Bottom-up coarse-graining: Principles and perspectives

J Jin, AJ Pak, AEP Durumeric, TD Loose… - Journal of chemical …, 2022 - ACS Publications
Large-scale computational molecular models provide scientists a means to investigate the
effect of microscopic details on emergent mesoscopic behavior. Elucidating the relationship …

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 …

[HTML][HTML] A suite of tutorials for the WESTPA rare-events sampling software [Article v1. 0]

AT Bogetti, B Mostofian, A Dickson… - Living journal of …, 2019 - ncbi.nlm.nih.gov
The weighted ensemble (WE) strategy has been demonstrated to be highly efficient in
generating pathways and rate constants for rare events such as protein folding and protein …

Modeling and simulations of polymers: a roadmap

TE Gartner III, A Jayaraman - Macromolecules, 2019 - ACS Publications
Molecular modeling and simulations are invaluable tools for the polymer science and
engineering community. These computational approaches enable predictions and provide …

Multiscale studies on ionic liquids

K Dong, X Liu, H Dong, X Zhang, S Zhang - Chemical reviews, 2017 - ACS Publications
Ionic liquids (ILs) offer a wide range of promising applications because of their much
enhanced properties. However, further development of such materials depends on the …

Chemically specific coarse‐graining of polymers: Methods and prospects

S Dhamankar, MA Webb - Journal of Polymer Science, 2021 - Wiley Online Library
Coarse‐grained (CG) modeling is an invaluable tool for the study of polymers and other soft
matter systems due to the span of spatiotemporal scales that typify their physics and …

[HTML][HTML] DeePCG: Constructing coarse-grained models via deep neural networks

L Zhang, J Han, H Wang, R Car - The Journal of chemical physics, 2018 - pubs.aip.org
We introduce a general framework for constructing coarse-grained potential models without
ad hoc approximations such as limiting the potential to two-and/or three-body contributions …

Understanding and modeling polymers: The challenge of multiple scales

F Schmid - ACS Polymers Au, 2022 - ACS Publications
Polymer materials are multiscale systems by definition. Already the description of a single
macromolecule involves a multitude of scales, and cooperative processes in polymer …

Advances in coarse-grained modeling of macromolecular complexes

AJ Pak, GA Voth - Current opinion in structural biology, 2018 - Elsevier
Highlights•Coarse-grained models are reduced representations of all-atom models that aim
to retain the essential molecular aspects for the system of interest.•Coarse-grained …

[HTML][HTML] Inverse methods for design of soft materials

ZM Sherman, MP Howard, BA Lindquist… - The Journal of …, 2020 - pubs.aip.org
Functional soft materials, comprising colloidal and molecular building blocks that self-
organize into complex structures as a result of their tunable interactions, enable a wide array …