Prediction and control in DNA nanotechnology
DNA nanotechnology is a rapidly developing field that uses DNA as a building material for
nanoscale structures. Key to the field's development has been the ability to accurately …
nanoscale structures. Key to the field's development has been the ability to accurately …
Multifunctional clip strand for the regulation of DNA strand displacement and construction of complex DNA nanodevices
L Liu, Q Hu, W Zhang, W Li, W Zhang, Z Ming, L Li… - ACS …, 2021 - ACS Publications
Strand displacement reactions are important bricks for the construction of various DNA
nanodevices, among which the toehold-mediated strand displacement reaction is the most …
nanodevices, among which the toehold-mediated strand displacement reaction is the most …
A computational model for structural dynamics and reconfiguration of DNA assemblies
Recent advances in constructing a structured DNA assembly whose configuration can be
dynamically changed in response to external stimuli have demanded the development of an …
dynamically changed in response to external stimuli have demanded the development of an …
Modeling of supramolecular biopolymers: Leading the in silico revolution of tissue engineering and nanomedicine
The field of tissue engineering is poised to be positively influenced by the advent of
supramolecular biopolymers, because of their promising tailorability coming from the bottom …
supramolecular biopolymers, because of their promising tailorability coming from the bottom …
Probing the mechanical properties of DNA nanostructures with metadynamics
Molecular dynamics simulations are often used to provide feedback in the design workflow
of DNA nanostructures. However, even with coarse-grained models, the convergence of …
of DNA nanostructures. However, even with coarse-grained models, the convergence of …
Coarse-Grained Molecular Simulation of Bolapolyphiles with a Multident Lateral Chain: Formation and Structural Analysis of Cubic Network Phases
Y Sun, FA Escobedo - Journal of Chemical Theory and …, 2023 - ACS Publications
Bolapolyphiles constitute a versatile class of materials with a demonstrated potential to form
a wide variety of complex ordered mesophases. In particular, cubic network phases (like the …
a wide variety of complex ordered mesophases. In particular, cubic network phases (like the …
The oxDNA coarse-grained model as a tool to simulate DNA origami
The oxDNA Coarse-Grained Model as a Tool to Simulate DNA Origami | SpringerLink Skip to
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Steric communication between dynamic components on DNA nanodevices
Biomolecular nanotechnology has helped emulate basic robotic capabilities such as defined
motion, sensing, and actuation in synthetic nanoscale systems. DNA origami is an attractive …
motion, sensing, and actuation in synthetic nanoscale systems. DNA origami is an attractive …
Hairygami: Analysis of DNA Nanostructures' Conformational Change Driven by Functionalizable Overhangs
DNA origami is a widely used method to construct nanostructures by self-assembling
designed DNA strands. These structures are often used as" breadboards" for templated …
designed DNA strands. These structures are often used as" breadboards" for templated …
Characterizing the free-energy landscapes of DNA origamis
We show how coarse-grained modelling combined with umbrella sampling using distance-
based order parameters can be applied to compute the free-energy landscapes associated …
based order parameters can be applied to compute the free-energy landscapes associated …