Stochastic models and descriptive statistics for phylogenetic trees, from Yule to today

By David J. Aldous. 2001

324 citations recorded by the source corpus.

Subfields: Ecology, Nature and Landscape Conservation, Paleontology

View Paper: https://www.semanticscholar.org/paper/ec1fdab6859bed616bf86beb98eaf20cb972dc4d

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Ecology

1. Olivier Gascuel
2. Daniel J. Ford
3. Karl W. Broman
4. Terence P. Speed
5. Richard Desper
6. Persi Diaconis
7. Susan P. Holmes
8. Tanja Gernhard

In Nature and Landscape Conservation

1. Olivier Gascuel
2. Daniel J. Ford
3. Karl W. Broman
4. Terence P. Speed
5. Richard Desper
6. Persi Diaconis
7. Susan P. Holmes
8. Tanja Gernhard

In Paleontology

1. Olivier Gascuel
2. Richard Desper
3. Daniel J. Ford
4. Karl W. Broman
5. Terence P. Speed
6. Persi Diaconis
7. Susan P. Holmes
8. Tanja Gernhard

Citations in the corpus

• Random walks on trees and matchings (2002, background): “See Page & Holmes (2000) for a good book-length treatment of trees and Aldous (1996, 2001) for a probabilistic view.”
• Prediction of Protein-protein Interactions on the Basis of Evolutionary Conservation of Protein Functions (2007, unknown): “So P [ r jT ]istheuniform distribution [Aldous,2001].”
• A model selection approach for the identification of quantitative trait loci in experimental crosses (2002, methodology): “extensive review of the statistical methods for QTL mapping, see Doerge et al. (1997), Lynch”
• Bootstrapping Phylogenetic Trees: Theory and Methods (2003, background): “Most biologists agree that the simplest possible probability distribution on tree space—the uniform distribution—is not relevant; a slightly more realistic one is the Yule process (see Aldous, 2001).”
• Discordance of Species Trees with Their Most Likely Gene Trees (2006, unknown): “[19–22]—and the coalescence rate following the coalescent”
• The conditioned reconstructed process. (2008, background): “However, in the coalescent, also each ranked oriented tree shape is equally likely (see Aldous (2001) or argue as in Theorem 2.”
• Fast and Accurate Phylogeny Reconstruction Algorithms Based on the Minimum-Evolution Principle (2002, background): “uniform) distributions on phylogenetic trees are discussed in [1, 18], with expected diameter at most O( p n).”
• Probabilities on cladograms: introduction to the alpha model (2005, background): “Previously, David Aldous has introduced a one dimensional continuous family of models, collectively called the beta model ([4],[5],[6]), which interpolates between the Yule, Uniform and Comb models.”