Efficiencies of fast algorithms of phylogenetic inference under the criteria of maximum parsimony, minimum evolution, and maximum likelihood when a large number of sequences are used.

By Kei-ichiro Takahashi, Masatoshi Nei. Molecular biology and evolution, 2000

316 citations recorded by the source corpus.

Subfields: Genetics, Molecular Biology, Plant Science

View Paper: https://www.semanticscholar.org/paper/a1195fe768b4742765684c373577f7e9c4c219b4

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Citations in the corpus

Talking Defensively, a Dual Use for the Brachial Gland Exudate of Slow and Pygmy Lorises (2007, methodology): “NJ searches were conducted using amino acid p distances, as the simple p distance generally gives better results in phylogenetic inference than more complicated distance measures for minimum evolution methods such as NJ ( Takahashi & Nei, 2000 ).”
Molecular phylogeny, systematics and morphological character evolution in the Balkan rissooidea (Caenogastropoda) (2009, background): “Thus, it may happen that the simplest models will result in phylogeny reconstructions which approach the real historical processes the most closely (GAUT & LEWIS 1995, YANG 1997, TAKAHASHI & NEI 2000).”
Estimated Minimal Divergence Times of the Major Bacterial and Archaeal Phyla (2003, background): “Recent work (Takahashi and Nei 2000), however, has shown that when the data set is large (48 sequences) relative to the number of nucleotides (1,000 for low divergence [dmax= 0.1] or 300 for high divergence [dmax= 1.0]), less computationally intense analyses produce the correct phylogeny as those…”
Evolution of proteins and proteomes: a phylogenetics approach (2005, background): “I start providing an overview of the different bioinformatics applications that can be used to reconstruct the phylogenetic relationships of a protein family to then describe its applications.”
Molecular phylogenetic analyses of the Japanese Ulva and Enteromorpha (Ulvales, Ulvophyceae), with special reference to the free‐floating Ulva (2003, background): “Takahashi and Nei (2000) noted that the simple model is better when a large number of short sequences are used.”
Phylogeny estimation: traditional and Bayesian approaches (2003, background): “Some recent studies show that searching under ME is not much better than simply performing N”