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Updated: Jun 28, 2026

A Web Tool for Generating High Quality Machine-readable Biological Pathways
Published on: February 8, 2017
Improving infrastructure for pathway prediction
1Health Informatics Division, Department of Laboratory Medicine and Pathology, University of Minnesota, Minneapolis, MN, 55455, USA.
Abstract:
The UM-BBD Pathway Prediction System (UM-PPS, http://umbbd.msi.umn.edu/predict/) predicts microbial catabolism of organic compounds. We improved UM-PPS infrastructure to improve pathway prediction results. We added the ability to allow relative reasoning and variable aerobic likelihood. One relative reasoning entry decreased choices 75% with no loss of sensitivity. Variable aerobic likelihood gives more accurate likelihood for rules triggered by substrates with certain chemical structures. Predictions are improved.
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