Brutlag, D. L., Galper, A. R. and Millis, D. H. (1991). Knowledge-based simulation of DNA metabolism: prediction of enzyme action. Comput Appl Biosci, 7(1), 9-19.
Department of
Biochemistry & the Section
on Medical Informatics, Stanford
University School of Medicine, Stanford
CA 94305.
We have developed a knowledge-based simulation of DNA metabolism that
accurately predicts the actions of enzymes on DNA under a large
number of environmental conditions. Previous simulations of enzyme
systems rely predominantly on mathematical models. We use a
frame-based representation to model enzymes, substrates and
conditions. Interactions between these objects are expressed using
production rules and an underlying truth maintenance system. The
system performs rapid inference and can explain its reasoning. A
graphical interface provides access to all elements of the
simulation, including object representations and explanation graphs.
Predicting enzyme action is the first step in the development of a
large knowledge base to envision the metabolic pathways of DNA
replication and repair.
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