Content area
Abstract
Protein-protein interaction networks (PPNs) and gene regulatory networks (GRNs) visualize protein-binding and gene regulation respectively. Advancements in screening technologies such as enhanced yeast-one-hybrid and protein binding predictions have allowed for high throughput determination of such networks. Currently, Arabidopsis-based GRN and PPN viewers are restricted to ad-hoc networks and do not link out to external sources. I created two interactive web-based viewers, Arabidopsis Interactions Viewer 2.0 (AIV2) and Arabidopsis GEne Network Tool (AGENT) to visualize PPNs and GRNs respectively. Features include dynamic interaction filtering, uploading and downloading network data, subcellular-focused network layouts, and loading Bio-Analytic Resource’s (BAR) expression data onto genes. Data visualization principles are applied such as rapid serial visual presentation (RSVP) and Shneiderman’s mantra of details-on-demand. Moreover, AGENT is a framework for GRN curation which allows future expansion. Lastly, I demonstrate how to use these tools for hypothesis generation.
