Development And Application Of The Annotation Integration Method For Developing Genome-scale Models
Open Access
Author:
Mueller, Thomas J
Area of Honors:
Chemical Engineering
Degree:
Bachelor of Science
Document Type:
Thesis
Thesis Supervisors:
Costas D Maranas, Thesis Supervisor Ali Borhan, Thesis Honors Advisor
Keywords:
genome-scale reconstruction metabolic model
Abstract:
There are an increasing number of organisms for which a developed genome scale metabolic reconstruction would be beneficial, but which do not have a high level of manual genome annotation. This paper presents the Annotation Integration Method, which uses a combination of phylogenetically similar models and additional sources for reliable gene annotations to develop accurate metabolic reconstructions. This method does not introduce errors that may arise from the use of homology searches separate from manual oversight. The efficacy of this method was displayed through the development of reconstructions for 5 species of Cyanothece that have important inherent metabolic qualities. Statistics from the development of the model for Cyanothece PCC 7424 were used to illustrate this process.
