Reconstruction of causal networks by set covering

  • Authors:
  • Nick Fyson;Tijl De Bie;Nello Cristianini

  • Affiliations:
  • Intelligent Systems Laboratory and Bristol Centre for Complexity Sciences, Bristol University, Bristol, UK;Intelligent Systems Laboratory, Bristol University, Bristol, UK;Intelligent Systems Laboratory, Bristol University, Bristol, UK

  • Venue:
  • ICANNGA'11 Proceedings of the 10th international conference on Adaptive and natural computing algorithms - Volume Part II
  • Year:
  • 2011

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Abstract

We present a method for the reconstruction of networks, based on the order of nodes visited by a stochastic branching process. Our algorithm reconstructs a network of minimal size that ensures consistency with the data. Crucially, we show that global consistency with the data can be achieved through purely local considerations, inferring the neighbourhood of each node in turn. The optimisation problem solved for each individual node can be reduced to a set covering problem, which is known to be NP-hard but can be approximated well in practice. We then extend our approach to account for noisy data, based on the Minimum Description Length principle. We demonstrate our algorithms on synthetic data, generated by an SIR-like epidemiological model.