Programmable chemical reaction networks: emulating regulatory functions in living cells using a bottom-up approach
HWH van Roekel, BJHM Rosier, LHH Meijer… - Chemical Society …, 2015 - pubs.rsc.org
Living cells are able to produce a wide variety of biological responses when subjected to
biochemical stimuli. It has become apparent that these biological responses are regulated …
biochemical stimuli. It has become apparent that these biological responses are regulated …
Programming dissipation systems by DNA timer for temporally regulating enzyme catalysis and nanostructure assembly
Z Qin, Y Liu, L Zhang, J Liu, X Su - ACS nano, 2022 - ACS Publications
Live cells precisely control their temporal pattern in energy dissipative processes such as
catalysis and assembly. Here, we demonstrate a DNA-based artificial dissipative …
catalysis and assembly. Here, we demonstrate a DNA-based artificial dissipative …
Flap endonuclease 1-assisted DNA walkers for sensitively and specifically sensing ctDNAs
X Cheng, Y Bao, S Liang, B Li, Y Liu, H Wu… - Analytical …, 2021 - ACS Publications
DNA walkers have shown superior performance in biosensing due to their programmability
to design molecular walking behaviors with specific responses to different biological targets …
to design molecular walking behaviors with specific responses to different biological targets …
High-resolution mapping of bifurcations in nonlinear biochemical circuits
Analog molecular circuits can exploit the nonlinear nature of biochemical reaction networks
to compute low-precision outputs with fewer resources than digital circuits. This analog …
to compute low-precision outputs with fewer resources than digital circuits. This analog …
Boosting functionality of synthetic DNA circuits with tailored deactivation
Molecular programming takes advantage of synthetic nucleic acid biochemistry to assemble
networks of reactions, in vitro, with the double goal of better understanding cellular …
networks of reactions, in vitro, with the double goal of better understanding cellular …
Modelling cell-free RNA and protein synthesis with minimal systems
A Doerr, E De Reus, P Van Nies… - Physical …, 2019 - iopscience.iop.org
DNA-guided cell-free protein synthesis using a minimal set of purified components has
emerged as a versatile platform in constructive biology. The E. coli-based PURE (protein …
emerged as a versatile platform in constructive biology. The E. coli-based PURE (protein …
Bottom‐Up Construction of an Adaptive Enzymatic Reaction Network
The reproduction of emergent behaviors in nature using reaction networks is an important
objective in synthetic biology and systems chemistry. Herein, the first experimental …
objective in synthetic biology and systems chemistry. Herein, the first experimental …
Nicking enzyme-controlled toehold regulation for DNA logic circuits
DNA strand displacement is widely used in DNA-related nanoengineering for its remarkable
specificity and predictability. We report a nicking enzyme-assisted mechanism to regulate …
specificity and predictability. We report a nicking enzyme-assisted mechanism to regulate …
Programmed mechano-chemical coupling in reaction-diffusion active matter
A Senoussi, JC Galas, A Estevez-Torres - Science Advances, 2021 - science.org
Embryo morphogenesis involves a complex combination of self-organization mechanisms
that generate a great diversity of patterns. However, classical in vitro patterning experiments …
that generate a great diversity of patterns. However, classical in vitro patterning experiments …
Design and analysis of compact DNA strand displacement circuits for analog computation using autocatalytic amplifiers
A main goal in DNA computing is to build DNA circuits to compute designated functions
using a minimal number of DNA strands. Here, we propose a novel architecture to build …
using a minimal number of DNA strands. Here, we propose a novel architecture to build …