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Protocol for CAROM: A machine learning tool to predict post-translational regulation from metabolic signatures.

In STAR protocols

This protocol describes CAROM, a computational tool that combines genome-scale metabolic networks (GEMs) and machine learning to identify enzyme targets of post-translational modifications (PTMs). Condition-specific enzyme and reaction properties are used to predict targets of phosphorylation and acetylation in multiple organisms. CAROM is influenced by the accuracy of GEMs and associated flux-balance analysis (FBA), which generate the inputs of the model. We demonstrate the protocol using multi-omics data from E. coli. For complete details on the use and execution of this protocol, please refer to Smith et al. (2022).

Smith Kirk, Rhoads Nicole, Chandrasekaran Sriram

2022-Dec-16

Bioinformatics, Computer sciences, Genomics, Metabolism, Metabolomics, Microbiology, Proteomics, Systems biology