(Q35139393)

6 August 2017

title

TreSpEx-Detection of Misleading Signal in Phylogenetic Reconstructions Based on Tree Information (English)

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6 August 2017

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1

Torsten H Struck

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6 August 2017

publication date

31 March 2014

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Evolutionary Bioinformatics

6 August 2017

published in

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6 August 2017

volume

10

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6 August 2017

page(s)

51-67

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Illuminating the base of the annelid tree using transcriptomics

6 August 2017

cites work

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13 July 2018

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13 July 2018

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13 July 2018

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13 July 2018

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13 July 2018

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MicroRNAs and phylogenomics resolve the relationships of Tardigrada and suggest that velvet worms are the sister group of Arthropoda

13 July 2018

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13 July 2018

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13 July 2018

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Resolving difficult phylogenetic questions: why more sequences are not enough

13 July 2018

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Evolution of the order Urostylida (Protozoa, Ciliophora): new hypotheses based on multi-gene information and identification of localized incongruence

13 July 2018

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Phylogenomic analyses unravel annelid evolution

13 July 2018

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13 July 2018

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13 July 2018

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On the phylogenetic position of Myzostomida: can 77 genes get it wrong?

13 July 2018

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Recovering evolutionary trees under a more realistic model of sequence evolution

13 July 2018

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Phylogenomics revives traditional views on deep animal relationships

13 July 2018

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Concatenated analysis sheds light on early metazoan evolution and fuels a modern "urmetazoon" hypothesis

13 July 2018

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Broad phylogenomic sampling improves resolution of the animal tree of life

13 July 2018

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13 July 2018

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Data congruence, paedomorphosis and salamanders

13 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Toward resolving the eukaryotic tree: the phylogenetic positions of jakobids and cercozoans.

13 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Independent sorting-out of thousands of duplicated gene pairs in two yeast species descended from a whole-genome duplication

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Mitochondrial genome and nuclear sequence data support myzostomida as part of the annelid radiation

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

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

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

A total evidence assessment of the phylogeny of North American euctenizine trapdoor spiders (Araneae, Mygalomorphae, Cyrtaucheniidae) using Bayesian inference

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Phylogeny of Eunicida (Annelida) and exploring data congruence using a partition addition bootstrap alteration (PABA) approach

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Phylogenomics: the beginning of incongruence?

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Investigation of molluscan phylogeny using large-subunit and small-subunit nuclear rRNA sequences

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

A Bayesian mixture model for across-site heterogeneities in the amino-acid replacement process

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes

13 July 2018

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Partitioned likelihood support and the evaluation of data set conflict

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

An index of substitution saturation and its application

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Multiple sources of character information and the phylogeny of Hawaiian drosophilids

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Is congruence between data partitions a reliable predictor of phylogenetic accuracy? Empirically testing an iterative procedure for choosing among phylogenetic methods

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

An efficient algorithm for large-scale detection of protein families

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Multiple substitutions affect the phylogenetic utility of cytochrome b and 12S rDNA data: examining a rapid radiation in leporid (Lagomorpha) evolution

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Interaction of process partitions in phylogenetic analysis: an example from the swallowtail butterfly genus Papilio

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Effects of character weighting and species sampling on phylogeny reconstruction: a case study based on DNA sequence data in cetaceans

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Reconstructing evolutionary trees from DNA and protein sequences: paralinear distances

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

A simulation comparison of phylogeny algorithms under equal and unequal evolutionary rates

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Inferring ancient divergences requires genes with strong phylogenetic signals.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Detecting possibly saturated positions in 18S and 28S sequences and their influence on phylogenetic reconstruction of Annelida (Lophotrochozoa).

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Phylogeny and evolution of reproductive modes in Autolytinae (Syllidae, Annelida).

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

A new method to localize and test the significance of incongruence: detecting domain shuffling in the nuclear receptor superfamily

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Multigene phylogeny of land plants with special reference to bryophytes and the earliest land plants

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

The rooting of the universal tree of life is not reliable

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

The root of the tree of life in the light of the covarion model

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Molecular phylogenetics, tRNA evolution, and historical biogeography in anguid lizards and related taxonomic families

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Evolution of ruminant Sarcocystis (Sporozoa) parasites based on small subunit rDNA sequences

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Molecular cloning, sequencing, and phylogenetic relationships of a new potyvirus: sugarcane streak mosaic virus, and a reevaluation of the classification of the potyviridae

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Reciprocal gene loss between Tetraodon and zebrafish after whole genome duplication in their ancestor

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

16 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3972080

Tree robustness and clade significance

16 November 2018

1 reference

12 December 2020

Congruence Versus Phylogenetic Accuracy: Revisiting the Incongruence Length Difference Test

1 reference

12 December 2020

Detecting and Overcoming Systematic Errors in Genome-Scale Phylogenies

1 reference

12 December 2020

Confidence Limits on Phylogenies: an Approach using the Bootstrap

1 reference

12 December 2020

Phylogenetic Inference from Restriction Endonuclease Cleavage Site Maps with Particular Reference to the Evolution of Humans and the Apes

1 reference

12 December 2020

Identifiers

DOI

10.4137/EBO.S14239

1 reference

6 August 2017

1 reference

6 August 2017

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