Predicting the Free-Form Shape of Structured DNA Assemblies from Their Lattice-Based Design Blueprint

Rapid Computational Analysis of DNA Origami Assemblies at Near-Atomic Resolution

(2021) Jae Young Lee et al.   ACS Nano

Programming ultrasensitive threshold response through chemomechanical instability

(2021) Young-Joo Kim et al.   Nature Communications

MrDNA: a multi-resolution model for predicting the structure and dynamics of DNA systems

(2020) Christopher Maffeo 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

Automated Sequence Design of 3D Polyhedral Wireframe DNA Origami with Honeycomb Edges

(2019) Hyungmin Jun et al.   ACS Nano

Autonomously designed free-form 2D DNA origami

(2019) Hyungmin Jun et al.   Science Advances

Configurational Design of Mechanical Perturbation for Fine Control of Twisted DNA Origami Structures

(2019) Young-Joo Kim et al.   ACS Nano

Tailoring the Mechanical Stiffness of DNA Nanostructures Using Engineered Defects

(2019) Chanseok Lee et al.   ACS Nano

A programmable DNA-origami platform for studying lipid transfer between bilayers

(2019) Xin Bian et al.   Nature Chemical Biology

Automated sequence design of 2D wireframe DNA origami with honeycomb edges

(2019) Hyungmin Jun et al.   Nature Communications

DNA origami scaffold for studying intrinsically disordered proteins of the nuclear pore complex

(2018) Philip Ketterer et al.   Nature Communications

Polymorphic design of DNA origami structures through mechanical control of modular components

(2017) Chanseok Lee et al.   Nature Communications

Oligolysine-based coating protects DNA nanostructures from low-salt denaturation and nuclease degradation

(2017) Nandhini Ponnuswamy et al.   Nature Communications

Designer nanoscale DNA assemblies programmed from the top down

(2016) R. Veneziano et al.   SCIENCE

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

Toward Modular Analysis of Supramolecular Protein Assemblies

(2015) Jaehoon Kim et al.   Journal of Chemical Theory and Computation

A comparison between parallelization approaches in molecular dynamics simulations on GPUs

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

Lattice-free prediction of three-dimensional structure of programmed DNA assemblies

(2014) Keyao Pan et al.   Nature Communications

Elastic properties and secondary structure formation of single-stranded DNA at monovalent and divalent salt conditions

(2013) Alessandro Bosco et al.   NUCLEIC ACIDS RESEARCH

Purification of DNA-origami nanostructures by rate-zonal centrifugation

(2012) Chenxiang Lin et al.   NUCLEIC ACIDS RESEARCH

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

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

A primer to scaffolded DNA origami

(2011) Carlos Ernesto Castro et al.   NATURE METHODS

Quantitative prediction of 3D solution shape and flexibility of nucleic acid nanostructures

(2011) Do-Nyun Kim et al.   NUCLEIC ACIDS RESEARCH

DNA Origami with Complex Curvatures in Three-Dimensional Space

(2011) D. Han et al.   SCIENCE

Nanomaterials Based on DNA

(2010) Nadrian C. Seeman   Annual Review of Biochemistry

Conformational dynamics of supramolecular protein assemblies

(2010) Do-Nyun Kim et al.   JOURNAL OF STRUCTURAL BIOLOGY

Folding and cutting DNA into reconfigurable topological nanostructures

(2010) Dongran Han et al.   Nature Nanotechnology

Self-assembly of DNA into nanoscale three-dimensional shapes

(2009) Shawn M. Douglas et al.   NATURE

Rapid prototyping of 3D DNA-origami shapes with caDNAno

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

Folding DNA into Twisted and Curved Nanoscale Shapes

(2009) H. Dietz et al.   SCIENCE

DNA Origami Design of Dolphin-Shaped Structures with Flexible Tails

(2008) Ebbe S. Andersen et al.   ACS Nano