Skip Navigation



Bioinformatics Advance Access published online on June 4, 2004
Bioinformatics, doi:10.1093/bioinformatics/bth345
Bioinformatics © Oxford University Press 2004; all rights reserved
This Article
Right arrow Advance Access manuscript (PDF) Freely available
Right arrow All Versions of this Article:
20/17/2997    most recent
bth345v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Parr, C. S.
Right arrow Articles by Bederson, B. B.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Parr, C. S.
Right arrow Articles by Bederson, B. B.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Received February 27, 2004
Revised May 3, 2004
Accepted May 25, 2004

Article

Visualizations for taxonomic and phylogenetic trees

Cynthia Sims Parr 1*, Bongshin Lee 2, Dana Campbell 2, Benjamin B. Bederson 3

1 Human-Computer Interaction Lab, Univ. of Maryland, College Park, MD 20742; Museum of Zoology, Univ. of Michigan, Ann Arbor, MI 48109
2 Human-Computer Interaction Lab, Univ. of Maryland, College Park, MD 20742
3 Human-Computer Interaction Lab, Computer Science Department, Univ. of Maryland, College Park, MD 20742

* To whom correspondence should be addressed. E-mail: csparr{at}umd.edu.


  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.

Availability: Working versions of TaxonTree and DoubleTree and video demonstrations of DoubleTree are available at {{http://www.cs.umd.edu/hcil/biodiversity}}.

Supplementary Information: All datasets and folk tree illustration are available at {{http://www.cs.umd.edu/hcil/biodiversity}}.


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 BioinformaticsHome page
I. Letunic and P. Bork
Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation
Bioinformatics, January 1, 2007; 23(1): 127 - 128.
[Abstract] [Full Text] [PDF]


Disclaimer:
Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.