Computational Prediction of Domain-domain Interactions: Factor-graph Based Modelling and Inference
T. Charlie Hodgman,
Dov J. Stekel.
Proteins interact with each other to perform an array of cellular functions. A systems-level knowledge of protein
interaction networks, as well as the underlying domain-domain interactions, constitutes a major goal in systems biology.
In this mini-review, we discuss some background to the problem of inference of domain-domain interactions and
briefly discuss some relevant computational and statistical approaches. Specifically, we review our earlier work in which
we formulate this problem using a graphical model combined with inference of domain-interaction probabilities using
powerful statistical inference methods, namely belief propagation. The inferred interactions can be used for analysing
network data, and, by looking at the specificity of protein-protein interactions, they can also be used to predict novel protein
interactions within and across orthologous species.
Keywords: Bioinformatics, computational biology, domain-domain interactions, graphical models, protein-protein interactions.
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