Factored expectation propagation for input-output FHMM models in systems biology

Botond Cseke; Guido Sanguinetti

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arXiv · 1305.4153

Factored expectation propagation for input-output FHMM models in systems biology

Botond Cseke·Guido Sanguinetti

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Abstract

We consider the problem of joint modelling of metabolic signals and gene expression in systems biology applications. We propose an approach based on input-output factorial hidden Markov models and propose a structured variational inference approach to infer the structure and states of the model. We start from the classical free form structured variational mean field approach and use a expectation propagation to approximate the expectations needed in the variational loop. We show that this corresponds to a factored expectation constrained approximate inference. We validate our model through extensive simulations and demonstrate its applicability on a real world bacterial data set.

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BibTeX RIS

Botond Cseke, Guido Sanguinetti. 2013-05-17. Factored expectation propagation for input-output FHMM models in systems biology. https://arxiv.org/abs/1305.4153

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