Data based identification and prediction of nonlinear and complex dynamical systems

WX Wang, YC Lai, C Grebogi - Physics Reports, 2016 - Elsevier
The problem of reconstructing nonlinear and complex dynamical systems from measured
data or time series is central to many scientific disciplines including physical, biological …

Predictive biology: modelling, understanding and harnessing microbial complexity

AJ Lopatkin, JJ Collins - Nature Reviews Microbiology, 2020 - nature.com
Predictive biology is the next great chapter in synthetic and systems biology, particularly for
microorganisms. Tasks that once seemed infeasible are increasingly being realized such as …

[HTML][HTML] Cell fate decision as high-dimensional critical state transition

M Mojtahedi, A Skupin, J Zhou, IG Castaño… - PLoS …, 2016 - journals.plos.org
Cell fate choice and commitment of multipotent progenitor cells to a differentiated lineage
requires broad changes of their gene expression profile. But how progenitor cells overcome …

Molecular recordings by directed CRISPR spacer acquisition

SL Shipman, J Nivala, JD Macklis, GM Church - Science, 2016 - science.org
INTRODUCTION Although recent advances in DNA synthesis and sequencing technologies
have made practical the writing and readout of arbitrary data in the form of synthetic DNA …

[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 …

[HTML][HTML] A geometrical approach to control and controllability of nonlinear dynamical networks

LZ Wang, RQ Su, ZG Huang, X Wang, WX Wang… - Nature …, 2016 - nature.com
In spite of the recent interest and advances in linear controllability of complex networks,
controlling nonlinear network dynamics remains an outstanding problem. Here we develop …

Future systems and control research in synthetic biology

D Del Vecchio, Y Qian, RM Murray, ED Sontag - Annual Reviews in Control, 2018 - Elsevier
Synthetic biology is the application of engineering principles to the fundamental components
of biology, with the aim of creating systems with novel functionalities that can be used for …

[HTML][HTML] Principles for the design of multicellular engineered living systems

O Aydin, AP Passaro, R Raman, SE Spellicy… - APL …, 2022 - pubs.aip.org
Remarkable progress in bioengineering over the past two decades has enabled the
formulation of fundamental design principles for a variety of medical and non-medical …

Targeted large-scale deletion of bacterial genomes using CRISPR-nickases

K Standage-Beier, Q Zhang, X Wang - ACS synthetic biology, 2015 - ACS Publications
Programmable CRISPR-Cas systems have augmented our ability to produce precise
genome manipulations. Here we demonstrate and characterize the ability of CRISPR-Cas …

[HTML][HTML] Synthetic analog and digital circuits for cellular computation and memory

O Purcell, TK Lu - Current opinion in biotechnology, 2014 - Elsevier
Highlights•Cellular computation will enable applications envisioned by synthetic
biologists.•Digital cellular circuits can perform increasingly complex logic functions.•Recent …