CE - 17.29

Title: 

GeneDive - Gene Interaction Search and Discovery

Author(s): 

Brook Thomas

Oral Defence Date: 

12/08/2017

Location: 

TH 434

Committee: 

Asst. Prof. Kulkarni, Prof. Dragutin Petkovic & CCLS Reasearch Assoc. Mike Wong

Abstract: 

One of the important activities involved in Biocuration is that of cataloging mentions of gene interactions from biological and medical literature. A complete understanding of these interactions is beneficial to the fields of genetics and medicine. As the rate of academic publication increases year over year, text mining and machine learning are increasingly being applied to the curation process. Curators now find themselves with an overabundance of data. We have developed GeneDive as a front line application for helping curators consume large datasets of gene, drug, and disease interactions. GeneDive offers a performant, intuitive application for searching and visualizing from an existing dataset of 2.6 million gene, drug, and disease interactions with planned extensibility for future datasets. Additional post-query features include highlighting, sorting, filtering, grouping, and export. Multiple search topology modes enable complex graph searches, further increasing the chance for biopathway or adverse interaction discovery.

Keywords: 

biocuration, gene interactions, large-scale visualization, information retrieval, web application, web services