BioTranformer webserver is under maintenance. Please download the jar file to run BioTransformer locally. The repository can be found at this page. Alternatively, you can download the source code at this Bitbucket page to build the latest version of BioTransformer on your local machine. Sorry for the incovenience.


BioTransformer is a software tool that predicts small molecule metabolism in mammals, their gut microbiota, as well as the soil/aquatic microbiota. Moreover, it can also assist scientists in the identification of metabolites, which is based on the metabolism prediction. BioTransformer uses both a knowledge-based approach and a machine learning based approach to predict small molecules metabolism. In particular, BioTransformer consists of five independent modules: EC-based, CYP450, Phase II, Human Gut Microbial and Environmental Microbial. The BioTransformer library is available at this Bitbucket page.


Please cite:

  1. Djoumbou Feunang Y, Fiamoncini J, de la Fuente AG, Manach C, Greiner R, and Wishart DS; BioTransformer: A Comprehensive Computational Tool for Small Molecule Metabolism Prediction and Metabolite Identification; Journal of Cheminformatics; 2019; Journal of Cheminformatics 11:2; DOI: 10.1186/s13321-018-0324-5

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