36 citations · 178 across the 88 of their papers we have counts for
71 papers · 1 filter
Properties of biodiversity indices that incorporate future extinction risk
Mike Steel, Kristina Wicke, Arne Mooers
The loss of biodiversity due to the likely widespread extinction of species in the near future is a focus of current concern in conservation biology. One approach to measure the im…
An evolutionary process without variation and selection
Liane Gabora, Mike Steel
Natural selection successfully explains how organisms accumulate adaptive change despite that traits acquired over a lifetime are eliminated at the end of each generation. However,…
Phylogenetic network classes through the lens of expanding covers
Andrew Francis, Daniele Marchei, Mike Steel
It was recently shown that a large class of phylogenetic networks, the `labellable' networks, is in bijection with the set of `expanding' covers of finite sets. In this paper, we s…
Counting and optimising maximum phylogenetic diversity sets
Kerry Manson, Charles Semple, Mike Steel
In conservation biology, phylogenetic diversity (PD) provides a way to quantify the impact of the current rapid extinction of species on the evolutionary `Tree of Life'. This appro…
Normalising phylogenetic networks
Andrew Francis, Daniel H. Huson, Mike Steel
Rooted phylogenetic networks provide a way to describe species' relationships when evolution departs from the simple model of a tree. However, networks inferred from genomic data c…
Dynamics of a birth-death process based on combinatorial innovation
Mike Steel, Wim Hordijk, Stuart A. Kauffman
A feature of human creativity is the ability to take a subset of existing items (e.g. objects, ideas, or techniques) and combine them in various ways to give rise to new items, whi…
Combinatorial properties of phylogenetic diversity indices
Kristina Wicke, Mike Steel
Phylogenetic diversity indices provide a formal way to apportion 'evolutionary heritage' across species. Two natural diversity indices are Fair Proportion (FP) and Equal Splits (ES…
Quantifying the accuracy of ancestral state prediction in a phylogenetic tree under maximum parsimony
Lina Herbst, Thomas Li, Mike Steel
In phylogenetic studies, biologists often wish to estimate the ancestral discrete character state at an interior vertex of an evolutionary tree from the states that are obs…
Species notions that combine phylogenetic trees and phenotypic partitions
Anica Hoppe, Sonja Türpitz, Mike Steel
A recent paper (Manceau and Lambert, 2016) developed a novel approach for describing two well-defined notions of 'species' based on a phylogenetic tree and a phenotypic partition.…
On the information content of discrete phylogenetic characters
Magnus Bordewich, Ina Maria Deutschmann, Mareike Fischer +3
Phylogenetic inference aims to reconstruct the evolutionary relationships of different species based on genetic (or other) data. Discrete characters are a particular type of data,…
The optimal rate for resolving a near-polytomy in a phylogeny
Mike Steel, Christoph Leuenberger
The reconstruction of phylogenetic trees from discrete character data typically relies on models that assume the characters evolve under a continuous-time Markov process operating…
Can we 'future-proof' consensus trees?
David Bryant, Andrew Francis, Mike Steel
Consensus methods are widely used for combining phylogenetic trees into a single estimate of the evolutionary tree for a group of species. As more taxa are added, the new source tr…
Phylogenetic mixtures and linear invariants for equal input models
Marta Casanellas, Mike Steel
The reconstruction of phylogenetic trees from molecular sequence data relies on modelling site substitutions by a Markov process, or a mixture of such processes. In general, allowi…
Neighbourhoods of phylogenetic trees: exact and asymptotic counts
Jamie V. de Jong, Jeanette C McLeod, Mike Steel
A central theme in phylogenetics is the reconstruction and analysis of evolutionary trees from a given set of data. To determine the optimal search methods for reconstructing trees…
Folding and unfolding phylogenetic trees and networks
Katharina T. Huber, Vincent Moulton, Mike Steel +1
Phylogenetic networks are rooted, labelled directed acyclic graphs which are commonly used to represent reticulate evolution. There is a close relationship between phylogenetic net…
Twisted trees and inconsistency of tree estimation when gaps are treated as missing data -- the impact of model mis-specification in distance corrections
Emily Jane McTavish, Mike Steel, Mark T. Holder
Statistically consistent estimation of phylogenetic trees or gene trees is possible if pairwise sequence dissimilarities can be converted to a set of distances that are proportiona…
Capturing a phylogenetic tree when the number of character states varies with the number of leaves
Mike Steel
We show that for any two values for which then there is a value so that for all the following holds. For any binary phylogenetic tree on le…
Which phylogenetic networks are merely trees with additional arcs?
Andrew R. Francis, Mike Steel
A binary phylogenetic network may or may not be obtainable from a tree by the addition of directed edges (arcs) between tree arcs. Here, we establish a precise and easily tested cr…
A consistency lemma in statistical phylogenetics
Mike Steel
This short note provides a simple formal proof of a folklore result in statistical phylogenetics concerning the convergence of bootstrap support for a tree and its edges.
Similarities as Evidence for Common Ancestry -- A Likelihood Epistemology
Elliott Sober, Mike Steel
Darwin claims in the {\em Origin} that similarity is evidence for common ancestry, but that adaptive similarities are "almost valueless" as evidence. This claim seems reasonable fo…
A 'stochastic safety radius' for distance-based tree reconstruction
Olivier Gascuel, Mike Steel
A variety of algorithms have been proposed for reconstructing trees that show the evolutionary relationships between species by comparing differences in genetic data across present…
Bounds on the Expected Size of the Maximum Agreement Subtree
Daniel Irving Bernstein, Lam Si Tung Ho, Colby Long +3
We prove polynomial upper and lower bounds on the expected size of the maximum agreement subtree of two random binary phylogenetic trees under both the uniform distribution and Yul…
Impacts of terraces on phylogenetic inference
Michael J Sanderson, Michelle M. McMahon, Alexandros Stamatakis +2
Terraces are potentially large sets of trees with precisely the same likelihood or parsimony score, which can be induced by missing sequences in partitioned multi-locus phylogeneti…
Likelihood-based tree reconstruction on a concatenation of alignments can be positively misleading
Sebastien Roch, Mike Steel
The reconstruction of a species tree from genomic data faces a double hurdle. First, the (gene) tree describing the evolution of each gene may differ from the species tree, for ins…