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Detection of Composite Communities in Multiplex Biological Networks

Bennett, L; Kittas, A; Muirhead, G; Papageorgiou, LG; Tsoka, S; (2015) Detection of Composite Communities in Multiplex Biological Networks. Scientific Reports , 5 , Article 10345. 10.1038/srep10345. Green open access

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Abstract

The detection of community structure is a widely accepted means of investigating the principles governing biological systems. Recent efforts are exploring ways in which multiple data sources can be integrated to generate a more comprehensive model of cellular interactions, leading to the detection of more biologically relevant communities. In this work, we propose a mathematical programming model to cluster multiplex biological networks, i.e. multiple network slices, each with a different interaction type, to determine a single representative partition of composite communities. Our method, known as SimMod, is evaluated through its application to yeast networks of physical, genetic and co-expression interactions. A comparative analysis involving partitions of the individual networks, partitions of aggregated networks and partitions generated by similar methods from the literature highlights the ability of SimMod to identify functionally enriched modules. It is further shown that SimMod offers enhanced results when compared to existing approaches without the need to train on known cellular interactions.

Type: Article
Title: Detection of Composite Communities in Multiplex Biological Networks
Open access status: An open access version is available from UCL Discovery
DOI: 10.1038/srep10345
Publisher version: https://doi.org/10.1038/srep10345
Language: English
Additional information: This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/
Keywords: Science & Technology, Multidisciplinary Sciences, Science & Technology - Other Topics, GENETIC INTERACTIONS, COMPLEX NETWORKS, INTEGER OPTIMIZATION, ONTOLOGY, MAPS, FRAMEWORK, TOOL
UCL classification: UCL
UCL > Provost and Vice Provost Offices > UCL BEAMS
UCL > Provost and Vice Provost Offices > UCL BEAMS > Faculty of Engineering Science
UCL > Provost and Vice Provost Offices > UCL BEAMS > Faculty of Engineering Science > Dept of Chemical Engineering
URI: https://discovery.ucl.ac.uk/id/eprint/10066127
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