A rhythmically pulsing leaf-spring DNA-origami nanoengine that drives a passive follower

A DNA origami rotary ratchet motor

(2022) Anna-Katharina Pumm et al.   NATURE

Sustained unidirectional rotation of a self-organized DNA rotor on a nanopore

(2022) Xin Shi et al.   Nature Physics

Design and simulation of DNA, RNA and hybrid protein–nucleic acid nanostructures with oxView

(2022) Joakim Bohlin et al.   Nature Protocols

Leakless end-to-end transport of small molecules through micron-length DNA nanochannels

(2022) Yi Li et al.   Science Advances

Molecular Pumps and Motors

(2021) Yuanning Feng et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

A Self-Regulating DNA Rotaxane Linear Actuator Driven by Chemical Energy

(2021) Ze Yu et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

A catalysis-driven artificial molecular pump

(2021) Shuntaro Amano et al.   NATURE

A synthetic tubular molecular transport system

(2021) Pierre Stömmer et al.   Nature Communications

New tools for automated cryo-EM single-particle analysis in RELION-4.0

(2021) Dari Kimanius et al.   BIOCHEMICAL JOURNAL

A lysosome-targeted DNA nanodevice selectively targets macrophages to attenuate tumours

(2021) Chang Cui et al.   Nature Nanotechnology

Nanobase.org: a repository for DNA and RNA nanostructures

(2021) Erik Poppleton et al.   NUCLEIC ACIDS RESEARCH

Design, optimization and analysis of large DNA and RNA nanostructures through interactive visualization, editing and molecular simulation

(2020) Erik Poppleton et al.   NUCLEIC ACIDS RESEARCH

Regeneration of Burnt Bridges on a DNA Catenane Walker

(2020) Julián Valero et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Biomimetic and Technomimetic Single Molecular Machines

(2019) Claire Kammerer et al.   CHEMISTRY LETTERS

Orthogonally Photocontrolled Non-Autonomous DNA Walker

(2019) Michael Famulok et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

RNA Polymerase: Step-by-Step Kinetics and Mechanism of Transcription Initiation

(2019) Kate L. Henderson et al.   BIOCHEMISTRY

TacoxDNA: A user‐friendly web server for simulations of complex DNA structures, from single strands to origami

(2019) Antonio Suma et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Building machines with DNA molecules

(2019) Hamid Ramezani et al.   NATURE REVIEWS GENETICS

Light-Induced Reversible Reconfiguration of DNA-Based Constitutional Dynamic Networks: Application to Switchable Catalysis

(2018) Shan Wang et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Rotaxanes as Mechanochromic Fluorescent Force Transducers in Polymers

(2018) Yoshimitsu Sagara et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Correlating Transcription Initiation and Conformational Changes by a Single-Subunit RNA Polymerase with Near Base-Pair Resolution

(2018) Hye Ran Koh et al.   MOLECULAR CELL

A bio-hybrid DNA rotor–stator nanoengine that moves along predefined tracks

(2018) Julián Valero et al.   Nature Nanotechnology

Making and Operating Molecular Machines: A Multidisciplinary Challenge

(2018) Massimo Baroncini et al.   ChemistryOpen

An Artificial Molecular Shuttle Operates in Lipid Bilayers for Ion Transport

(2018) Sujun Chen et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Rotary and linear molecular motors driven by pulses of a chemical fuel

(2017) Sundus Erbas-Cakmak et al.   SCIENCE

Direct Simulation of the Self-Assembly of a Small DNA Origami

(2016) Benedict E. K. Snodin et al.   ACS Nano

Nucleic Acid–Based Nanodevices in Biological Imaging

(2016) Kasturi Chakraborty et al.   Annual Review of Biochemistry

An autonomous chemically fuelled small-molecule motor

(2016) Miriam R. Wilson et al.   NATURE

Cardiomyocyte-Driven Actuation in Biohybrid Microcylinders

(2015) Jaewon Yoon et al.   ADVANCED MATERIALS

Artificial Molecular Machines

(2015) Sundus Erbas-Cakmak et al.   CHEMICAL REVIEWS

Introducing improved structural properties and salt dependence into a coarse-grained model of DNA

