Visualization of biomolecular structures: State of the art revisited

B Kozlíková, M Krone, M Falk, N Lindow… - Computer Graphics …, 2017 - Wiley Online Library
Structural properties of molecules are of primary concern in many fields. This report provides
a comprehensive overview on techniques that have been developed in the fields of …

Web-based molecular graphics for large complexes

AS Rose, AR Bradley, Y Valasatava… - Proceedings of the 21st …, 2016 - dl.acm.org
The interactive visualization of very large macromolecular complexes on the web is
becoming a challenging problem as experimental techniques advance at an unprecedented …

NGL Viewer: a web application for molecular visualization

AS Rose, PW Hildebrand - Nucleic acids research, 2015 - academic.oup.com
Abstract The NGL Viewer (http://proteinformatics. charite. de/ngl) is a web application for the
visualization of macromolecular structures. By fully adopting capabilities of modern web …

From complex data to clear insights: visualizing molecular dynamics trajectories

H Belghit, M Spivak, M Dauchez, M Baaden… - Frontiers in …, 2024 - frontiersin.org
Advances in simulations, combined with technological developments in high-performance
computing, have made it possible to produce a physically accurate dynamic representation …

[PDF][PDF] Mol*: Towards a Common Library and Tools for Web Molecular Graphics.

D Sehnal, AS Rose, J Koca, SK Burley, S Velankar - MolVa@ EuroVis, 2018 - diglib.eg.org
Advances in experimental techniques are providing access to structures of ever more
complex and larger macromolecular systems. Web-browser based visualization and …

Game on, science-how video game technology may help biologists tackle visualization challenges

Z Lv, A Tek, F Da Silva, C Empereur-Mot, M Chavent… - PloS one, 2013 - journals.plos.org
The video games industry develops ever more advanced technologies to improve rendering,
image quality, ergonomics and user experience of their creations providing very simple to …

Characterizing molecular interactions in chemical systems

D Günther, RA Boto, J Contreras-Garcia… - IEEE transactions on …, 2014 - ieeexplore.ieee.org
Interactions between atoms have a major influence on the chemical properties of molecular
systems. While covalent interactions impose the structural integrity of molecules …

Modeling in the Time of COVID-19: Statistical and Rule-based Mesoscale Models

N Nguyen, O Strnad, T Klein, D Luo… - IEEE transactions on …, 2020 - ieeexplore.ieee.org
We present a new technique for the rapid modeling and construction of scientifically
accurate mesoscale biological models. The resulting 3D models are based on a few 2D …

Biomimetic phospholipid membrane organization on graphene and graphene oxide surfaces: a molecular dynamics simulation study

N Willems, A Urtizberea, AF Verre, M Iliut… - ACS …, 2017 - ACS Publications
Supported phospholipid membrane patches stabilized on graphene surfaces have shown
potential in sensor device functionalization, including biosensors and biocatalysis. Lipid dip …

Geometric detection algorithms for cavities on protein surfaces in molecular graphics: a survey

T Simões, D Lopes, S Dias, F Fernandes… - Computer graphics …, 2017 - Wiley Online Library
Detecting and analysing protein cavities provides significant information about active sites
for biological processes (eg protein–protein or protein–ligand binding) in molecular graphics …