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Molecular Phylogenetics and Evolution|July 9, 2002
Uninode coding vs gene tree parsimony for phylogenetic reconstruction using duplicate genesMark P Simmons, John V FreudensteinMolecular Phylogenetics and Evolution|June 28, 2011
Spurious 99% bootstrap and jackknife support for unsupported cladesMark P Simmons, John V FreudensteinMolecular Phylogenetics and Evolution|March 20, 2003
The effects of increasing genetic distance on alignment of, and tree construction from, rDNA internal transcribed spacer sequencesMark P Simmons, John V FreudensteinCladistics : the International Journal of the Willi Hennig Society|December 16, 2021
Artifacts of Coding Amino Acids and Other Composite Characters for Phylogenetic AnalysisMark P Simmons, John V FreudensteinMolecular Phylogenetics and Evolution|July 20, 2002
Amino acid vs. nucleotide characters: challenging preconceived notionsMark P Simmons, Helga Ochoterena, John V FreudensteinCladistics : the International Journal of the Willi Hennig Society|December 16, 2021
Conflict between Amino Acid and Nucleotide CharactersMark P Simmons, Helga Ochoterena, John V FreudensteinMolecular Biology and Evolution|December 26, 2001
Limitations of relative apparent synapomorphy analysis (RASA) for measuring phylogenetic signalMark P Simmons, Christopher P Randle, John V Freudenstein, et al.Annals of Botany|November 15, 2024
Orchid phylogenetics and evolution: history, current status and prospectsJohn V FreudensteinCladistics : the International Journal of the Willi Hennig Society|December 9, 2021
Branch support via resampling: an empirical studyJohn V Freudenstein, Jerrold I DavisAmerican Journal of Botany|June 3, 2011
Relationships and evolution of matK in a group of leafless orchids (Corallorhiza and Corallorhizinae; Orchidaceae: Epidendroideae)John V Freudenstein, Diana M SenyoPageof 11