FBA-PRCC. Partial Rank Correlation Coefficient (PRCC) Global Sensitivity Analysis (GSA) in Application to Constraint-Based Models

Background: Whole-genome models (GEMs) have become a versatile tool for systems biology, biotechnology, and medicine. GEMs created by automatic and semi-automatic approaches contain a lot of redundant reactions. At the same time, the nonlinearity of the model makes it difficult to evaluate the signi...

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Bibliographic Details
Main Authors: Anatoly Sorokin, Igor Goryanin
Format: Article
Language:English
Published: MDPI AG 2023-03-01
Series:Biomolecules
Subjects:
Online Access:https://www.mdpi.com/2218-273X/13/3/500
Description
Summary:Background: Whole-genome models (GEMs) have become a versatile tool for systems biology, biotechnology, and medicine. GEMs created by automatic and semi-automatic approaches contain a lot of redundant reactions. At the same time, the nonlinearity of the model makes it difficult to evaluate the significance of the reaction for cell growth or metabolite production. Methods: We propose a new way to apply the global sensitivity analysis (GSA) to GEMs in a straightforward parallelizable fashion. Results: We have shown that Partial Rank Correlation Coefficient (PRCC) captures key steps in the metabolic network despite the network distance from the product synthesis reaction. Conclusions: FBA-PRCC is a fast, interpretable, and reliable metric to identify the sign and magnitude of the reaction contribution to various cellular functions.
ISSN:2218-273X