Stability and dynamics of membrane-spanning DNA nanopores

Nanoscale Structure and Elasticity of Pillared DNA Nanotubes

(2016) Himanshu Joshi et al.   ACS Nano

Large-Conductance Transmembrane Porin Made from DNA Origami

(2016) Kerstin Göpfrich et al.   ACS Nano

Lipid interaction sites on channels, transporters and receptors: Recent insights from molecular dynamics simulations

(2016) George Hedger et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES

Martini straight: Boosting performance using a shorter cutoff and GPUs

(2016) Djurre H. de Jong et al.   COMPUTER PHYSICS COMMUNICATIONS

Electrotransfection of Polyamine Folded DNA Origami Structures

(2016) Aradhana Chopra et al.   NANO LETTERS

Ion Channels Made from a Single Membrane-Spanning DNA Duplex

(2016) Kerstin Göpfrich et al.   NANO LETTERS

Nucleobase-functionalized graphene nanoribbons for accurate high-speed DNA sequencing

(2016) Eugene Paulechka et al.   Nanoscale

A biomimetic DNA-based channel for the ligand-controlled transport of charged molecular cargo across a biological membrane

(2016) Jonathan R. Burns et al.   Nature Nanotechnology

Changing of the guard

(2016) S. Howorka   SCIENCE

Molecular-level insight into the interactions of DNA with phospholipid bilayers: barriers and triggers

(2016) A. Yu. Antipina et al.   RSC Advances

Gating-like Motions and Wall Porosity in a DNA Nanopore Scaffold Revealed by Molecular Simulations

(2015) Vishal Maingi et al.   ACS Nano

Molecular simulation studies of hydrophobic gating in nanopores and ion channels

(2015) Jemma L. Trick et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Molecular dynamics simulations on water permeation through hourglass-shaped nanopores with varying pore geometry

(2015) Dai Tang et al.   CHEMICAL PHYSICS

Martini Coarse-Grained Force Field: Extension to DNA

(2015) Jaakko J. Uusitalo et al.   Journal of Chemical Theory and Computation

Computational Lipidomics with insane: A Versatile Tool for Generating Custom Membranes for Molecular Simulations

(2015) Tsjerk A. Wassenaar et al.   Journal of Chemical Theory and Computation

Molecular Dynamics of Membrane-Spanning DNA Channels: Conductance Mechanism, Electro-Osmotic Transport, and Mechanical Gating

(2015) Jejoong Yoo et al.   Journal of Physical Chemistry Letters

Organization and Dynamics of Receptor Proteins in a Plasma Membrane

(2015) Heidi Koldsø et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Transport mechanisms in nanopores and nanochannels: can we mimic nature?

(2015) Mario Tagliazucchi et al.   Materials Today

Single-Molecule Force Spectroscopy of Membrane Proteins from Membranes Freely Spanning Across Nanoscopic Pores

(2015) Rafayel Petrosyan et al.   NANO LETTERS

Supramolecular assemblies underpin turnover of outer membrane proteins in bacteria

(2015) Patrice Rassam et al.   NATURE

Stepwise growth of surface-grafted DNA nanotubes visualized at the single-molecule level

(2015) Amani A. Hariri et al.   Nature Chemistry

A complete bacterial genome assembled de novo using only nanopore sequencing data

(2015) Nicholas J Loman et al.   NATURE METHODS

MemProtMD: Automated Insertion of Membrane Protein Structures into Explicit Lipid Membranes

(2015) Phillip J. Stansfeld et al.   STRUCTURE

Bilayer-Spanning DNA Nanopores with Voltage-Switching between Open and Closed State

(2014) Astrid Seifert et al.   ACS Nano

Catalytic 1,4-Rhodium(III) Migration Enables 1,3-Enynes to Function as One-Carbon Oxidative Annulation Partners in CH Functionalizations

(2014) David J. Burns et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Osmotically-Driven Transport in Carbon Nanotube Porins

(2014) Kyunghoon Kim et al.   NANO LETTERS

Lipid-Bilayer-Spanning DNA Nanopores with a Bifunctional Porphyrin Anchor

(2013) Jonathan R. Burns et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Perspective on the Martini model

(2013) Siewert J. Marrink et al.   CHEMICAL SOCIETY REVIEWS

Going Backward: A Flexible Geometric Approach to Reverse Transformation from Coarse Grained to Atomistic Models

(2013) Tsjerk A. Wassenaar et al.   Journal of Chemical Theory and Computation

Self-Assembled DNA Nanopores That Span Lipid Bilayers

(2013) Jonathan R. Burns et al.   NANO LETTERS

The power of coarse graining in biomolecular simulations

(2013) Helgi I. Ingólfsson et al.   Wiley Interdisciplinary Reviews-Computational Molecular Science

Recent trends in nanopores for biotechnology

(2012) Daniel H Stoloff et al.   CURRENT OPINION IN BIOTECHNOLOGY

Designing biomimetic pores based on carbon nanotubes

(2012) R. Garcia-Fandino et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Synthetic Lipid Membrane Channels Formed by Designed DNA Nanostructures

(2012) M. Langecker et al.   SCIENCE

Ionic conductance of synthetic channels: analysis, lessons, and recommendations

(2011) Jonathan K. W. Chui et al.   CHEMICAL SOCIETY REVIEWS

Optimization of the CHARMM Additive Force Field for DNA: Improved Treatment of the BI/BII Conformational Equilibrium

(2011) Katarina Hart et al.   Journal of Chemical Theory and Computation

Biomimetic Design of a Brush-Like Nanopore: Simulation Studies

(2011) Prapasiri Pongprayoon et al.   JOURNAL OF PHYSICAL CHEMISTRY B

DNA Origami Nanopores

(2011) Nicholas A. W. Bell et al.   NANO LETTERS

Nanopore-based detection of circulating microRNAs in lung cancer patients

(2011) Yong Wang et al.   Nature Nanotechnology

Controlling protein translocation through nanopores with bio-inspired fluid walls

(2011) Erik C. Yusko et al.   Nature Nanotechnology

Nanopore analytics: sensing of single molecules

(2009) Stefan Howorka et al.   CHEMICAL SOCIETY REVIEWS

GROMACS 4:  Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation

(2008) Berk Hess et al.   Journal of Chemical Theory and Computation

Blocking of Carbon Nanotube Based Nanoinjectors by Lipids: A Simulation Study

(2008) E. Jayne Wallace et al.   NANO LETTERS

Outer membrane protein G: Engineering a quiet pore for biosensing

(2008) M. Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

P-LINCS:  A Parallel Linear Constraint Solver for Molecular Simulation

(2007) Berk Hess   Journal of Chemical Theory and Computation

Designing Carbon Nanotube Membranes for Efficient Water Desalination

(2007) Ben Corry   JOURNAL OF PHYSICAL CHEMISTRY B