Publication

Elasticity of swollen and folded polyacrylamide hydrogel using the MARTINI coarse-grained model

Seunghyok Rho, Heeyuen Koh, Ji Woong Yu, Hye Been Koo, Sebin Kim, Je-Yeon Jung, EunYeong Jung, Chongyong Nam, Jae Young Lee, Kyounghwa Jeon, Jae-Byum Chang*, Do-Nyun Kim*, Won Bo Lee*

ACS Applied Materials & Interfaces (2025) [Link] [PDF]

Predicting the effect of binding molecules on the shape and mechanical properties of structured DNA assemblies

Jae Young Lee, Yanggyun Kim, Do-Nyun Kim*

Nature Communications (2024) [Link] [PDF]

DNA hydrogels with programmable condensation, expansion, and degradation for molecular carriers

Kyounghwa Jeon, Chanseok Lee, Jae Young Lee, Do-Nyun Kim*

ACS Applied Materials & Interfaces (2024) [Link] [PDF]

Prediction of DNA origami shape using graph neural network

Chien Truong-Quoc†, Jae Young Lee†, Kyung Soo Kim, Do-Nyun Kim*

Nature Materials (2024) [Link] [PDF]

Controlling chiroptical responses via chemo-mechanical deformation of DNA origami structures

Taehwi Kim, Chanseok Lee, Jae Young Lee, Do-Nyun Kim*

ACS Nano (2024) [Link] [PDF]

A computational model for structural dynamics and reconfiguration of DNA assemblies

Jae Young Lee, Heeyuen Koh, Do-Nyun Kim*

Nature Communications (2023) [Link] [PDF]

Harnessing a paper-folding mechanism for reconfigurable DNA origami

Myoungseok Kim, Chanseok Lee, Kyounghwa Jeon, Jae Young Lee, Young-Joo Kim, Jae Gyung Lee, Hyunsu Kim, Maenghyo Cho, Do-Nyun Kim*

Nature (2023) [Link] [PDF]

Direct visualization of floppy two-dimensional DNA origami using cryogenic electron microscopy

Heng Ni†, Xiao Fan†, Feng Zhou, Galio Guo, Jae Young Lee, Nadrian C. Seeman, Do-Nyun Kim, Nan Yao*, Paul M. Chaikin*, Yimo Han*

iScience (2022) [Link] [PDF]

Formation of non-base-pairing DNA microgels using directed phase transition of amphiphilic monomers

Chanseok Lee†, Sungho Do†, Jae Young Lee, Minju Kim, Sang Moon Kim, Yongdae Shin*, Do-Nyun Kim*

Nucleic Acids Research (2022) [Link] [PDF]

Predicting the free-form shape of structured DNA assemblies from their lattice-based design blueprint

Jae Gyung Lee, Kyung Soo Kim, Jae Young Lee, Do-Nyun Kim*

ACS Nano (2022) [Link] [PDF]

Characterizing and harnessing the mechanical properties of short single-stranded DNA in structured assemblies

Jae Young Lee†, Myoungseok Kim†, Chanseok Lee, Do-Nyun Kim*

ACS Nano (2021) [Link] [PDF]

Modulating the chemo-mechanical response of structured DNA assemblies through binding molecules

Chanseok Lee†, Young-Joo Kim†, Kyung Soo Kim, Jae Young Lee, Do-Nyun Kim*

Nucleic Acids Research (2021) [Link] [PDF]

Design approaches and computational tools for DNA nanostructures

Heeyuen Koh, Jae Gyung Lee, Jae Young Lee, Ryan Kim, Osamu Tabata, Jin-Woo Kim*, Do-Nyun Kim*

IEEE Open Journal of Nanotechnology (2021) [Link] [PDF]

Programming ultrasensitive threshold response through chemo-mechanical instability

Young-Joo Kim, Junho Park, Jae Young Lee, Do-Nyun Kim*

Nature Communications (2021) [Link] [PDF]

Rapid computational analysis of structured DNA assemblies at near-atomic resolution

Jae Young Lee, Jae Gyung Lee, Giseok Yun, Chanseok Lee, Young-Joo Kim, Kyung Soo Kim, Tae Hwi Kim, Do-Nyun Kim*

ACS Nano (2021) [Link] [PDF]

Tailoring the mechanical stiffness of DNA nanostructures using engineered defects

Chanseok Lee†, Kyung Soo Kim†, Young-Joo Kim, Jae Young Lee, Do-Nyun Kim*

ACS Nano (2019) [Link] [PDF]

Investigating the sequence-dependent mechanical properties of DNA nicks for applications in twisted DNA nanostructure design

Jae Young Lee, Young-Joo Kim, Chanseok Lee, Jae Gyung Lee, Hiromasa Yagyu, Osamu Tabata, Do-Nyun Kim*

Nucleic Acids Research (2019) [Link] [PDF]

A framework of finite element procedures for the analysis of proteins

Reza Sharifi Sedeh, Giseok Yun, Jae Young Lee, Klaus-Jürgen Bathe, Do-Nyun Kim*

Computers & Structures (2018) [Link] [PDF]

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

Chanseok Lee, Jae Young Lee, Do-Nyun Kim*

Nature Communications (2017) [Link] [PDF]

Coarse-grained molecular dynamics model of double-stranded DNA for DNA nanostructure design

Hiromasa Yagyu*, Jae Young Lee, Do-Nyun Kim, Osamu Tabata

Journal of Physical Chemistry B (2017) [Link] [PDF]

Ignition characteristics of laser-ablated aluminum at shock pressures up to 2 GPa

Kyung-Cheol Lee, Tsubasa Taira, Goon Mo Koo, Jae Young Lee, Jack J. Yoh*

Journal of Applied Physics (2014) [Link] [PDF]

† Contributed equally, * Corresponding author

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