(2015) Benedict E. K. Snodin et al.   JOURNAL OF CHEMICAL PHYSICS

CTFFIND4: Fast and accurate defocus estimation from electron micrographs

(2015) Alexis Rohou et al.   JOURNAL OF STRUCTURAL BIOLOGY

Programmable motion of DNA origami mechanisms

(2015) Alexander E. Marras et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Dynamic DNA devices and assemblies formed by shape-complementary, non-base pairing 3D components

(2015) T. Gerling et al.   SCIENCE

Light-Driven DNA Nanomachine with a Photoresponsive Molecular Engine

(2014) Yukiko Kamiya et al.   ACCOUNTS OF CHEMICAL RESEARCH

A comparison between parallelization approaches in molecular dynamics simulations on GPUs

(2014) Lorenzo Rovigatti et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Light-powered autonomous and directional molecular motion of a dissipative self-assembling system

(2014) Giulio Ragazzon et al.   Nature Nanotechnology

Surface Passivation for Single-molecule Protein Studies

(2014) Stanley D. Chandradoss et al.   Jove-Journal of Visualized Experiments

DNA Origami Compliant Nanostructures with Tunable Mechanical Properties

(2013) Lifeng Zhou et al.   ACS Nano

DNA hybridization kinetics: zippering, internal displacement and sequence dependence

(2013) Thomas E. Ouldridge et al.   NUCLEIC ACIDS RESEARCH

Sequence-dependent thermodynamics of a coarse-grained DNA model

(2012) Petr Šulc et al.   JOURNAL OF CHEMICAL PHYSICS

RELION: Implementation of a Bayesian approach to cryo-EM structure determination

(2012) Sjors H.W. Scheres   JOURNAL OF STRUCTURAL BIOLOGY

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

Downstream DNA Tension Regulates the Stability of the T7 RNA Polymerase Initiation Complex

(2011) Gary M. Skinner et al.   BIOPHYSICAL JOURNAL

Walking molecules

(2011) Max von Delius et al.   CHEMICAL SOCIETY REVIEWS

Structural, mechanical, and thermodynamic properties of a coarse-grained DNA model

(2011) Thomas E. Ouldridge et al.   JOURNAL OF CHEMICAL PHYSICS

Electrically driven directional motion of a four-wheeled molecule on a metal surface

(2011) Tibor Kudernac et al.   NATURE

Tiny abortive initiation transcripts exert antitermination activity on an RNA hairpin-dependent intrinsic terminator

(2010) S. Lee et al.   NUCLEIC ACIDS RESEARCH

Rapid prototyping of 3D DNA-origami shapes with caDNAno

(2009) Shawn M. Douglas et al.   NUCLEIC ACIDS RESEARCH

Real-time observation of the transition from transcription initiation to elongation of the RNA polymerase

(2009) Guo-Qing Tang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

HaloTag: A Novel Protein Labeling Technology for Cell Imaging and Protein Analysis

(2008) Georgyi V. Los et al.   ACS Chemical Biology

T7 RNA Polymerase Studied by Force Measurements Varying Cofactor Concentration

(2008) P. Thomen et al.   BIOPHYSICAL JOURNAL

Single VS Ribozyme Molecules Reveal Dynamic and Hierarchical Folding Toward Catalysis

(2008) Miguel J.B. Pereira et al.   JOURNAL OF MOLECULAR BIOLOGY

A practical guide to single-molecule FRET

(2008) Rahul Roy et al.   NATURE METHODS

The Structure of a Transcribing T7 RNA Polymerase in Transition from Initiation to Elongation

(2008) K. J. Durniak et al.   SCIENCE