ABSTRACT
Exploring coordinated relationships (e.g., shared relationships between two sets of entities) is an important analytics task in a variety of real-world applications, such as discovering similarly behaved genes in bioinformatics, detecting malware collusions in cyber security, and identifying products bundles in marketing analysis. Coordinated relationships can be formalized as biclusters. In order to support visual exploration of biclusters, bipartite graphs based visualizations have been proposed, and edge bundling is used to show biclusters. However, it suffers from edge crossings due to possible overlaps of biclusters, and lacks in-depth understanding of its impact on user exploring biclusters in bipartite graphs. To address these, we propose a novel bicluster-based seriation technique that can reduce edge crossings in bipartite graphs drawing and conducted a user experiment to study the effect of edge bundling and this proposed technique on visualizing biclusters in bipartite graphs. We found that they both had impact on reducing entity visits for users exploring biclusters, and edge bundles helped them find more justified answers. Moreover, we identified four key trade-offs that inform the design of future bicluster visualizations. The study results suggest that edge bundling is critical for exploring biclusters in bipartite graphs, which helps to reduce low-level perceptual problems and support high-level inferences.
ABSTRACT
SUMMARY: Networks have become ubiquitous in systems biology. Visualization is a crucial component in their analysis. However, collaborations within research teams in network biology are hampered by software systems that are either specific to a computational algorithm, create visualizations that are not biologically meaningful, or have limited features for sharing networks and visualizations. We present GraphSpace, a web-based platform that fosters team science by allowing collaborating research groups to easily store, interact with, layout and share networks. AVAILABILITY AND IMPLEMENTATION: Anyone can upload and share networks at http://graphspace.org. In addition, the GraphSpace code is available at http://github.com/Murali-group/graphspace if a user wants to run his or her own server. CONTACT: murali@cs.vt.edu. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
