Discover Community Create You

Loading publication...

Noodle always counts identifier-free feature events for service operation. With your permission, Google Analytics can also estimate audience and engagement. Search text, publication identifiers, cookies, IP addresses and browser fingerprints are never included in Noodle's first-party event counters.

Privacy details

Article

Site-to-site variation of synonymous substitution rates.

Molecular biology and evolution - 1 Dec 2005

Pond Sergei Kosakovsky, Muse Spencer V

Abstract excerpt

We develop a new model for studying the molecular evolution of protein-coding DNA sequences. In contrast to existing models, we incorporate the potential for site-to-site heterogeneity of both synonymous and nonsynonymous substitution rates. We demonstrate that within-gene heterogeneity of synonymous substitution rates appears to be common. Using the new family of models, we investigate the utility of a variety...

Read the complete abstract on PubMed

Topics

Share this publication in a Topic to start or enrich a Post.

Share to Selection, Genetic
Share to Amino Acid Substitution
Share to Amino Acids

Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

Share to Evolution, Molecular

Share to Models, Genetic

Share to Open Reading Frames

Share to Phylogeny

Source

Identifiers

PMID: 16107593
DOI: 10.1093/molbev/msi232

Provenance

PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 7 Sept 2026. Manifest publication-graph-cohort-2026-09-07.1.

Source receipt: pubmed, retrieved 7 Sept 2026.

Related research

Semantic proximity does not establish scientific evidence.

Research trail→

Click a neighbor to travelStep 1 · 12 closest

Site-to-site variation of synonymous substitution rates.PMID 16107593Read ↗

Evolutionary models accounting for layers of selection in protein-coding genes and their impact on the inference of positive selection.Semantic proximity Read ↗

Extensively Parameterized Mutation-Selection Models Reliably Capture Site-Specific Selective Constraint.Semantic proximity Read ↗

Large-scale analyses of synonymous substitution rates can be sensitive to assumptions about the process of mutation.Semantic proximity Read ↗

A Comparison of One-Rate and Two-Rate Inference Frameworks for Site-Specific dN/dS Estimation.Semantic proximity Read ↗

Mutation-selection models of coding sequence evolution with site-heterogeneous amino acid fitness profiles.Semantic proximity Read ↗

Detection of Regional Variation in Selection Intensity within Protein-Coding Genes Using DNA Sequence Polymorphism and Divergence.Semantic proximity Read ↗

Intragenomic variation in non-adaptive nucleotide biases causes underestimation of selection on synonymous codon usage.Semantic proximity Read ↗

Detecting Adaptation in Protein-Coding Genes Using a Bayesian Site-Heterogeneous Mutation-Selection Codon Substitution Model.Semantic proximity Read ↗

Widespread positive selection in synonymous sites of mammalian genes.Semantic proximity Read ↗

Towards realistic codon models: among site variability and dependency of synonymous and non-synonymous rates.Semantic proximity Read ↗

SnIPRE: selection inference using a Poisson random effects model.Semantic proximity Read ↗

Evolutionary Shortcuts via Multinucleotide Substitutions and Their Impact on Natural Selection Analyses.Semantic proximity Read ↗

⌁Select a neighboring publication to make it the new centre.