Foundations of logic programming; (2nd extended ed.)
Foundations of logic programming; (2nd extended ed.)
Theory Completion Using Inverse Entailment
ILP '00 Proceedings of the 10th International Conference on Inductive Logic Programming
Analyzing pathways using ASP-based approaches
ANB'10 Proceedings of the 4th international conference on Algebraic and Numeric Biology
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This paper presents a nonmonotonic ILP approach for the automatic revision of metabolic networks through the logical analysis of experimental data. The method extends previous work in two respects: by suggesting revisions that involve both the addition and removal of information; and by suggesting revisions that involve combinations of gene functions, enzyme inhibitions, and metabolic reactions. Our proposal is based on a new declarative model of metabolism expressed in a nonmonotonic logic programming formalism. With respect to this model, a mixture of abductive and inductive inference is used to compute a set of minimal revisions needed to make a given network consistent with some observed data. In this way, we describe how a reasoning system called XHAIL was able to correctly revise a state-of-the-art metabolic pathway in the light of real-world experimental data acquired by an autonomous laboratory platform called the Robot Scientist.