Platforms for optogenetic stimulation and feedback control

S Kumar, M Khammash - Frontiers in Bioengineering and …, 2022 - frontiersin.org
Harnessing the potential of optogenetics in biology requires methodologies from different
disciplines ranging from biology, to mechatronics engineering, to control engineering. Light …

[HTML][HTML] Balancing a genetic toggle switch by real-time feedback control and periodic forcing

JB Lugagne, S Sosa Carrillo, M Kirch, A Köhler… - Nature …, 2017 - nature.com
Cybergenetics is a novel field of research aiming at remotely pilot cellular processes in real-
time with to leverage the biotechnological potential of synthetic biology. Yet, the control of …

Cell-machine interfaces for characterizing gene regulatory network dynamics

JB Lugagne, MJ Dunlop - Current opinion in systems biology, 2019 - Elsevier
Gene regulatory networks and the dynamic responses they produce offer a wealth of
information about how biological systems process information about their environment …

Rapid prototyping and design of cybergenetic single-cell controllers

S Kumar, M Rullan, M Khammash - Nature communications, 2021 - nature.com
The design and implementation of synthetic circuits that operate robustly in the cellular
context is fundamental for the advancement of synthetic biology. However, their practical …

Deep model predictive control of gene expression in thousands of single cells

JB Lugagne, CM Blassick, MJ Dunlop - Nature Communications, 2024 - nature.com
Gene expression is inherently dynamic, due to complex regulation and stochastic
biochemical events. However, the effects of these dynamics on cell phenotypes can be …

Regulation of gene expression and signaling pathway activity in mammalian cells by automated microfluidics feedback control

L Postiglione, S Napolitano, E Pedone… - ACS synthetic …, 2018 - ACS Publications
Gene networks and signaling pathways display complex topologies and, as a result,
complex nonlinear behaviors. Accumulating evidence shows that both static (concentration) …

Automatic synchronisation of the cell cycle in budding yeast through closed-loop feedback control

G Perrino, S Napolitano, F Galdi, A La Regina… - Nature …, 2021 - nature.com
The cell cycle is the process by which eukaryotic cells replicate. Yeast cells cycle
asynchronously with each cell in the population budding at a different time. Although there …

In-Silico Analysis and Implementation of a Multicellular Feedback Control Strategy in a Synthetic Bacterial Consortium

G Fiore, A Matyjaszkiewicz, F Annunziata… - ACS Synthetic …, 2017 - ACS Publications
Living organisms employ endogenous negative feedback loops to maintain homeostasis
despite environmental fluctuations. A pressing open challenge in Synthetic Biology is to …

A tunable dual-input system for on-demand dynamic gene expression regulation

E Pedone, L Postiglione, F Aulicino, DL Rocca… - Nature …, 2019 - nature.com
Cellular systems have evolved numerous mechanisms to adapt to environmental stimuli,
underpinned by dynamic patterns of gene expression. In addition to gene transcription …

Optimal control of bacterial growth for the maximization of metabolite production

I Yegorov, F Mairet, H De Jong, JL Gouzé - Journal of mathematical …, 2019 - Springer
Microorganisms have evolved complex strategies for controlling the distribution of available
resources over cellular functions. Biotechnology aims at interfering with these strategies, so …