The timing of transcriptional regulation in synthetic gene circuits

YY Cheng, AJ Hirning, K Josić… - ACS synthetic biology, 2017 - ACS Publications
Transcription factors and their target promoters are central to synthetic biology. By arranging
these components into novel gene regulatory circuits, synthetic biologists have been able to …

[HTML][HTML] Tuning the dynamic range of bacterial promoters regulated by ligand-inducible transcription factors

Y Chen, JML Ho, DL Shis, C Gupta, J Long… - Nature …, 2018 - nature.com
One challenge for synthetic biologists is the predictable tuning of genetic circuit regulatory
components to elicit desired outputs. Gene expression driven by ligand-inducible …

Retroactivity controls the temporal dynamics of gene transcription

S Jayanthi, KS Nilgiriwala, D Del Vecchio - ACS synthetic biology, 2013 - ACS Publications
Just like in many engineering systems, impedance-like effects, called retroactivity, arise at
the interconnection of biomolecular circuits, leading to unexpected changes in a circuit's …

Characterization of intrinsic properties of promoters

TJ Rudge, JR Brown, F Federici, N Dalchau… - ACS synthetic …, 2016 - ACS Publications
Accurate characterization of promoter behavior is essential for the rational design of
functional synthetic transcription networks such as logic gates and oscillators. However …

A synthetic biology approach to understanding cellular information processing

KA Riccione, RP Smith, AJ Lee, L You - ACS synthetic biology, 2012 - ACS Publications
The survival of cells and organisms requires proper responses to environmental signals.
These responses are governed by cellular networks, which serve to process diverse …

Rapidly characterizing the fast dynamics of RNA genetic circuitry with cell-free transcription–translation (TX-TL) systems

MK Takahashi, J Chappell, CA Hayes… - ACS synthetic …, 2015 - ACS Publications
RNA regulators are emerging as powerful tools to engineer synthetic genetic networks or
rewire existing ones. A potential strength of RNA networks is that they may be able to …

Simulation approach for timing analysis of genetic logic circuits

H Baig, J Madsen - ACS synthetic biology, 2017 - ACS Publications
Constructing genetic logic circuits is an application of synthetic biology in which parts of the
DNA of a living cell are engineered to perform a dedicated Boolean function triggered by an …

Principles of cell-free genetic circuit assembly

V Noireaux, R Bar-Ziv… - Proceedings of the …, 2003 - National Acad Sciences
Cell-free genetic circuit elements were constructed in a transcription–translation extract. We
engineered transcriptional activation and repression cascades, in which the protein product …

Growth defects and loss-of-function in synthetic gene circuits

EM Nikolados, AY Weiße, F Ceroni… - ACS synthetic …, 2019 - ACS Publications
Synthetic gene circuits perturb the physiology of their cellular host. The extra load on
endogenous processes shifts the equilibrium of resource allocation in the host, leading to …

Engineered temperature compensation in a synthetic genetic clock

F Hussain, C Gupta, AJ Hirning, W Ott… - Proceedings of the …, 2014 - National Acad Sciences
Synthetic biology promises to revolutionize biotechnology by providing the means to
reengineer and reprogram cellular regulatory mechanisms. However, synthetic gene circuits …