Principles of genetic circuit design

JAN Brophy, CA Voigt - Nature methods, 2014 - nature.com
Cells navigate environments, communicate and build complex patterns by initiating gene
expression in response to specific signals. Engineers seek to harness this capability to …

Control theory meets synthetic biology

D Del Vecchio, AJ Dy, Y Qian - Journal of The Royal …, 2016 - royalsocietypublishing.org
The past several years have witnessed an increased presence of control theoretic concepts
in synthetic biology. This review presents an organized summary of how these control …

Large-scale design of robust genetic circuits with multiple inputs and outputs for mammalian cells

BH Weinberg, NTH Pham, LD Caraballo… - Nature …, 2017 - nature.com
Engineered genetic circuits for mammalian cells often require extensive fine-tuning to
perform as intended. We present a robust, general, scalable system, called'Boolean logic …

Biotechnological domestication of pseudomonads using synthetic biology

PI Nikel, E Martínez-García, V De Lorenzo - Nature Reviews …, 2014 - nature.com
Much of contemporary synthetic biology research relies on the use of bacterial chassis for
plugging-in and plugging-out genetic circuits and new-to-nature functionalities. However …

Resource competition shapes the response of genetic circuits

Y Qian, HH Huang, JI Jiménez… - ACS synthetic …, 2017 - ACS Publications
A common approach to design genetic circuits is to compose gene expression cassettes
together. While appealing, this modular approach is challenged by the fact that expression …

Engineered dCas9 with reduced toxicity in bacteria: implications for genetic circuit design

S Zhang, CA Voigt - Nucleic acids research, 2018 - academic.oup.com
Large synthetic genetic circuits require the simultaneous expression of many regulators.
Deactivated Cas9 (dCas9) can serve as a repressor by having a small guide RNA (sgRNA) …

Digital logic circuits in yeast with CRISPR-dCas9 NOR gates

MW Gander, JD Vrana, WE Voje, JM Carothers… - Nature …, 2017 - nature.com
Natural genetic circuits enable cells to make sophisticated digital decisions. Building equally
complex synthetic circuits in eukaryotes remains difficult, however, because commonly used …

An endoribonuclease-based feedforward controller for decoupling resource-limited genetic modules in mammalian cells

RD Jones, Y Qian, V Siciliano, B DiAndreth… - Nature …, 2020 - nature.com
Synthetic biology has the potential to bring forth advanced genetic devices for applications
in healthcare and biotechnology. However, accurately predicting the behavior of engineered …

A 'resource allocator'for transcription based on a highly fragmented T7 RNA polymerase

TH Segall‐Shapiro, AJ Meyer, AD Ellington… - Molecular systems …, 2014 - embopress.org
Synthetic genetic systems share resources with the host, including machinery for
transcription and translation. Phage RNA polymerases (RNAP s) decouple transcription from …

A load driver device for engineering modularity in biological networks

D Mishra, PM Rivera, A Lin, D Del Vecchio… - Nature …, 2014 - nature.com
The behavior of gene modules in complex synthetic circuits is often unpredictable 1, 2, 3, 4.
After joining modules to create a circuit, downstream elements (such as binding sites for a …