Automating the design of graphical presentations of relational information
ACM Transactions on Graphics (TOG)
VisDB: Database Exploration Using Multidimensional Visualization
IEEE Computer Graphics and Applications
Interactive Exploration of Time Series Data
DS '01 Proceedings of the 4th International Conference on Discovery Science
An Insight-Based Methodology for Evaluating Bioinformatics Visualizations
IEEE Transactions on Visualization and Computer Graphics
Java Treeview---extensible visualization of microarray data
Bioinformatics
Zooming versus multiple window interfaces: Cognitive costs of visual comparisons
ACM Transactions on Computer-Human Interaction (TOCHI)
Processing: A Programming Handbook for Visual Designers and Artists
Processing: A Programming Handbook for Visual Designers and Artists
Overview Use in Multiple Visual Information Resolution Interfaces
IEEE Transactions on Visualization and Computer Graphics
LiveRAC: interactive visual exploration of system management time-series data
Proceedings of the SIGCHI Conference on Human Factors in Computing Systems
Cerebral: Visualizing Multiple Experimental Conditions on a Graph with Biological Context
IEEE Transactions on Visualization and Computer Graphics
Visualizing Temporal Dynamics at the Genomic and Metabolic Level
IV '09 Proceedings of the 2009 13th International Conference Information Visualisation
MizBee: A Multiscale Synteny Browser
IEEE Transactions on Visualization and Computer Graphics
GeneShelf: A Web-based Visual Interface for Large Gene Expression Time-Series Data Repositories
IEEE Transactions on Visualization and Computer Graphics
Configuring Hierarchical Layouts to Address Research Questions
IEEE Transactions on Visualization and Computer Graphics
EACL 2012 Proceedings of the EACL 2012 Joint Workshop of LINGVIS & UNCLH
Visualization of time-series data in parameter space for understanding facial dynamics
EuroVis'11 Proceedings of the 13th Eurographics / IEEE - VGTC conference on Visualization
Temporal visualization of boundary-based geo-information using radial projection
EuroVis'11 Proceedings of the 13th Eurographics / IEEE - VGTC conference on Visualization
Pathway preserving representation of metabolic networks
EuroVis'11 Proceedings of the 13th Eurographics / IEEE - VGTC conference on Visualization
An interactive analysis and exploration tool for epigenomic data
EuroVis '13 Proceedings of the 15th Eurographics Conference on Visualization
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Biologists pioneering the new field of comparative functional genomics attempt to infer the mechanisms of gene regulation by looking for similarities and differences of gene activity over time across multiple species. They use three kinds of data: functional data such as gene activity measurements, pathway data that represent a series of reactions within a cellular process, and phylogenetic relationship data that describe the relatedness of species. No existing visualization tool can visually encode the biologically interesting relationships between multiple pathways, multiple genes, and multiple species. We tackle the challenge of visualizing all aspects of this comparative functional genomics dataset with a new interactive tool called Pathline. In addition to the overall characterization of the problem and design of Pathline, our contributions include two new visual encoding techniques. One is a new method for linearizing metabolic pathways that provides appropriate topological information and supports the comparison of quantitative data along the pathway. The second is the curvemap view, a depiction of time series data for comparison of gene activity and metabolite levels across multiple species. Pathline was developed in close collaboration with a team of genomic scientists. We validate our approach with case studies of the biologists' use of Pathline and report on how they use the tool to confirm existing findings and to discover new scientific insights.