Evaluation of methods for detecting recombination from DNA sequences: computer simulations (Q33950030)

30 July 2017

title

Evaluation of methods for detecting recombination from DNA sequences: computer simulations (English)

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30 July 2017

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30 July 2017

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K A Crandall

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30 July 2017

language of work or name

English

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publication date

1 November 2001

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

30 July 2017

published in

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30 July 2017

volume

98

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30 July 2017

issue

24

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30 July 2017

page(s)

13757-13762

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Among-site rate variation and its impact on phylogenetic analyses

30 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Recombination in the hemagglutinin gene of the 1918 "Spanish flu".

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

A novel approach to detecting and measuring recombination: new insights into evolution in viruses, bacteria, and mitochondria

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Does recombination improve selection on codon usage? Lessons from nematode and fly complete genomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Recombination within natural populations of pathogenic bacteria: short-term empirical estimates and long-term phylogenetic consequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Consequences of recombination on traditional phylogenetic analysis.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Complex promoter and coding region beta 2-adrenergic receptor haplotypes alter receptor expression and predict in vivo responsiveness

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

The coalescent with gene conversion

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

The detection and measurement of recombination from sequence data

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Evidence that a plant virus switched hosts to infect a vertebrate and then recombined with a vertebrate-infecting virus

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Phylogenetic evidence for recombination in dengue virus

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

The ancestry of a sample of sequences subject to recombination

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

The effect of evenly spaced constant sites on the distribution of the random division of a molecular sequence

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Phylogenetic profiles: a graphical method for detecting genetic recombinations in homologous sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Ancestral inference from samples of DNA sequences with recombination.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

A program for calculating and displaying compatibility matrices as an aid in determining reticulate evolution in molecular sequences.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Recombination in AIDS viruses

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Evolutionary trees from DNA sequences: A maximum likelihood approach

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

The use of sample genealogies for studying a selectively neutral m-loci model with recombination.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Statistical properties of the number of recombination events in the history of a sample of DNA sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Dating of the human-ape splitting by a molecular clock of mitochondrial DNA

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Statistical methods of DNA sequence analysis: detection of intragenic recombination or gene conversion

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Genetic exchange among natural isolates of bacteria: recombination within the phoA gene of Escherichia coli

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Reconstructing evolution of sequences subject to recombination using parsimony

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Gene conversion in the evolution of the human and chimpanzee MHC class I loci

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Analyzing the mosaic structure of genes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

The influence of recombination on the population structure and evolution of the human pathogen Neisseria meningitidis

5 July 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.241370698

Unveiling the Molecular Clock in the Presence of Recombination

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.241370698

Detecting and characterizing gene conversions between multigene family members.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.241370698

A simulation study of the reliability of recombination detection methods.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.241370698

Recombination as a point process along sequences.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.241370698

A likelihood method for the detection of selection and recombination using nucleotide sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.241370698

RDP: detection of recombination amongst aligned sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.241370698

The partition matrix: exploring variable phylogenetic signals along nucleotide sequence alignments

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.241370698

Comments on the detection of reciprocal recombination or gene conversion.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.241370698

Genotyping, gene genealogies and genomics bring fungal population genetics above ground.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Statistical tests for detecting gene conversion.

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=61114

Recombination and the molecular clock

29 October 2018

1 reference

12 December 2020

The power to detect recombination using the coalescent

1 reference

12 December 2020

DISTANCE METHODS FOR INFERRING PHYLOGENIES: A JUSTIFICATION

1 reference

12 December 2020

Properties of a neutral allele model with intragenic recombination

1 reference

12 December 2020

Identification of breakpoints in intergenotypic recombinants of HIV type 1 by bootscanning

1 reference

12 December 2020

Detecting recombination from gene trees

1 reference

12 December 2020

Identifiers

DOI

10.1073/PNAS.241370698

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30 July 2017

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30 July 2017

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