MizBee: A Multiscale Synteny Browser

Authors

Miriah Meyer; Tamara Munzner; Hanspeter Pfister



Abstract

In the field of comparative genomics, scientists seek to answer questions about evolution and genomic function by com- paring the genomes of species to find regions of shared sequences. Conserved syntenic blocks are an important biological data abstraction for indicating regions of shared sequences. The goal of this work is to show multiple types of relationships at multiple scales in a way that is visually comprehensible in accordance with known perceptual principles. We present a task analysis for this domain where the fundamental questions asked by biologists can be understood by a characterization of relationships into the four types of proximity/location, size, orientation, and similarity/strength, and the four scales of genome, chromosome, block, and genomic feature. We also propose a new taxonomy of the design space for visually encoding conservation data. We present MizBee, a multiscale synteny browser with the unique property of providing interactive side-by-side views of the data across the range of scales supporting exploration of all of these relationship types. We conclude with case studies from two biologists who used MizBee to aug- ment their previous automatic analysis work flow, providing anecdotal evidence about the efficacy of the system for the visualization of syntenic data, the analysis of conservation relationships, and the communication of scientific insights.

Paper

mizbee.pdf

Related Projects

Visualizing Biological Data

BibTex entry

@article { 272, title = {MizBee: A Multiscale Synteny Browser}, journal = {IEEE Transactions on Visualization and Computer Graphics}, year = {2009}, author = {Miriah Meyer and Tamara Munzner and Hanspeter Pfister} }