Accelerating Genome-Scale Metabolic Network Reconstruction
Author Information
Author(s): Richard A Notebaart, Frank HJ van Enckevort, Christof Francke, Roland J Siezen, Bas Teusink
Primary Institution: Center for Molecular and Biomolecular Informatics, Radboud University Nijmegen
Hypothesis
Can we accelerate the reconstruction of genome-scale metabolic networks using existing curated networks?
Conclusion
The AUTOGRAPH method can significantly speed up the reconstruction of metabolic networks by leveraging existing curated data.
Supporting Evidence
- The AUTOGRAPH method recovered 74-85% of gene-reaction associations from a published network.
- Over 200 additional genes were predicted to be associated with reactions.
- The method was compared with Pathologic, showing complementary results.
Takeaway
This study shows a way to build maps of how cells use nutrients faster by using information from other well-studied cells.
Methodology
The AUTOGRAPH method uses orthology and curated metabolic networks to predict gene-reaction associations.
Limitations
The quality of predictions depends on the availability and quality of curated metabolic networks.
Digital Object Identifier (DOI)
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