WebGIVI: A Website Visualization of Gene and iTerm

Abstract: The challenge of high throughput transcriptome studies is to present the data to researchers in an interpretable format.  In many cases, the outputs of such studies are gene lists which are then examined for enriched biological concepts.  One approach is to associate genes and informative terms (iTerm) that are obtained from the biomedical literature using eGIFT.  However, examining large lists of iTerm and gene pairs is a challenge. We have developed WebGIVI, a user-friendly web interface (http://raven.anr.udel.edu/~sunliang/biolayout/index.php), which was built via Cytoscape JavaScript graph library and can be used to visualize gene and iTerm pairs. WebGIVI can accept EntrezGene list that will be used to retrieve a gene symbol and iTerm list.  This list can be resubmitted to visualize the gene-iTerm pairs using either WebGIVI or BioLayout. A variety of visualization formats are available in WebGIVI including force directed, tree and circle.  Visualized Graph on the website can also be saved as PNG format.