Preprint Open Access

# Exploring the Dynamics of Nonlinear Biochemical Systems using Control-Based Continuation

Gomes, Brandon; de Cesare, Irene; Guarino, Agostino; di Bernardo, Mario; Renson, Ludovic; Marucci, Lucia

### Citation Style Language JSON Export

{
"DOI": "10.1101/695866",
"container_title": "biorxiv",
"author": [
{
"family": "Gomes,\u00a0Brandon"
},
{
"family": "de Cesare,\u00a0Irene"
},
{
"family": "Guarino,\u00a0Agostino"
},
{
"family": "di Bernardo,\u00a0Mario"
},
{
"family": "Renson,\u00a0Ludovic"
},
{
"family": "Marucci,\u00a0Lucia"
}
],
"issued": {
"date-parts": [
[
2019,
11,
18
]
]
},
"abstract": "<p><strong>Abstract</strong></p>\n\n<p>Mathematical modelling is routinely used in Systems Biology to understand the mechanisms causing nonlinear phenomena in gene expression, such as switch-like behaviours and temporal oscillations. The reliability of model predictions and bifurcation analysis depend on modelling assumptions and specific choices of model parameters; however, the identification of models is highly challenging due to the complexity of biochemical interactions and noise in experimental data.</p>\n\n<p>This paper numerically investigates the use of control-based continuation (CBC) for tracking dynamical features of biochemical systems and, in particular, the bistable dynamics of a gene regulating pluripotency in embryonic stem cells.</p>\n\n<p>CBC is a method that exploits feedback control and path following algorithms to explore the dynamic features of a nonlinear physical system directly during experimental tests. CBC applications have so far been limited to non-living (i.e. electro-mechanical) systems. Our numerical simulations show that, in principle, CBC could also be applied to biological experiments to characterise the switch-like dynamics of genes that are important for cell decision making.</p>",
"title": "Exploring the Dynamics of Nonlinear Biochemical Systems using Control-Based Continuation",
"type": "article",
"id": "4837515"
}
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