4. Network Visualization

Like other network visualization tools, MONGKIE also provides basic graph representations (See Visual representation of biological entities and interactions) and many interactive ways to explore or edit a network, including Visual Editor UI, and Data-to-Visual Mapping (See Visual editor UI and Data-to-Visual mapping), zooming, filtering, searching (See Exploring network), and various graph layouts (See Graph layouts) etc. Furthermore, we implemented extended models for visualization of more complicated or interwoven biochemical reactions that can be multi-modal or hyper-graphs (Saraiya et al., 2005) involving more than two sub-components, therefore basic graph representations failed to model, for example, formation of protein complexes, interactions controlled by others (See Pathway visualization).

Table of Contents

• 4.1. Visual representation of biological entities and interactions
• 4.2. Pathway visualization
• 4.3. Visual editor UI and Data-to-Visual mapping
• 4.4. Exploring network
• 4.5. Graph layouts