Phylogenetic approach for multi-genome comparison
New approach for phylogenetic tree recovery based on genome-scale metabolic networks
... two phylogenetic trees that we have ...of phylogenetic tree reconstruction is the ...reduced genome with around almost a thousand metabolites, several hundred metabolites will not have a ...
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Multi species sequence comparison: the next frontier in genome annotation
... that multi-species DNA comparisons have greater potential for filtering out evolu- tionarily neutral regions, and should therefore provide a more reliable basis for decoding and annotating genomic sequences at ...
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A Phylogenetic History of the Tenerife Skink Chalcides viridanus: A multi-locus Coalescent Approach
... A multi-locus approach was undertaken, using more informative mtDNA gene fragments (Cyt- b & ND1 & 2, totalling 1566bp) as well as the sequencing of 5 nuclear loci (PRLR-555bp, Rag- 1-761bp, RELN-583bp, ...
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Complete-Genome Phylogenetic Approach to Varicella-Zoster Virus Evolution: Genetic Divergence and Evidence for Recombination
... whole genome, representing approximately 125,000 nucleotides, is highly conserved, presenting a genetic similarity between the E and J genotypes of approximately ...in phylogenetic trees supported by high ...
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The complete chloroplast genome sequence of Brachypodium distachyon: sequence comparison and phylogenetic analysis of eight grass plastomes
... chloroplast genome of Brachypodium distachyon was sequenced by a combinational approach using BAC end and shotgun sequences derived from a selected BAC containing the entire chloroplast ...chloroplast ...
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A Bayesian approach to phylogenetic networks
... previous approach, algorithm ...in comparison with the naive; the pattern is quite strong and the classification based on the mean of the posterior proba- bilities ...
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An improved phylogenetic tree comparison method
... 3.1 Comparison Method Conclusion In this work, we have introduced a novel method for comparing phylogenetic trees by viewing them as Euclidean structures in a high dimensional space and fitting them with a ...
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Multi Touch: An Optical Approach (Comparison of various techniques)
... Optical methods for multi touch require an infrared light source. Achieving the correct infrared illumination is challenging and requires a good knowledge of both the different methods of illuminating a surface ...
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Models and Algorithms for Whole-Genome Evolution and their Use in Phylogenetic Inference
... algorithmic approach to the reconstruction of a phylo- genetic tree from whole-genome data, ...one genome, but absent in the ...this approach in their GRAPPA tool and extended it to inversion ...
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A Simulation Approach for Change-Points on Phylogenetic Trees.
... In comparison g = 8 performed poorly, as expected since n = 8 for this data set so g = 8 implies removing all internal nodes and assuming independent evolution of each ...
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An efficient and extensible approach for compressing phylogenetic trees
... weighted phylogenetic trees containing branch lengths as shown in Figure ...in comparison to 7zip on four biological data sets, including freshwater (20,000 trees over 150 taxa), angiosperms (33,306 trees ...
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Bias in phylogenetic tree reconciliation methods: implications for vertebrate genome evolution
... both offer improvements to current methods. This latter pos- sibility offers a way to improve inferences because short spe- cies tree branches are the ones that are most likely to lead to wrongly inferred gene trees, as ...
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Comparative Assessment of Performance and Genome Dependence among Phylogenetic Profiling Methods
... Results Comparison of existing methods of profile generation Though an analysis of the effectiveness of applying phylo- genetic profiling to eukaryotes has yet to be studied in lit- erature, homology based methods ...
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Comparative assessment of performance and genome dependence among phylogenetic profiling methods
... Results Comparison of existing methods of profile generation Though an analysis of the effectiveness of applying phylo- genetic profiling to eukaryotes has yet to be studied in lit- erature, homology based methods ...
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Improving the Multi-Dimensional Comparison of Simulation Results: A Spatial Visualization Approach
... visualization approach combines elements from both these heat map and contour map ...visualization approach supplements common graphi- cal formats like discrepancy plots or size-power curves by, for ...
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Examining Phylogenetic Relationships Among Gibbon Genera Using Whole Genome Sequence Data Using an Approximate Bayesian Computation Approach
... the phylogenetic relationships among gibbons using kar- yotypes, mitochondrial DNA (mtDNA), the Y chromosome, and short autosomal sequences have been inconclusive ...whole genome sequencing (WGS) to a mean ...
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Phylogenetic Analysis of Beta-Glucanase Producing Actinomycetes Strain TBG-CH22 - A Comparison of Conventional and Molecular Morphometric Approach
... RNA secondary structures are deliberated in evolutionary studies of influenza virus (Somvanshi et al., 2008), satellite RNA of cucumber mosaic virus (CMV) (Fraile and Garcia-Arenal, 1991) and fungi (Zhuang and Liu, ...
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Gene family-free genome comparison
... Family-free genome comparisons of this kind may give further insights into the functional organization of the ...family-free genome com- parison can also be performed based on distances between genes, ...
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Bioinformatic Genome Comparisons for Taxonomic and Phylogenetic Assignments Using Aeromonas as a Test Case
... However, we recognize that the procedure of officially naming and describing new organisms is understandably a conservative and carefully regulated process; the effects on many different con- stituents have to be ...
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Biological Processes Modulating Longevity across Primates: A Phylogenetic Genome-Phenome Analysis
... address whether these variants are or not also fixed in them. Pleiotropies in the aging pathways Genes affecting longevity might be crucial for organismic development, implying that these genes are under selective ...
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