Literature DB >> 15180933

Visualizations for taxonomic and phylogenetic trees.

Cynthia Sims Parr1, Bongshin Lee, Dana Campbell, Benjamin B Bederson.   

Abstract

MOTIVATION: Despite substantial efforts to develop and populate the back-ends of biological databases, front-ends to these systems often rely on taxonomic expertise. This research applies techniques from human-computer interaction research to the biodiversity domain.
RESULTS: We developed an interactive node-link tool, TaxonTree, illustrating the value of a carefully designed interaction model, animation, and integrated searching and browsing towards retrieval of biological names and other information. Users tested the tool using a new, large integrated dataset of animal names with phylogenetic-based and classification-based tree structures. These techniques also translated well for a tool, DoubleTree, to allow comparison of trees using coupled interaction. Our approaches will be useful not only for biological data but as general portal interfaces.

Entities:  

Mesh:

Year:  2004        PMID: 15180933     DOI: 10.1093/bioinformatics/bth345

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


  4 in total

1.  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

2.  Context-Aware Phylogenetic Trees for Phylogeny-Based Taxonomy Visualization.

Authors:  Gizem Kaya; Chisom Ezekannagha; Dominik Heider; Georges Hattab
Journal:  Front Genet       Date:  2022-05-18       Impact factor: 4.772

3.  Three-Dimensional Phylogeny Explorer: distinguishing paralogs, lateral transfer, and violation of "molecular clock" assumption with 3D visualization.

Authors:  Namshin Kim; Christopher Lee
Journal:  BMC Bioinformatics       Date:  2007-06-20       Impact factor: 3.169

4.  The Encyclopedia of Life v2: Providing Global Access to Knowledge About Life on Earth.

Authors:  Cynthia S Parr; Nathan Wilson; Patrick Leary; Katja S Schulz; Kristen Lans; Lisa Walley; Jennifer A Hammock; Anthony Goddard; Jeremy Rice; Marie Studer; Jeffrey T G Holmes; Robert J Corrigan
Journal:  Biodivers Data J       Date:  2014-04-29
  4 in total

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