Issue 63, 2020

Simplified computational model for generating biological networks

Abstract

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.

Graphical abstract: Simplified computational model for generating biological networks

Supplementary files

Article information

Article type
Paper
Submitted
16 7月 2020
Accepted
12 10月 2020
First published
16 10月 2020
This article is Open Access
Creative Commons BY license

RSC Adv., 2020,10, 38275-38280

Simplified computational model for generating biological networks

M. H. J. Bailey, D. Ormrod Morley and M. Wilson, RSC Adv., 2020, 10, 38275 DOI: 10.1039/D0RA06205G

This article is licensed under a Creative Commons Attribution 3.0 Unported Licence. You can use material from this article in other publications without requesting further permissions from the RSC, provided that the correct acknowledgement is given.

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