(Q35196965)

7 August 2017

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title

Taking the first steps towards a standard for reporting on phylogenies: Minimum Information About a Phylogenetic Analysis (MIAPA) (English)

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7 August 2017

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2

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7 August 2017

11

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7 August 2017

22

Kimmen Sjölander

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Christian M Zmasek

Christian Zmasek

28

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Joseph Christopher Pires

J Chris Pires

19

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Elizabeth Anne Kellogg

Elizabeth A Kellogg

15

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Eugene Koonin

16

Eugene V Koonin

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7 August 2017

24

Pamela S Soltis

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7 August 2017

27

Tandy Warnow

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7 August 2017

23

Douglas E Soltis

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7 August 2017

21

Seung Y Rhee

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7 August 2017

18

Hervé Philippe

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7 August 2017

8

Claude dePamphilis

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7 August 2017

1

Jim Leebens-Mack

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7 August 2017

10

Jeff J Doyle

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7 August 2017

14

Robert K Jansen

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7 August 2017

26

Kerr Wall

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7 August 2017

Dennis William Stevenson

25

Dennis W Stevenson

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7 August 2017

4

John E Bowers

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7 August 2017

20

Yin-Long Qiu

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7 August 2017

Eric Brenner

3

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7 August 2017

Steven Cannon

5

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7 August 2017

Mark J Clement

6

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7 August 2017

Clifford W Cunningham

7

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7 August 2017

Rob deSalle

9

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7 August 2017

Xun Gu

12

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7 August 2017

John Harshman

13

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7 August 2017

Brent D Mishler

17

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7 August 2017

Kimmen Sjölander

22

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7 August 2017

publication date

1 January 2006

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OMICS A Journal of Integrative Biology

7 August 2017

published in

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7 August 2017

volume

10

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7 August 2017

issue

2

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7 August 2017

page(s)

231-237

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MGED standards: work in progress

7 August 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Phytome: a platform for plant comparative genomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

The Genomes On Line Database (GOLD) v.2: a monitor of genome projects worldwide

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Plant-based microarray data at the European Bioinformatics Institute. Introducing AtMIAMExpress, a submission tool for Arabidopsis gene expression data to ArrayExpress

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Protein molecular function prediction by Bayesian phylogenomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

The cobweb of life revealed by genome-scale estimates of horizontal gene transfer

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Extracting meaning from functional genomics experiments

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Decoding the genomic tree of life

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Bayesian coestimation of phylogeny and sequence alignment

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Rapid evolution of expression and regulatory divergences after yeast gene duplication

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

The TIGR Gene Indices: clustering and assembling EST and known genes and integration with eukaryotic genomes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

ArrayExpress--a public repository for microarray gene expression data at the EBI

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

The Adaptive Evolution Database (TAED): a phylogeny based tool for comparative genomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Reconstructing large regions of an ancestral mammalian genome in silico

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Phylogenomics of eukaryotes: impact of missing data on large alignments

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Statistical framework for phylogenomic analysis of gene family expression profiles

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Darwin's abominable mystery: Insights from a supertree of the angiosperms

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

A comparative phylogenetic approach for dating whole genome duplication events

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Phylogenomic inference of protein molecular function: advances and challenges

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Phylogenomics: intersection of evolution and genomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

The small-world dynamics of tree networks and data mining in phyloinformatics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Induced gene expression in human brain after the split from chimpanzee

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Design and implementation of microarray gene expression markup language (MAGE-ML)

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Genome trees and the tree of life

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Bias in phylogenetic estimation and its relevance to the choice between parsimony and likelihood methods

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Minimum information about a microarray experiment (MIAME)-toward standards for microarray data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

New approaches for reconstructing phylogenies from gene order data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Phylogenomics: improving functional predictions for uncharacterized genes by evolutionary analysis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

The robustness of two phylogenetic methods: four-taxon simulations reveal a slight superiority of maximum likelihood over neighbor joining

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Rec-I-DCM3: a fast algorithmic technique for reconstructing large phylogenetic trees.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

TreeFam: a curated database of phylogenetic trees of animal gene families

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

The Yeast Gene Order Browser: combining curated homology and syntenic context reveals gene fate in polyploid species

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Simultaneous statistical multiple alignment and phylogeny reconstruction.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Genome sequencing in microfabricated high-density picolitre reactors

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Phylogenomics and the reconstruction of the tree of life

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

NCBI GEO: mining millions of expression profiles--database and tools

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Whole proteome prokaryote phylogeny without sequence alignment: a K-string composition approach

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

Experimental Phylogenetics: Generation of a Known Phylogeny

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3167193

SATCHMO: sequence alignment and tree construction using hidden Markov models

26 September 2018

1 reference

12 December 2020

Parallel molecular evolution of deletions and nonsense mutations in bacteriophage T7

1 reference

12 December 2020

SABmark--a benchmark for sequence alignment that covers the entire known fold space

1 reference

12 December 2020

Likelihood, parsimony, and heterogeneous evolution

1 reference

12 December 2020

BAliBASE 3.0: latest developments of the multiple sequence alignment benchmark

1 reference

12 December 2020

Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis

1 reference

12 December 2020

On the Importance of Standardisation in Life Sciences

1 reference

12 December 2020

Identifiers

DOI

10.1089/OMI.2006.10.231

1 reference

7 August 2017

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7 August 2017

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