Perspective: Coarse-grained models for biomolecular systems

WG Noid - The Journal of chemical physics, 2013 - pubs.aip.org
By focusing on essential features, while averaging over less important details, coarse-
grained (CG) models provide significant computational and conceptual advantages with …

Systematic coarse-graining methods for soft matter simulations–a review

E Brini, EA Algaer, P Ganguly, C Li… - Soft Matter, 2013 - pubs.rsc.org
Multiscale modelling of soft matter is an emerging field that has made rapid progress in the
past decade. Several methods for systematic coarse-graining of molecular liquids and soft …

Versatile object-oriented toolkit for coarse-graining applications

V Ruhle, C Junghans, A Lukyanov… - Journal of chemical …, 2009 - ACS Publications
Coarse-graining is a systematic way of reducing the number of degrees of freedom
representing a system of interest. Several coarse-graining techniques have so far been …

Multiscale simulation of soft matter systems–from the atomistic to the coarse-grained level and back

C Peter, K Kremer - Soft Matter, 2009 - pubs.rsc.org
Many physical phenomena and properties of soft matter systems such as synthetic or
biological materials are governed by interactions and processes on a wide range of length …

A review of multiscale computational methods in polymeric materials

A Gooneie, S Schuschnigg, C Holzer - Polymers, 2017 - mdpi.com
Polymeric materials display distinguished characteristics which stem from the interplay of
phenomena at various length and time scales. Further development of polymer systems …

Probing the self-assembly mechanism of diphenylalanine-based peptide nanovesicles and nanotubes

C Guo, Y Luo, R Zhou, G Wei - ACS nano, 2012 - ACS Publications
Nanostructures, particularly those from peptide self-assemblies, have attracted great
attention lately due to their potential applications in nanotemplating and nanotechnology …

Molecular simulations of self-assembling bio-inspired supramolecular systems and their connection to experiments

PWJM Frederix, I Patmanidis, SJ Marrink - Chemical Society Reviews, 2018 - pubs.rsc.org
In bionanotechnology, the field of creating functional materials consisting of bio-inspired
molecules, the function and shape of a nanostructure only appear through the assembly of …

Short peptide based self-assembled nanostructures: implications in drug delivery and tissue engineering

JJ Panda, VS Chauhan - Polymer Chemistry, 2014 - pubs.rsc.org
Self-assembly of biomolecules facilitates the creation of a diverse range of hierarchical
nanostructures from a wide range of polymeric and non-polymeric materials. Peptides and …

Virtual screening for dipeptide aggregation: toward predictive tools for peptide self-assembly

PWJM Frederix, RV Ulijn, NT Hunt… - The journal of physical …, 2011 - ACS Publications
Several short peptide sequences are known to self-assemble into supramolecular
nanostructures with interesting properties. In this study, coarse-grained molecular dynamics …

Guiding principles for peptide nanotechnology through directed discovery

A Lampel, RV Ulijn, T Tuttle - Chemical Society Reviews, 2018 - pubs.rsc.org
Life's diverse molecular functions are largely based on only a small number of highly
conserved building blocks–the twenty canonical amino acids. These building blocks are …