Welcome

Welcome to the Systems Biology Laboratory at the University of Melbourne.

At the Systems Biology Lab we build and analyse mathematical models of biological processes, pathways and networks, and the cellular geometries within which these processes take place. We apply these models to problems in human health and physiology, including heart disease, cancer, nanomedicine and synthetic biology.

We are based in the School of Mathematics and Statistics and in the Department of Biomedical Engineering at the University of Melbourne.

We are also part of the ARC Centre of Excellence in Convergent Bio-Nano Science and Technology.

For more information contact Lab Director Professor Edmund Crampin
edmund.crampin@unimelb.edu.au

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Minimum information reporting in bio-nano experimental literature – published in Nature Nanotechnology

Our new paper setting out minimum information criteria for bio-nano research has been published in Nature 9Nanotechnology.

Nature Nanotechnology 13, 777–785 (2018)

Download the paper here.

Read the Nature Nanotechnology editorial about our work here. 

This work, led by Matt Faria, has been a project of the ARC Centre of Excellence in Convergent Bio-Nano Science and Technology.

 

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Our paper on size dependence of nanoparticle transport – published in Interface

Our new paper on quantifying the influence of the distribution of nanoparticle size (‘polydispersity’) on delivered cellular dose has just appeared in Journal of the Royal Society Interface.

S.T. Johnston, M. Faria, E.J. Crampin (2018)
An analytical approach for quantifying the influence of nanoparticle polydispersity on cellular delivered dose.
J. R. Soc. Interface 15: 20180364

See it here: http://dx.doi.org/10.1098/rsif.2018.0364

Congratulations Stuart and Matt.

This work was funded through the Australian Research Council Centre of Excellence in Convergent Bio-Nano Science and Technology @ARCCoEBionano

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Cell Systems paper on combinatorial miRNA regulation of EMT – now published

Screen Shot 2018-07-12 at 10.58.50 amJoe’s paper on combinatorial targeting by miRNAs in regulating phenotype in breast cancer cells has appeared in Cell Systems.

Micro-RNAs are known to play important roles in driving switching between epithelial and mesenchymal phenotypes in cancer. In the paper we identify co-regulated miRNAs in breast cancer cells with functionally related protein targets, and show that cooperative interaction between these targets leads to highly coordinated regulation of epithelial-mesenchymal transition.

J. Cursons, K.A. Pillman, K.G. Scheer, P.A. Gregory, M. Foroutan, S. Hediyeh-Zadeh, J. Toubia, E.J. Crampin, G.J. Goodall, C.P. Bracken, M.J. Davis (2018)
Combinatorial Targeting by MicroRNAs Co-ordinates Post-transcriptional Control of EMT
Cell Systems 7, 77–91

See it here: https://doi.org/10.1016/j.cels.2018.05.019

Congratulations Joe and all of the authors.

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Are you coming to SMB2018 in Sydney?

Come and hear about our latest research – all on Monday!

Hilary Hunt’s talk on cardiac hypertrophy signalling is at 1130am; Claire Miller’s talk on multicellular modelling of the epidermis is at 4pm; and Stuart Johnston’s talk on nanoparticle delivery follows shortly after at 420pm.

Then from 6pm onwards, we have Michael Pan’s poster on bond graph modelling of the cardiac action potential, Daniel Hurley’s poster on reproducibility in computational biology, and Agne Tilunaite’s poster on modelling intracellular calcium dynamics.

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Bond graph modelling of the cardiac action potential – published in Proceedings of the Royal Society A

Our paper on modelling the cardiac action potential using an energy-based bond graph approach has now appeared in Proc R Soc Lond A. Mathematical models of cardiac action potentials have become increasingly important in the study of heart disease and pharmacology, but concerns linger over their robustness during long periods of simulation, in particular due to issues such as model drift and non-unique steady states. In this paper we develop a general and systematic method of identifying hidden conservation laws that are responsible for these undesirable characteristics in models of cardiac electrophysiology.

M. Pan, P.J. Gawthrop, K. Tran, J. Cursons, E.J. Crampin (2018)
Bond graph modelling of the cardiac action potential: implications for drift and non-unique steady states
Proceedings of the Royal Society A 474: 20180106
arXiv:1802.04548

Congratulations to Michael and coauthors!

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Congratulations to Dr Matt Faria

Congratulations to Matt Faria, who has been awarded his PhD at the Systems Biology Lab and the Caruso group at the University of Melbourne, for his thesis entitled “Quantifying interactions between nanoengineered particles and cells”.

In his thesis, Matt introduced new techniques for quantifying interactions between engineered nanomaterials and biological cells. Using a combination of experimental approaches and mathematical methods, his work isolated the kinetics of cell-particle interactions independent of experimental details.

Well done Matt!

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Systems Biology Lab presentations at Biophysics 2018

Michael Pan, Hilary Hunt, Claire Miller and Shourya Ghosh all presented their work at the recent Biophysical Society Annual Meeting in San Francisco. Well done all!

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