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
2013
Improved software detection and extraction of ITS1 and ITS2 from ribosomal ITS sequences of fungi and other eukaryotes for analysis of environmental sequencing data
Bengtsson‐Palme J, Ryberg M, Hartmann M, Branco S, Wang Z, Godhe A, De Wit P, Sánchez‐García M, Ebersberger I, de Sousa F, Amend A, Jumpponen A, Unterseher M, Kristiansson E, Abarenkov K, Bertrand Y, Sanli K, Eriksson K, Vik U, Veldre V, Nilsson R. Improved software detection and extraction of ITS1 and ITS2 from ribosomal ITS sequences of fungi and other eukaryotes for analysis of environmental sequencing data. Methods In Ecology And Evolution 2013, 4: 914-919. DOI: 10.1111/2041-210x.12073.Peer-Reviewed Original ResearchData setsLarge data setsSoftware detectionSequence analysis pipelineSoftware toolsProcess parallelizationSequence clusteringHigh-throughput sequencing data setsExpedient analysisSequence extractionNext-generation sequencing data setsAnalysis pipelineSequencing data setsLarge alignmentsNon-target sequencesMarkov modelEnvironmental data setsSequence databasesPublic sequence databasesEnvironmental sequencing dataSetExtractionParallelizationSearchSoftware