Perspective: Advances, challenges, and insight for predictive coarse-grained models

WG Noid - The Journal of Physical Chemistry B, 2023 - ACS Publications
By averaging over atomic details, coarse-grained (CG) models provide profound
computational and conceptual advantages for studying soft materials. In particular, bottom …

A review of advancements in coarse-grained molecular dynamics simulations

SY Joshi, SA Deshmukh - Molecular Simulation, 2021 - Taylor & Francis
Over the last few years, coarse-grained molecular dynamics has emerged as a way to model
large and complex systems in an efficient and inexpensive manner due to its lowered …

Data driven discovery of MOFs for hydrogen gas adsorption

SK Singh, AT Sose, F Wang, KK Bejagam… - Journal of Chemical …, 2023 - ACS Publications
Hydrogen gas (H2) is a clean and renewable energy source, but the lack of efficient and cost-
effective storage materials is a challenge to its widespread use. Metal–organic frameworks …

CGCompiler: Automated Coarse-Grained Molecule Parametrization via Noise-Resistant Mixed-Variable Optimization

KS Stroh, PCT Souza, L Monticelli… - Journal of Chemical …, 2023 - ACS Publications
Coarse-grained force fields (CG FFs) such as the Martini model entail a predefined, fixed set
of Lennard-Jones parameters (building blocks) to model virtually all possible nonbonded …

Swarm-CG: Automatic Parametrization of Bonded Terms in MARTINI-Based Coarse-Grained Models of Simple to Complex Molecules via Fuzzy Self-Tuning Particle …

C Empereur-Mot, L Pesce, G Doni, D Bochicchio… - ACS …, 2020 - ACS Publications
We present Swarm-CG, a versatile software for the automatic iterative parametrization of
bonded parameters in coarse-grained (CG) models, ideal in combination with popular CG …

Machine-learned coarse-grained models

KK Bejagam, S Singh, Y An… - The journal of physical …, 2018 - ACS Publications
Optimizing force-field (FF) parameters to perform molecular dynamics (MD) simulations is a
challenging and time-consuming process. We present a novel FF optimization framework …

Unraveling the conformations of backbone and side chains in thermosensitive bottlebrush polymers

KK Bejagam, SK Singh, R Ahn, SA Deshmukh - Macromolecules, 2019 - ACS Publications
This contribution reports the molecular-level conformations of the backbone and side chains
of thermosensitive bottlebrush polymers (BBPs) of poly (N-isopropylacrylamide)(PNIPAM) in …

Systematic bottom-up molecular coarse-graining via force and torque matching using anisotropic particles

HTL Nguyen, DM Huang - The Journal of Chemical Physics, 2022 - pubs.aip.org
We derive a systematic and general method for parameterizing coarse-grained molecular
models consisting of anisotropic particles from fine-grained (eg, all-atom) models for …

Glass transition temperature prediction of disordered molecular solids

KH Lin, L Paterson, F May, D Andrienko - npj Computational Materials, 2021 - nature.com
Glass transition temperature, T g, is the key quantity for assessing morphological stability
and molecular ordering of films of organic semiconductors. A reliable prediction of T g from …

Machine Learning in Soft Matter: From Simulations to Experiments

K Zhang, X Gong, Y Jiang - Advanced Functional Materials, 2024 - Wiley Online Library
Soft matter with diverse functionalities that are easily designable has fascinated tremendous
research interests in the past several decades. Nevertheless, the inherent confluence of time …