2014
The impact of incorporating molecular evolutionary model into predictions of phylogenetic signal and noise
Su Z, Wang Z, López-Giráldez F, Townsend J. The impact of incorporating molecular evolutionary model into predictions of phylogenetic signal and noise. Frontiers In Ecology And Evolution 2014, 2: 11. DOI: 10.3389/fevo.2014.00011.Peer-Reviewed Original ResearchPhylogenetic inferencePhylogenetic signalRate of evolutionMolecular evolutionary modelsAccurate phylogenetic inferenceFour-taxon treesYeast genus CandidaMolecular evolutionConsensus treeNucleotide substitutionsPrediction of signalsDistribution of signalsEvolutionary modelsModel choiceGenus CandidaUnrealistic modelsCorrect modelInferenceTreesRPB1PhylogenyCladePhylogeneticsRPB2Markov model
2012
Phylogenetic Signal and Noise: Predicting the Power of a Data Set to Resolve Phylogeny
Townsend JP, Su Z, Tekle YI. Phylogenetic Signal and Noise: Predicting the Power of a Data Set to Resolve Phylogeny. Systematic Biology 2012, 61: 835-849. PMID: 22389443, DOI: 10.1093/sysbio/sys036.Peer-Reviewed Original ResearchConceptsPhylogenetic signalPhylogenetic noisePhylogenetic treeAdditional sequence dataRate of evolutionPhylogenetic researchPhylogenetic experimental designSequence dataImpact of collectionInternodesPower of resolutionFundamental unitTreesPhylogeneticsPhylogenyPolytomyGenesLociPotential signalsSignalsExample data setsData sets
2010
Optimal Selection of Gene and Ingroup Taxon Sampling for Resolving Phylogenetic Relationships
Townsend JP, Lopez-Giraldez F. Optimal Selection of Gene and Ingroup Taxon Sampling for Resolving Phylogenetic Relationships. Systematic Biology 2010, 59: 446-457. PMID: 20547780, DOI: 10.1093/sysbio/syq025.Peer-Reviewed Original ResearchConceptsPhylogenetic experimental designOptimal rateAsymptotic impactAnalytical predictionsAddition of charactersOptimal selectionObvious applicationApproximate ideaEstimation of ratesCurrent phylogenetic studiesOptimal efficiencyTheoryDeep internodesTaxon additionRate of evolutionExperimental designNew taxonPhylogenetic informativenessPhylogenetic relationships