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Table 1 PAML Analysis of BRCA1 and BRCA2

From: Rapid evolution of BRCA1 and BRCA2in humans and other primates

M1a-M2a ω0a codon freq.b 2ΔlnLc dfc p-valuec M1a-M2a ω0a codon freq.b 2ΔlnLc dfc p-valuec
BRCA1 0.4 f61 10.0 2 0.0066 BRCA2 0.4 f61 21.3 2 <0.0001
0.4 f3x4 6.1 2 0.0466 0.4 f3x4 16.1 2 0.0003
1.6 f61 10.0 2 0.0066 1.6 f61 21.3 2 <0.0001
1.6 f3x4 6.1 2 0.0466 1.6 f3x4 16.1 2 0.0003
M7-M8 ω 0 a codon freq. b 2ΔlnL c df c p-valuec M7-M8 ω 0 a codon freq. b 2ΔlnL c df c p-valuec
BRCA1 0.4 f61 10.6 2 0.0049 BRCA2 0.4 f61 23.3 2 <0.0001
0.4 f3x4 6.2 2 0.0447 0.4 f3x4 18.6 2 <0.0001
1.6 f61 10.6 2 0.0049 1.6 f61 23.3 2 <0.0001
1.6 f3x4 6.2 2 0.0447 1.6 f3x4 18.6 2 <0.0001
M8a-M8 ω 0 a codon freq. b 2ΔlnL c df c p-valuec M8a-M8 ω 0 a codon freq.b 2ΔlnL c df c p-valuec
BRCA1 0.4 f61 10.1 1 0.0015 BRCA2 0.4 f61 19.9 1 <0.0001
0.4 f3x4 6.2 1 0.013 0.4 f3x4 15.1 1 0.0001
1.6 f61 10.1 1 0.0015 1.6 f61 19.9 1 <0.0001
1.6 f3x4 6.2 1 0.013 1.6 f3x4 15.1 1 0.0001
  1. aInitial seed value for ω (dN/dS).
  2. bModel of codon frequency.
  3. cTwice the difference in the natural logs of the likelihoods (2 × ΔlnL) of the two models being compared (a model that allows positive selection (M2a or M8) is compared to a null model (M1a, M7, M8a)). This value is used in a likelihood ratio test along with the degrees of freedom (df). The p-value indicates the confidence with which the null model can be rejected.