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Literature DB >> 16030069

Phylogenetic trees: visualizing, customizing and detecting incongruence.

Geert Trooskens¹, David De Beule, Frederik Decouttere, Wim Van Criekinge.

Abstract

SUMMARY: TreeIllustrator is a user-friendly application to visualize and customize phylogenetic trees. It has a broad range of functions and capabilities, such as dragging of nodes, different tree shapes, zooming and searching capabilities, and support for large trees. It acts as a solution that integrates the specificity of visualizing phylogenetic trees and the customization options of a drawing program. It also contains a simple and effective method that compares a custom tree with the Tree of Life, by detecting incongruence.

Mesh：

Year: 2005 PMID： 16030069 DOI： 10.1093/bioinformatics/bti590

Source DB: PubMed Journal: Bioinformatics ISSN： 1367-4803 Impact factor: 6.937

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Cited

18 in total

1. Curve-based multivariate distance matrix regression analysis: application to genetic association analyses involving repeated measures.

Authors: Rany M Salem; Daniel T O'Connor; Nicholas J Schork
Journal: Physiol Genomics Date: 2010-04-27 Impact factor: 3.107

2. Multivariate regression analysis of distance matrices for testing associations between gene expression patterns and related variables.

Authors: Matthew A Zapala; Nicholas J Schork
Journal: Proc Natl Acad Sci U S A Date: 2006-12-04 Impact factor: 11.205

3. Generalized genomic distance-based regression methodology for multilocus association analysis.

Authors: Jennifer Wessel; Nicholas J Schork
Journal: Am J Hum Genet Date: 2006-09-21 Impact factor: 11.025

4. A reference guide for tree analysis and visualization.

Authors: Georgios A Pavlopoulos; Theodoros G Soldatos; Adriano Barbosa-Silva; Reinhard Schneider
Journal: BioData Min Date: 2010-02-22 Impact factor: 2.522

5. Ceramide phosphoethanolamine biosynthesis in Drosophila is mediated by a unique ethanolamine phosphotransferase in the Golgi lumen.

Authors: Ana M Vacaru; Joep van den Dikkenberg; Philipp Ternes; Joost C M Holthuis
Journal: J Biol Chem Date: 2013-02-28 Impact factor: 5.157

6. Phylogenetic and specificity studies of two-domain GNA-related lectins: generation of multispecificity through domain duplication and divergent evolution.

Authors: Els J M Van Damme; Sachiko Nakamura-Tsuruta; David F Smith; Maté Ongenaert; Harry C Winter; Pierre Rougé; Irwin J Goldstein; Hanqing Mo; Junko Kominami; Raphaël Culerrier; Annick Barre; Jun Hirabayashi; Willy J Peumans
Journal: Biochem J Date: 2007-05-15 Impact factor: 3.857

Phylogenetic trees: visualizing, customizing and detecting incongruence.

1. Curve-based multivariate distance matrix regression analysis: application to genetic association analyses involving repeated measures.

2. Multivariate regression analysis of distance matrices for testing associations between gene expression patterns and related variables.

3. Generalized genomic distance-based regression methodology for multilocus association analysis.

4. A reference guide for tree analysis and visualization.

5. Ceramide phosphoethanolamine biosynthesis in Drosophila is mediated by a unique ethanolamine phosphotransferase in the Golgi lumen.

6. Phylogenetic and specificity studies of two-domain GNA-related lectins: generation of multispecificity through domain duplication and divergent evolution.

7. More than a repair enzyme: Aspergillus nidulans photolyase-like CryA is a regulator of sexual development.

8. Parallel evolution between aromatase and androgen receptor in the animal kingdom.

9. Fatty acid activation in cyanobacteria mediated by acyl-acyl carrier protein synthetase enables fatty acid recycling.

10. Proteins with an Euonymus lectin-like domain are ubiquitous in Embryophyta.