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We present the results of evaluating four techniques for displaying group or cluster information overlaid on node-link diagrams: node coloring, GMap, BubbleSets, and LineSets. The contributions of the paper are three fold. First, we present quantitative results and statistical analyses of data from an online study in which approximately 800 subjects(More)
Reversible protein phosphorylation plays a pivotal role in the regulation of cellular signaling pathways. Current approaches in phosphoproteomics focus on analysis of the global phosphoproteome in a single cellular state or of receptor stimulation time course experiments, often with a restricted number of time points. Although these studies have provided(More)
We introduce two-dimensional neural maps for exploring connectivity in the brain. For this, we create standard streamtube models from diffusion-weighted brain imaging data sets along with neural paths hierarchically projected into the plane. These planar neural maps combine desirable properties of low-dimensional representations, such as visual clarity and(More)
We introduce the concept of coloring close and crossing edges in graph drawings with perceptually opposing colors making them individually more distinguishable and reducing edge-crossing effects. We define a "closeness" metric on edges as a combination of distance, angle and crossing. We use the inverse of this metric to compute a color embedding in the(More)
We visualize gene co-regulation patterns by creating 2D embeddings from microarray data corresponding to complete gene sets from the mouse genome, across large numbers of cell types. We use google maps and client-side graphics to dissiminate pre-rendered such visualizations with a small but intuitive set of interactions. We conduct an anecdotal evaluation(More)
We present a novel method for creating 3D animations by letting users act directly on 3D characters in a virtual reality Cave [CruzNeira et al. 1993] environment. Our system records the performance of the animator as she manipulates the character’s joints and limbs using 3D trackers. By making multiple passes, animators can layer simple motions to create(More)
We present a visual exploration paradigm that facilitates navigation through complex fiber tracts by combining traditional 3D model viewing with lower dimensional representations. To this end, we create standard streamtube models along with two two-dimensional representations, an embedding in the plane and a hierarchical clustering tree, for a given set of(More)
Graphs, generally used as data structures in computer science applications, have steadily shown a growth in mapping various types of relationships, from maps to computer networks to social networks. As graph layouts and visualizations have been at the forefront of graph drawing research for decades, it consequently led to aesthetic heuristics that not only(More)
We introduce several novel visualization and interaction paradigms for visual analysis of published protein-protein interaction networks, canonical signaling pathway models, and quantitative proteomic data. We evaluate them anecdotally with domain scientists to demonstrate their ability to accelerate the proteomic analysis process. Our results suggest that(More)
Subtle changes in analysis system interfaces can be used purposely to alter users' analytic behaviors. In a controlled study subjects completed three analyses at one-week intervals using an analysis support system. Control subjects used one interface in all sessions. Test subjects used modified versions in the last two sessions: a first set of changes aimed(More)