Dr. Matthew DeJongh
A metabolic model is a map of the biochemical reactions that take place in an organism. These reactions are catalyzed by enzymes, which are encoded by genes in the organism’s genome. However, there are reactions that are known to exist and needed to complete the metabolic model, but are not associated with any genes. These are called “gap reactions”. Our goal is to find the genes that encode the enzymes that catalyze these gap reactions. We have researched two approaches: a knowledge-driven approach that focuses on finding a small set of good candidates, and a data-driven approach that focuses on scoring all candidates to rank their plausibility. Identifying the genes that are associated with gap reactions produces better predictive models and directs laboratory experimentation.
Repository citation: Deeg, Carl and Kondo, Shinnosuke, "Proposing Genes for Gap Reactions in Metabolic Pathways" (2014). 13th Annual Celebration of Undergraduate Research and Creative Performance (2014). Paper 40.
April 11, 2014. Copyright © 2014 Hope College, Holland, Michigan.