Computational Prediction of Domain-domain Interactions: Factor-graph Based Modelling and Inference

ISSN: 1872-3136 (Online)
ISSN: 2212-7968 (Print)


Volume 8, 3 Issues, 2014


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Current Chemical Biology

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Editor-in-Chief:
Atta-ur-Rahman, FRS
Honorary Life Fellow
Kings College
University of Cambridge
Cambridge
UK
Email: ccb@benthamscience.org

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Computational Prediction of Domain-domain Interactions: Factor-graph Based Modelling and Inference

Author(s): Mudassar Iqbal, T. Charlie Hodgman and Dov J. Stekel

Affiliation: Multidisciplinary Centre for Integrative Biology (MyCIB), School of Biosciences, University of Nottingham, Nottingham, UK.

Abstract

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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Article Details

Volume: 7
Issue Number: 3
First Page: 234
Last Page: 240
Page Count: 7
DOI: 10.2174/221279680703140508102145
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