(Q28657971)

Rauri C K Bowie

4

0 references

Edward L. Braun

Edward L Braun

15

0 references

Rebecca Kimball

Rebecca T Kimball

2

0 references

David W. Steadman

13

David W Steadman

0 references

Sushma Reddy

Sushma Reddy

11

0 references

author name string

Tamaki Yuri

1

0 references

John Harshman

3

0 references

Michael J Braun

5

0 references

Jena L Chojnowski

6

0 references

Kin-Lan Han

7

0 references

Shannon J Hackett

8

0 references

Christopher J Huddleston

9

0 references

William S Moore

10

0 references

Frederick H Sheldon

Creative Commons Attribution 4.0 International

12

0 references

language of work or name

English

0 references

publication date

13 March 2013

0 references

1 reference

2

0 references

issue

1

0 references

page(s)

419-44

0 references

copyright license

start time

13 March 2013

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

A phylogeny of birds based on over 1,500 loci collected by target enrichment and high-throughput sequencing

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Multiple nuclear genes and retroposons support vicariance and dispersal of the palaeognaths, and an Early Cretaceous origin of modern birds

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Mesozoic retroposons reveal parrots as the closest living relatives of passerine birds

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Sources of signal in 62 protein-coding nuclear genes for higher-level phylogenetics of arthropods

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Homoplastic microinversions and the avian tree of life

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Evolution of modern birds revealed by mitogenomics: timing the radiation and origin of major orders

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Novel intron markers to study the phylogeny of closely related mammalian species

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Tinamous and moa flock together: mitochondrial genome sequence analysis reveals independent losses of flight among ratites

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Higher-order phylogeny of modern birds (Theropoda, Aves: Neornithes) based on comparative anatomy. II. Analysis and discussion

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

A phylogenomic study of birds reveals their evolutionary history

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Waves of genomic hitchhikers shed light on the evolution of gamebirds (Aves: Galliformes)

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Diversification of Neoaves: integration of molecular sequence data and fossils

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Indel evolution of mammalian introns and the utility of non-coding nuclear markers in eutherian phylogenetics

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

The RAG-1 exon in the avian order Caprimulgiformes: Phylogeny, heterozygosity, and base composition

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Links between maximum likelihood and maximum parsimony under a simple model of site substitution

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

A multi-gene estimate of phylogeny in the nightjars and nighthawks (Caprimulgidae)

17 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

A likelihood approach to estimating phylogeny from discrete morphological character data

6 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Is a new and general theory of molecular systematics emerging?

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Gaps as characters in sequence-based phylogenetic analyses

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Links between maximum likelihood and maximum parsimony under a simple model of site substitution

7 April 2017

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Microevolutionary processes generate phylogenomic discordance at ancient divergences

28 May 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Ratite nonmonophyly: independent evidence from 40 novel Loci

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Standard maximum likelihood analyses of alignments with gaps can be statistically inconsistent

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

A species tree for the Australo-Papuan Fairy-wrens and allies (Aves: Maluridae).

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Testing hypotheses about the sister group of the passeriformes using an independent 30-locus data set.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Biologically inspired phylogenetic models strongly outperform the no common mechanism model.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Multiple sequence alignment: a major challenge to large-scale phylogenetics

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Phylogenetic inference under varying proportions of indel-induced alignment gaps

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Toward resolving deep neoaves phylogeny: data, signal enhancement, and priors

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Wagner and Dollo: a stochastic duet by composing two parsimonious solos.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Duplication of accelerated evolution and growth hormone gene in passerine birds

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

SeqState: primer design and sequence statistics for phylogenetic DNA datasets

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Parallel radiations in the primary clades of birds

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Birds in a bush: five genes indicate explosive evolution of avian orders

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

New nuclear evidence for the oldest divergence among neognath birds: the phylogenetic utility of ZENK (i).

