Modeling the site-specific variation of selection patterns along lineages (Q37512128)

20 August 2017

Modeling the site-specific variation of selection patterns along lineages (English)

1 reference

20 August 2017

2

Allen G Rodrigo

1 reference

20 August 2017

Stéphane Guindon

1

1 reference

20 August 2017

Kelly A Dyer

series ordinal

3

1 reference

20 August 2017

John P Huelsenbeck

series ordinal

4

1 reference

20 August 2017

language of work or name

English

0 references

publication date

23 August 2004

1 reference

Proceedings of the National Academy of Sciences of the United States of America

20 August 2017

1 reference

20 August 2017

101

1 reference

20 August 2017

35

1 reference

20 August 2017

12957-12962

1 reference

Inferring nonneutral evolution from human-chimp-mouse orthologous gene trios

20 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Convergent neofunctionalization by positive Darwinian selection after ancient recurrent duplications of the xanthine dehydrogenase gene

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

The loss of the hemoglobin H2S-binding function in annelids from sulfide-free habitats reveals molecular adaptation driven by Darwinian positive selection.

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Codon-substitution models for detecting molecular adaptation at individual sites along specific lineages

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Positive Darwinian selection drives the evolution of several female reproductive proteins in mammals

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Evidence for positive selection in foot-and-mouth disease virus capsid genes from field isolates

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

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

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Consistent viral evolutionary changes associated with the progression of human immunodeficiency virus type 1 infection

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Parallel evolution of drug resistance in HIV: failure of nonsynonymous/synonymous substitution rate ratio to detect selection

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

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

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Probabilistic reconstruction of ancestral protein sequences

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Pattern of nucleotide substitutions in growth hormone-prolactin gene family: a paradigm for evolution by gene duplication

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

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

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Evolutionary trees from DNA sequences: A maximum likelihood approach

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

A new method for estimating synonymous and nonsynonymous rates of nucleotide substitution considering the relative likelihood of nucleotide and codon changes

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Pattern of nucleotide substitution at major histocompatibility complex class I loci reveals overdominant selection

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Positive selection is a general phenomenon in the evolution of abalone sperm lysin

23 August 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Immune-mediated positive selection drives human immunodeficiency virus type 1 molecular variation and predicts disease duration.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Modeling the covarion hypothesis of nucleotide substitution.

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

Episodic adaptive evolution of primate lysozymes

25 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=516501

A codon-based model of host-specific selection in parasites, with an application to the influenza A virus

25 June 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0402177101

Bayesian estimation of positively selected sites

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0402177101

ADAPTIVE EVOLUTION OF PHOTORECEPTORS AND VISUAL PIGMENTS IN VERTEBRATES

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.0402177101

Positive and negative selection in the DAZ gene family

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15326304

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Positive selection at sites of multiple amino acid replacements since rat–mouse divergence

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15326304

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

In search of molecular darwinism

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/15326304

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1073/PNAS.0402177101

1 reference

20 August 2017

0 references

1 reference

20 August 2017

PubMed publication ID

15326304

1 reference