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Nucleic Acids Res. 2011 Jul;39(Web Server issue):W406-11. doi: 10.1093/nar/gkr200. Epub 2011 Apr 12.

The University of Minnesota Pathway Prediction System: multi-level prediction and visualization.

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1
Institute for Health Informatics, University of Minnesota, Minneapolis, MN 55455, USA.

Abstract

The University of Minnesota Pathway Prediction System (UM-PPS, http://umbbd.msi.umn.edu/predict/) is a rule-based system that predicts microbial catabolism of organic compounds. Currently, its knowledge base contains 250 biotransformation rules and five types of metabolic logic entities. The original UM-PPS predicted up to two prediction levels at a time. Users had to choose a predicted product to continue the prediction. This approach provided a limited view of prediction results and heavily relied on manual intervention. The new UM-PPS produces a multi-level prediction within an acceptable time frame, and allows users to view prediction alternatives much more easily as a directed acyclic graph.

PMID:
21486753
PMCID:
PMC3125723
DOI:
10.1093/nar/gkr200
[Indexed for MEDLINE]
Free PMC Article
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