DAMBE5: a comprehensive software package for data analysis in molecular biology and evolution (Q28681340)

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

NeXML: rich, extensible, and verifiable representation of comparative data and metadata

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Rivaling the world's smallest reptiles: discovery of miniaturized and microendemic new species of leaf chameleons (Brookesia) from northern Madagascar

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Predicting functional gene links from phylogenetic-statistical analyses of whole genomes

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Differential selection and mutation between dsDNA and ssDNA phages shape the evolution of their genomic AT percentage

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Vienna RNA secondary structure server

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Evolution and expression of FOXL2

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Maximizing transcription efficiency causes codon usage bias

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

A likelihood approach for comparing synonymous and nonsynonymous nucleotide substitution rates, with application to the chloroplast genome

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

The codon Adaptation Index--a measure of directional synonymous codon usage bias, and its potential applications

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

The neighbor-joining method: a new method for reconstructing phylogenetic trees

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Improved tools for biological sequence comparison

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

The 'effective number of codons' used in a gene

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Testing for equality of evolutionary rates

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

DAMBE: software package for data analysis in molecular biology and evolution

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Inferring the historical patterns of biological evolution

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Prospects for inferring very large phylogenies by using the neighbor-joining method

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

An index of substitution saturation and its application

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Position weight matrix, gibbs sampler, and the associated significance tests in motif characterization and prediction

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Contributions of speed and accuracy to translational selection in bacteria

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

A geographic mosaic of evolutionary lineages within the insular endemic newt Euproctus montanus.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

DNA replication and strand asymmetry in prokaryotic and mitochondrial genomes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

A multilocus phylogeny of Asian noodlefishes Salangidae (Teleostei: Osmeriformes) with a revised classification of the family

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Factors affecting splicing strength of yeast genes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Adaptive evolution of the matrix extracellular phosphoglycoprotein in mammals

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

The mitochondrial genome of Sinentomon erythranum (Arthropoda: Hexapoda: Protura): an example of highly divergent evolution.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Translation initiation: a regulatory role for poly(A) tracts in front of the AUG codon in Saccharomyces cerevisiae

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

A retrospective overview of enterovirus infection diagnosis and molecular epidemiology in the public hospitals of Marseille, France (1985-2005).

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Drosophila genes that affect meiosis duration are among the meiosis related genes that are more often found duplicated

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

The Populus Class III HD ZIP Transcription Factor POPCORONA Affects Cell Differentiation during Secondary Growth of Woody Stems

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

HIV-1 modulates the tRNA pool to improve translation efficiency

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

A general model of codon bias due to GC mutational bias

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

4E-BP extends lifespan upon dietary restriction by enhancing mitochondrial activity in Drosophila

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

An improved implementation of codon adaptation index

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Strong eukaryotic IRESs have weak secondary structure

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

The cost of wobble translation in fungal mitochondrial genomes: integration of two traditional hypotheses

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Conflict between translation initiation and elongation in vertebrate mitochondrial genomes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

The +4G site in Kozak consensus is not related to the efficiency of translation initiation

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Cytosine usage modulates the correlation between CDS length and CG content in prokaryotic genomes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Structure, evolution and expression of the FOXL2 transcription unit

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Chromosomal Speciation and Molecular Divergence--Accelerated Evolution in Rearranged Chromosomes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Fast and accurate phylogeny reconstruction algorithms based on the minimum-evolution principle

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Genomic changes in nucleotide and dinucleotide frequencies in Pasteurella multocida cultured under high temperature

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Characterization of a novel simian immunodeficiency virus with a vpu gene from greater spot-nosed monkeys (Cercopithecus nictitans) provides new insights into simian/human immunodeficiency virus phylogeny

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Phylogenetic relationship among horseshoe crab species: effect of substitution models on phylogenetic analyses

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Protein structure, neighbor effect, and a new index of amino acid dissimilarities.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

AMADA: analysis of microarray data

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

What amino acid properties affect protein evolution?

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

How optimized is the translational machinery in Escherichia coli, Salmonella typhimurium and Saccharomyces cerevisiae?

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

The rate heterogeneity of nonsynonymous substitutions in mammalian mitochondrial genes

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Use of rRNA secondary structure in phylogenetic studies to identify homologous positions: an example of alignment and data presentation from the frogs

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

On transition bias in mitochondrial genes of pocket gophers

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Gibbs motif sampling: detection of bacterial outer membrane protein repeats

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

fastDNAmL: a tool for construction of phylogenetic trees of DNA sequences using maximum likelihood.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Body temperature, rate of biosynthesis, and evolution of genome size

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

An evolutionary and functional analysis of FoxL2 in rainbow trout gonad differentiation

3 June 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

Multiple lines of evidence for demographic and range expansion of a temperate species (Hyla sarda) during the last glaciation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

An extensive study of mutation and selection on the wobble nucleotide in tRNA anticodons in fungal mitochondrial genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

Phylogenies and the Comparative Method

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

GC skew in protein-coding genes between the leading and lagging strands in bacterial genomes: new substitution models incorporating strand bias.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

An improved implementation of effective number of codons (nc).

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

Thermal adaptation of the small subunit ribosomal RNA gene: a comparative study

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

DNA Methylation and Mycoplasma Genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

Mutation and selection on the anticodon of tRNA genes in vertebrate mitochondrial genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

Bioinformatics and the Cell

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

Information-theoretic indices and an approximate significance test for testing the molecular clock hypothesis with genetic distances

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

Genomic adaptation to acidic environment: evidence from Helicobacter pylori

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

Effects of GC content and mutational pressure on the lengths of exons and coding sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

A distance-based least-square method for dating speciation events

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

18S ribosomal RNA and tetrapod phylogeny

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

Rapid evolution of animal mitochondrial DNA

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

Assessing substitution saturation with DAMBE

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMST064

Topological bias in distance-based phylogenetic methods: problems with over- and underestimated genetic distances

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3684854

Origin of replication of Mycoplasma genitalium

27 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23564938

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

A simple method for estimating the parameter of substitution rate variation among sites

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23564938

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23564938

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

The Phylogenetic Handbook

1 reference

20 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1093/MOLBEV/MST064

An Improved Implementation of Codon Adaptation Index

1 reference

20 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1093/MOLBEV/MST064

Identifiers

DOI

10.1093/MOLBEV/MST064

1 reference

1 reference

1 reference

PubMed publication ID

23564938

1 reference