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Coelomata and not Ecdysozoa: evidence from genome-wide phylogenetic analysis

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

True and false gharials: a nuclear gene phylogeny of crocodylia

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Covariation in frequencies of substitution, deletion, transposition, and recombination during eutherian 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=4009869

Incorporation, relative homoplasy, and effect of gap characters in sequence-based 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=4009869

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Comparative painting reveals strong chromosome homology over 80 million years of bird 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=4009869

Basal divergences in birds and the phylogenetic utility of the nuclear RAG-1 gene

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Efficiencies of different genes and different tree-building methods in recovering a known vertebrate 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=4009869

Evolution of a noncoding region of the chloroplast genome

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

The order of sequence alignment can bias the selection of tree topology.

3 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4009869

Molecular phylogenetics of the lizard genus Microlophus (squamata:tropiduridae): aligning and retrieving indel signal from nuclear introns

3 June 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Alignment and phylogenetic analysis of beta-fibrinogen intron 7 sequences among avian orders reveal conserved regions within the intron

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Introns outperform exons in analyses of basal avian phylogeny using clathrin heavy chain genes.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Opinions on multiple sequence alignment, and an empirical comparison of repeatability and accuracy between POY and structural alignment.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Nematode small subunit phylogeny correlates with alignment parameters

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Rapid and accurate large-scale coestimation of sequence alignments and phylogenetic trees

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

On the best evolutionary rate for phylogenetic analysis.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Phylogenetic utility and evolution of indels: a study in neognathous birds

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

The Parsimony Ratchet, a New Method for Rapid Parsimony Analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Nucleotide substitution models and estimation of phylogeny.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Convergence and divergence in the evolution of aquatic birds.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Evolution of terrestrial birds in three continents: biogeography and parallel radiations

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

The akaike information criterion will not choose the no common mechanism model.

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Phylogenetics, biogeography and classification of, and character evolution in, gamebirds (Aves: Galliformes): effects of character exclusion, data partitioning and missing data

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

THE RETENTION INDEX AND THE RESCALED CONSISTENCY INDEX

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Combined phylogenetic analysis of a new North American fossil species confirms widespread Eocene distribution for stem rollers (Aves, Coracii)

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Comparative molecular evolution and phylogenetic utility of 3′-UTRs and introns in Galliformes

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

A well-tested set of primers to amplify regions spread across the avian genome

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

PHYLOGENETIC POSITION OF THE NEW WORLD QUAIL (ODONTOPHORIDAE): EIGHT NUCLEAR LOCI AND THREE MITOCHONDRIAL REGIONS CONTRADICT MORPHOLOGY AND THE SIBLEY-AHLQUIST TAPESTRY

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Targeting optimal introns for phylogenetic analyses in non-model taxa: experimental results in Asian pitvipers

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Large-Scale Parsimony Analysis of Metazoan Indels in Protein-Coding Genes

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Multiple Sequence Alignment Accuracy and Phylogenetic Inference

21 January 2018

1 reference

https://api.crossref.org/works/10.3390%2FBIOLOGY2010419

Gaps: An Elusive Source of Phylogenetic Information

21 January 2018

1 reference

12 December 2020

POLYTOMIES, THE POWER OF PHYLOGENETIC INFERENCE, AND THE STOCHASTIC NATURE OF MOLECULAR EVOLUTION: A COMMENT ON WALSH ET AL. (1999)

1 reference

12 December 2020

Retroposon insertion patterns of neoavian birds: strong evidence for an extensive incomplete lineage sorting era

1 reference

12 December 2020

Deletion bias in avian introns over evolutionary timescales

1 reference

12 December 2020

PHYLOGENIES FROM RESTRICTION SITES: A MAXIMUM-LIKELIHOOD APPROACH.

1 reference

12 December 2020

Should we use model-based methods for phylogenetic inference when we know that assumptions about among-site rate variation and nucleotide substitution pattern are violated?

1 reference

12 December 2020

Why would phylogeneticists ignore computerized sequence alignment?

1 reference

12 December 2020