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Simplified Computational Model for Generating Biological Networks

submitted on 16.07.2020, 14:00 and posted on 17.07.2020, 05:20 by Matthew Bailey, David Ormrod Morley, Mark Wilson

A method to generate and simulate biological networks is discussed. An expanded Wooten-Winer-Weaire bond switching methods

is proposed which allows for

a distribution of node degrees in the network while conserving the mean average node degree.

The networks are characterised in terms of their polygon structure and assortativities (a measure

of local ordering). A wide range of experimental images are analysed and the underlying networks

quantified in an analogous manner. Limitations in obtaining the network structure are discussed.

A "network landscape" of the experimentally observed and simulated networks is constructed from the underlying metrics.

The enhanced bond switching algorithm is able to generate networks spanning the full range of experimental observations.


EPSRC Centre for Doctoral Training in Theory and Modelling in Chemical Sciences.

Engineering and Physical Sciences Research Council

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Email Address of Submitting Author


University of Oxford


United Kingdom

ORCID For Submitting Author


Declaration of Conflict of Interest

no conflict of interest