793

0.110(3.52e-01)

0.145(2.84e-01)

0.659(2.22e-02)

0.547(3.73e-02)

Combined-AP/MS

763

2.50(1.13e-05)

0.906(8.52e-03)

4.25(9.08e-09)

0.999(5.73e-03)

LC-multiple

680

1.29(3.01e-03)

1.17(4.72e-03)

4.11(9.62e-08)

1.70(6.59e-04)

Updated-HC

1,587

0.722(7.04e-04)

0.547(3.19e-03)

3.53(4.39e-14)

1.32(4.60e-06)

DIP-CORE

968

0.308(8.42e-02)

0.109(3.05e-01)

1.27(4.44e-04)

0.109(3.05e-01)

DIP-FULL

1,792

1.99(2.03e-09)

0.996(2.32e-05)

3.99(1.39e-17)

1.36(7.21e-07)

  1. dN represents protein evolutionary rate measured by non-synonymous substitutions. n is the number of proteins for which PPID, protein evolutionary rate and abundance data are all available. p in column 3 and 5 is the statistical significance of the linear regression of protein evolutionary rate against PPID and ePPID, respectively. p in column 4 and 6 is the statistical significance of the linear regression of protein evolutionary rate against PPID and ePPID when controlling for protein abundance, respectively. Bold indicates that p is significant at the statistical significance level of 0.05.