Bayesian Regression Facilitates Quantitative Modeling of Cell Metabolism
Teddy Groves, Nicholas Luke Cowie, Lars K. Nielsen
Abstract
This paper presents Maud, a command-line application that implements Bayesian statistical inference for kinetic models of biochemical metabolic reaction networks. Maud takes into account quantitative information from omics experiments and background knowledge as well as structural information about kinetic mechanisms, regulatory interactions, and enzyme knockouts. Our paper reviews the existing options in this area, presents a case study illustrating how Maud can be used to analyze a metabolic network, and explains the biological, statistical, and computational design decisions underpinning Maud.
Topics & Concepts
InferenceStatistical inferenceComputer scienceFrequentist inferenceBayesian probabilityUnderpinningBayesian networkComputational biologyBayesian inferenceRegressionStatistical modelMachine learningData miningBiologyArtificial intelligenceStatisticsMathematicsEngineeringCivil engineeringMicrobial Metabolic Engineering and BioproductionMetabolomics and Mass Spectrometry StudiesGene Regulatory Network Analysis