Sentence examples for using the phylogenetic topology from inspiring English sources

Table 1 (above the diagonal) shows evolutionarily independent correlations calculated using the phylogenetic topology shown in Additional file 3, employing an approach described in Hulsey et al. [ 30].

For PhyloFit, we used the neutral model ('neutral.mod') made by Haudry et al. [ 21], using the phylogenetic topology of nine Brassicaceae species [ 24, 25] (Additional file 1: Figure S1), and the general reversible model of substitution that constrains substitution rates to maintain base frequencies over time.

We use the phylogenetic trees (topology and branch lengths) given in [ 9] to derive the pairwise weights, and use the motif lengths provided.

To obtain the chronogram (ultrametric tree with branch lengths proportional to time), we used the phylogenetic tree topology from Wapinski et al. (2007).

We used the phylogenetic tree structure (topology) inferred from 62 complete mt AA sequences which was reconstructed via a multidimensional vector space (MVS) method [2].

The problem cannot be avoided even when using some "gold standard" genes; the phylogenetic topologies of the 16S and 23S rRNA sequences, the genes most conventionally used for inferring phylogeny, are located far from the representative topologies in our MDS plot (except Bacillaceae 23S rRNA, which is fairly close to the representative one).

The phylogenetic topologies of these genes were used as input trees.

For these patients, two clades were selected for analysis using phylogenetic topology.

Phylogenetic independent contrasts calculated using the topology of the Bayesian tree were nearly identical to those based on the maximum parsimony topology.

We created the phylogenetic tree for enterobacter from our 1500 bp promoter sequences using the topology from Elena et al. (2005).

The expected tree topology of the selected cases was confirmed using the Neighbor-joining phylogenetic approach [ 67].