Sentence examples for based on codon alignment from inspiring English sources

To study the molecular evolution of vertebrate FoxO genes, we carried out phylogenetic inference analyses based on codon alignment and inferred their evolutionary history using Bayesian methods.

The data were partitioned based on codon position in the alignment.

Based on codon usage and comparative alignment with sequences from other Plasmodium species, these heptads are best explained by a recent tandem duplication of a single heptad motif in P. falciparum or its immediate ancestor [ 31].

These methods demonstrate that log odds ratios based on codon conservation can be used to indicate the possibility of a coding region existing in the alignment of human and mouse sequences [ 15, 16].

We achieve this by computing the best alignment of DNA sequences that encode the target proteins, with respect to a powerful scoring system that evaluates point mutations in their context, based on codon substitution patterns.

COrrespondence Analysis of codon usage (COA) was calculated based on codon usage as well as Relative Synonymous Codon Usage (RSCU).

The codons for sTfR were optimized using human preferred codons based on Codon Usage Database (Kazusa DNA Research Institute, Japan).

DNA sequence alignments were based on codons to retain protein alignments.

Maximum-likelihood trees based on the codon alignment were generated by RAxML v.7.0.3 and Garli v.1.0 where generalized time reversible (GTR) was used as the substitution model (Stamatakis 2006; Zwickl 2006).

Ks was estimated based on the codon alignments.

The nucleotide alignment was generated based on the protein alignment using codon alignment.