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Synteny Explorer: An Interactive Visualization Application for Teaching Genome Evolution
- Source :
- IEEE Transactions on Visualization and Computer Graphics. 23:711-720
- Publication Year :
- 2017
- Publisher :
- Institute of Electrical and Electronics Engineers (IEEE), 2017.
-
Abstract
- Rapid advances in biology demand new tools for more active research dissemination and engaged teaching. This paper presents Synteny Explorer, an interactive visualization application designed to let college students explore genome evolution of mam- malian species. The tool visualizes synteny blocks: segments of homologous DNA shared between various extant species that can be traced back or reconstructed in extinct, ancestral species. We take a karyogram-based approach to create an interactive synteny visualization, leading to a more appealing and engaging design for undergraduate-level genome evolution education. For validation, we conduct three user studies: two focused studies on color and animation design choices and a larger study that performs overall system usability testing while comparing our karyogram-based designs with two more common genome mapping representations in an educational context. While existing views communicate the same information, study participants found the interactive, karyogram- based views much easier and likable to use. We additionally discuss feedback from biology and genomics faculty, who judge Synteny Explorer’s fitness for use in classrooms.
- Subjects :
- 0301 basic medicine
Genome evolution
Computer science
Genomics
Context (language use)
02 engineering and technology
Bioinformatics
Synteny
Article
World Wide Web
User-Computer Interface
03 medical and health sciences
chemistry.chemical_compound
Extant taxon
Gene mapping
Phylogenetics
Computer Graphics
Image Processing, Computer-Assisted
0202 electrical engineering, electronic engineering, information engineering
Homologous chromosome
Animals
Humans
Interactive visualization
Phylogeny
Chromosome Mapping
Chromosome
020207 software engineering
Computer Graphics and Computer-Aided Design
Visualization
030104 developmental biology
chemistry
Signal Processing
Computer Vision and Pattern Recognition
Software
DNA
Subjects
Details
- ISSN :
- 10772626
- Volume :
- 23
- Database :
- OpenAIRE
- Journal :
- IEEE Transactions on Visualization and Computer Graphics
- Accession number :
- edsair.doi.dedup.....b28e11ae92c31e6d517b91a414fd8c67
- Full Text :
- https://doi.org/10.1109/tvcg.2016.2598789