Phylogenetic Algorithms
Mostrando 1-12 de 33 artigos, teses e dissertações.
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1. The Complete Mitochondrial Genome of the Donganyellow Chicken and Its Phylogenetic Analyses
ABSTRACT Donganyellow chicken (Gallus gallusdomesticus, DYC) is one of the famous native breeds of Hunan province in China. It is the first time that the complete mitochondrialgenome sequence of DYC was reported. The total length of the mtDNA is16, 786bp. It contains 22transfer RNA genes, 2 ribosomal RNA genes,13 protein-coding genes and 1 D-loop region. The
Braz. J. Poult. Sci.. Publicado em: 18/04/2019
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2. Positive selection, molecular recombination structure and phylogenetic reconstruction of members of the family Tombusviridae: implication in virus taxonomy
A detailed study of putative recombination events and their evolution frequency in the whole genome of the currently known members of the family Tombusviridae, comprising 79 accessions retrieved from the international databases, was carried out by using the RECCO and RDP version 3.31β algorithms. The first program allowed the detection of potential recombin
Genetics and Molecular Biology. Publicado em: 16/09/2011
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3. Ant-Based Phylogenetic Reconstruction (ABPR): A new distance algorithm for phylogenetic estimation based on ant colony optimization
We propose a new distance algorithm for phylogenetic estimation based on Ant Colony Optimization (ACO), named Ant-Based Phylogenetic Reconstruction (ABPR). ABPR joins two taxa iteratively based on evolutionary distance among sequences, while also accounting for the quality of the phylogenetic tree built according to the total length of the tree. Similar to o
Genetics and Molecular Biology. Publicado em: 2008-12
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4. Evolutionary multi-objective algorithms for Phylogenetic Inference / Algoritmos evolutivos multi-objetivo para a reconstrução de árvores filogenéticas
The phylogeny reconstruction problem consists of determining the evolutionary relationships (usually represented as a tree) among species. This is a very complex problem since the tree search space is huge. Several phylogenetic reconstruction methods have been proposed. Many of them defines an optimality criterion for evaluation of possible solutions. Howeve
Publicado em: 2008
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5. Evolução do reparo por excisão de nucleotídeo
The phylogeny is one of the main activities of the modern taxonomists and a way to reconstruct the history of the life through comparative analysis of these sequences stored in their genomes aimed find any justification for the origin or evolution of them. Among the sequences with a high level of conservation are the genes of repair because it is important f
Publicado em: 2008
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6. Computationalmethods for the identification of transcriptional regulationmodules
Recent studies have demonstrated that biological networks display non-random characteristics, among which we highlight the modular architecture. In our thesis, we are interested in the modular organisation of transcriptional regulation networks (TRN), which model the interactions between genes and proteins that control their expression at the transcriptional
Publicado em: 2008
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7. Development of a database for classification and analysis of type IV secretion systems / Desenvolvimento de um banco de dados para classificação e análise de sistemas de secreção do tipo IV bacteriano
The type IV secretion system can be classified as a large family of macromolecule transporters divided in three recognized sub-families involved in different bacterial functions. The major sub-family of T4SS is the conjugation system, which allows transfer of genetic material as a nucleoprotein via cell contact among bacteria. Analogously to bacterial conjug
Publicado em: 2008
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8. A multimodal and multiobjective approach for phylogenetic trees reconstruction / Uma abordagem multi-objetivo e multimodal para reconstrução de arvores filogeneticas
The reconstruction of phylogenetic trees can be interpreted as a systematic process of proposing an arborean description to the relative dissimilarities observed among sets of homologous genetic attributes of species being compared. The resulting phylogenetic tree presents a certain topology, or ancestrality pattern, and the length of the edges of the tree w
Publicado em: 2007
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9. Cadeias estocásticas parcimoniosas com aplicações à classificação e filogenia das seqüências de proteínas. / Parsimonious stochastic chains with applications to classification and phylogeny of protein sequences.
In this thesis we present some theoretical and practical results, concerning symbolic sequence modeling with parsimonious stochastic chains. Parsimonious stochastic chains, which include variable memory stochastic chains, constitute a generalization of fixed order Markov chains. The symbolic sequences modeled with parsimonious stochastic chains were the sequ
Publicado em: 2007
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10. TÃcnicas para construÃÃo de Ãrvores filogenÃticas / Techniques for construction of phylogenetic trees
Ãrvores filogenÃticas sÃo estruturas que expressam a similaridade, ancestralidade e relacionamentos entre as espÃcies ou grupo de espÃcies. Conhecidas como Ãrvores evolucionÃrias ou simplesmente filogenias, as Ãrvores filogenÃticas possuem folhas que representam as espÃcies (tÃxons) e nÃs internos que correspondem aos seus ancestrais hipotÃticos
Publicado em: 2007
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11. Many-core algorithms for statistical phylogenetics
Motivation: Statistical phylogenetics is computationally intensive, resulting in considerable attention meted on techniques for parallelization. Codon-based models allow for independent rates of synonymous and replacement substitutions and have the potential to more adequately model the process of protein-coding sequence evolution with a resulting increase i
Oxford University Press.
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12. Matchings and phylogenetic trees
This paper presents a natural coordinate system for phylogenetic trees using a correspondence with the set of perfect matchings in the complete graph. This correspondence produces a distance between phylogenetic trees, and a way of enumerating all trees in a minimal step order. It is useful in randomized algorithms because it enables moves on the space of tr
The National Academy of Sciences.