Phylogenetic Tree Selection by Testing Substitution Number in Clade

Testing substitution models within a phylogenetic tree.

Phylogenetic tree reconstruction frequently assumes the homogeneity of the substitution process over the whole tree. To test this assumption statistically, we propose a test based on the sample covariance matrix of the set of substitution rate matrices estimated from pairwise sequence comparison. The sample covariance matrix is condensed into a one-dimensional test statistic Delta = sum ln(1 + ...

A Steiner Tree, Substitution Matrix Method for Reconstructing Phylogenetic Trees

Evolutionary theory implies that existing or extinct organisms are descended from a common ancestor. Hence, given a set of organisms, a phylogenetic tree can be reconstructed showing the evolutionary relationships between the biological organisms in the set. A commonly used method for the reconstruction of phylogenetic trees is the Distance Matrix (DM) method, which tends to be faster than the ...

Test a clade in phylogenetic trees.

We develop a new method for testing a portion of a tree (called a clade) based on multiple tests of many 4-taxon trees in this paper. This is particularly useful when the phylogenetic tree constructed by other methods have a clade that is difficult to explain from a biological point of view. The statement about the test of the clade can be made through the multiple P values from these individua...

Random Number Generators: Selection Criteria and Testing

(مقاله کوتاه) تجزیه فیلوژنی و تکامل مولکولی لپتین

     In the current study, phylogenetic analysis and molecular evolution of the mammalian’s Leptin was investigated. Data was achieved and aligned by searching its genome database, while all examined mammals contained only a single copy of the Leptin. The nucleotide substitution rate of the sequences and molecular evolution of the Leptin were calculated by maximum likelihood and neighbor-joinin...