摘要
Theratioofnonsynonymoussubstitutionrate(Ka)tosynonymoussubstitutionrate(Ks)iswidelyusedasanindicatorofselectivepressureatsequencelevelamongdifferentspecies,anddiversemutationmodelshavebeenincorporatedintoseveralcomputingmethods.Wehavepreviouslydevelopedanewγ-MYNmethodbycapturingakeydynamicevolutiontraitofDNAnucleotidesequences,inconsiderationofvaryingmutationratesacrosssites.WenowreportafurtherimprovementofNG,LWL,MLWL,LPB,MLPB,andYNmethodsbasedonanintroductionofgammadistributiontoillustratethevariationofrawmutationrateoversites.Thenoveltycomesintwoways:(1)weincorporateanoptimalgammadistributionshapeparameteraintoγ-NG,γ-LWL,γ-MLWL,γ-LPB,γ-MLPB,andγ-YNmethods;(2)weinvestigatehowvariablesubstitutionratesaffectthemethodsthatadoptdifferentmodelsaswellastheinterplayamongfourevolutionalfeatureswithrespecttoKa/Kscomputations.Ourresultssuggestthatvariablesubstitutionratesoversitesundernegativeselectionexhibitanoppositeeffectonωestimatescomparedwiththoseunderpositiveselection.WebelievethatthesensitivityofournewmethodshasbeenimprovedthanthatoftheiroriginalmethodsunderdiverseconditionsanditisadvantageoustointroducenovelparametersforKa/Kscomputation.
出版日期
2009年03月13日（中国期刊网平台首次上网日期，不代表论文的发表时间）
