(Q30421259)

13 October 2017

Integrating sequence variation and protein structure to identify sites under selection (English)

1 reference

13 October 2017

2

1 reference

PubMed publication ID

21 June 2017

Austin G Meyer

1

0 references

publication date

12 September 2012

1 reference

Molecular Biology and Evolution

13 October 2017

1 reference

13 October 2017

30

1 reference

13 October 2017

1

1 reference

13 October 2017

36-44

1 reference

PMC publication ID

3525147

describes a project that uses

13 October 2017

PyMOL

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&rettype=xml&id=PMC3525147

cites work

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Influenza research database: an integrated bioinformatics resource for influenza research and surveillance.

20 June 2018

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Broadly neutralizing human antibody that recognizes the receptor-binding pocket of influenza virus hemagglutinin

20 June 2018

1 reference

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Slow protein evolutionary rates are dictated by surface-core association

20 June 2018

1 reference

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The relationship between relative solvent accessibility and evolutionary rate in protein evolution

20 June 2018

1 reference

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The genomic rate of molecular adaptation of the human influenza A virus

20 June 2018

1 reference

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Prevalence of epistasis in the evolution of influenza A surface proteins

20 June 2018

1 reference

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Permissive secondary mutations enable the evolution of influenza oseltamivir resistance

20 June 2018

1 reference

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Mutation-selection models of coding sequence evolution with site-heterogeneous amino acid fitness profiles

20 June 2018

1 reference

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Evolutionary fingerprinting of genes.

20 June 2018

1 reference

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Models of coding sequence evolution

20 June 2018

1 reference

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Quantifying the impact of protein tertiary structure on molecular evolution.

20 June 2018

1 reference

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Methods for selecting fixed-effect models for heterogeneous codon evolution, with comments on their application to gene and genome data.

20 June 2018

1 reference

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RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models

20 June 2018

1 reference

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Assessing site-interdependent phylogenetic models of sequence evolution

20 June 2018

1 reference

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Structural determinants of the rate of protein evolution in yeast.

20 June 2018

1 reference

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A Dirichlet process model for detecting positive selection in protein-coding DNA sequences.

20 June 2018

1 reference

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Site-to-site variation of synonymous substitution rates

20 June 2018

1 reference

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Not so different after all: a comparison of methods for detecting amino acid sites under selection

20 June 2018

1 reference

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HyPhy: hypothesis testing using phylogenies

20 June 2018

1 reference

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MUSCLE: multiple sequence alignment with high accuracy and high throughput

20 June 2018

1 reference

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Protein evolution with dependence among codons due to tertiary structure.

20 June 2018

1 reference

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Codon-substitution models for heterogeneous selection pressure at amino acid sites

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525147

Solvent accessibility and purifying selection within proteins of Escherichia coli and Salmonella enterica.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525147

Predicting the evolution of human influenza A.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525147

Universally conserved positions in protein folds: reading evolutionary signals about stability, folding kinetics and function

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525147

Assessing the impact of secondary structure and solvent accessibility on protein evolution.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525147

Likelihood models for detecting positively selected amino acid sites and applications to the HIV-1 envelope gene

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525147

A codon-based model of nucleotide substitution for protein-coding DNA sequences

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525147

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

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525147

Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3525147

A new look at the statistical model identification

20 June 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSS217

Multimodel Inference: Understanding AIC and BIC in Model Selection

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSS217

Solvent exposure imparts similar selective pressures across a range of yeast proteins.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSS217

Computational methods for evaluating phylogenetic models of coding sequence evolution with dependence between codons.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSS217

Codon-substitution models to detect adaptive evolution that account for heterogeneous selective pressures among site classes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSS217

Prediction of site-specific amino acid distributions and limits of divergent evolutionary changes in protein sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FMOLBEV%2FMSS217

Directionality in the evolution of influenza A haemagglutinin

21 January 2018

1 reference

12 December 2020

Structural determinants of protein evolution are context-sensitive at the residue level

1 reference

12 December 2020

A method for detecting positive selection at single amino acid sites

1 reference

12 December 2020

Site interdependence attributed to tertiary structure in amino acid sequence evolution

1 reference

12 December 2020

Identifiers

DOI

10.1093/MOLBEV/MSS217

1 reference

13 October 2017

1 reference

PMC publication ID

3525147

13 October 2017

PubMed publication ID

22977116

1 reference

PMC publication ID

3525147