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. 2012 Feb 27;109(11):4308–4313. doi: 10.1073/pnas.1115488109

Table 1.

Likelihood value estimates for the branch-site and null hypothesis models

CHRNA4 CHRNB2 CHRNA7 CHRNA10
Foreground lineage: mammals
 LnL HA −19,249.50 −12,662.16 −16,620.05 −16,185.80
 LnL H0 −19,250.54 −12,662.16 −16,621.27 −16,190.49
 LRT 2.07 0 2.43 9.39
 P (χ21) 0.150 1 0.119 0.002
Foreground lineage: placental mammals
 LnL HA −19,251.48 −12,662.20 −16,615.01 −16,213.78
 LnL H0 −19,251.48 −12,662.20 −16,616.83 −16,214.76
 LRT 0 0 3.64 1.96
 P (χ21) 1 1 0.057 0.162
Foreground lineage: birds/reptiles
 LnL HA −19,251.48 −12,660.13 −16,621.28 −16,218.23
 LnL H0 −19,251.48 −12,661.07 −16,621.28 −16,218.22
 LRT 0 1.90 0 0
 P (χ21) 1 0.169 1 1

CHRNA4, CHRNB2, CHRNA7, and CHRNA10 genes from 23 vertebrate species described in Table S2 were analyzed using the branch-site test for positive evolution. The analysis was conducted separately three times for each gene, using mammals, placental mammals and birds/reptiles as the foreground lineage. LRT = 2 × (LnLHA − LnLH0). HA, branch-site model; H0, null hypothesis; LnL, log-likelihood.