منابع مشابه
Surprising properties of Maximum Parsimony on phylogenetic networks
Phylogenetic inference aims at reconstructing the evolutionary relationships of different species given some data (e.g. DNA, RNA or proteins). Traditionally, the relationships between species were assumed to be treelike, so the most frequently used phylogenetic inference methods like Maximum Parsimony were originally introduced to reconstruct phylogenetic trees. However, it has been well-known ...
متن کاملMaximum Parsimony Phylogenetic Inference Using Simulated Annealing
The Maximum Parsimony (MP) problem aims at reconstructing a phylogenetic tree from DNA sequences while minimizing the total number of genetic transformations. In this paper we propose a carefully devised simulated annealing implementation, called SAMPARS (Simulated Annealing for Maximum PARSimony), for finding near-optimal solutions for the MP problem. Different possibilities for its key compon...
متن کاملOn the Maximum Parsimony distance between phylogenetic trees
Within the field of phylogenetics there is great interest in distance measures to quantify the dissimilarity of two trees. Here, based on an idea of Bruen and Bryant, we propose and analyze a new distance measure: the Maximum Parsimony (MP) distance. This is based on the difference of the parsimony scores of a single character on both trees under consideration, and the goal is to find the chara...
متن کاملOn Computing the Maximum Parsimony Score of a Phylogenetic Network
Phylogenetic networks are used to display the relationship of different species whose evolution is not treelike, which is the case, for instance, in the presence of hybridization events or horizontal gene transfers. Tree inference methods such as Maximum Parsimony need to be modified in order to be applicable to networks. In this paper, we discuss two different definitions of Maximum Parsimony ...
متن کاملReduction rules for the maximum parsimony distance on phylogenetic trees
In phylogenetics, distances are often used to measure the incongruence between a pair of phylogenetic trees that are reconstructed by different methods or using different regions of genome. Motivated by the maximum parsimony principle in tree inference, we recently introduced the maximum parsimony (MP) distance, which enjoys various attractive properties due to its connection with several other...
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ژورنال
عنوان ژورنال: Algorithms for Molecular Biology
سال: 2012
ISSN: 1748-7188
DOI: 10.1186/1748-7188-7-9