Ondřej Strnad
Ondřej Strnad
Research Scientist at KAUST
Verified email at
Cited by
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CAVER 3.0: a tool for the analysis of transport pathways in dynamic protein structures
E Chovancova, A Pavelka, P Benes, O Strnad, J Brezovsky, B Kozlikova, ...
Public Library of Science 8 (10), e1002708, 2012
CAVER Analyst 2.0: analysis and visualization of channels and tunnels in protein structures and molecular dynamics trajectories
A Jurcik, D Bednar, J Byska, SM Marques, K Furmanova, L Daniel, ...
Bioinformatics 34 (20), 3586-3588, 2018
CAVER Analyst 1.0: graphic tool for interactive visualization and analysis of tunnels and channels in protein structures
B Kozlikova, E Sebestova, V Sustr, J Brezovsky, O Strnad, L Daniel, ...
Bioinformatics 30 (18), 2684-2685, 2014
Modeling in the Time of COVID-19: Statistical and Rule-based Mesoscale Models
N Nguyen, O Strnad, T Klein, D Luo, R Alharbi, P Wonka, M Maritan, ...
IEEE transactions on visualization and computer graphics 27 (2), 722-732, 2020
Molecumentary: Adaptable narrated documentaries using molecular visualization
D Kouřil, O Strnad, P Mindek, S Halladjian, T Isenberg, ME Gröller, I Viola
IEEE Transactions on Visualization and Computer Graphics 29 (3), 1733-1747, 2021
Finding nano-Ötzi: cryo-electron tomography visualization guided by learned segmentation
N Nguyen, C Bohak, D Engel, P Mindek, O Strnad, P Wonka, S Li, ...
IEEE Transactions on Visualization and Computer Graphics 29 (10), 4198-4214, 2022
Nanotilus: Generator of immersive guided-tours in crowded 3d environments
R Alharbi, O Strnad, LR Luidolt, M Waldner, D Kouřil, C Bohak, T Klein, ...
IEEE Transactions on Visualization and Computer Graphics 29 (3), 1860-1875, 2021
P Beneš, B Kozlíková, O Strnad, V Šustr, E Chovancová, A Pavelka, ...
Real-time visualization and exploration of protein empty space with varying parameters
O Strnad, B Kozlíková, V Šustr, J Sochor
International Journal on Advances in Life Sciences 5 (3), 2013
New path planning method for computation of constrained dynamic channels in proteins
P Beneš, O Strnad, J Sochor
Václav Skala-UNION Agency, 2011
Computation of dynamic channels in proteins
P Beneš, P Medek, O Strnad, J Sochor
Proceedings of Biotechno, U. o. S. Pei-Yuan Qian, KAUST and HK Technology …, 2011
Visualizing Movements of Protein Tunnels in Molecular Dynamics Simulations.
B Kozlíková, A Jurcík, J Byska, O Strnad, J Sochor
VCBM, 97-106, 2014
Algorithms for Detecting Pathways in Large Protein Structures and Their Ensembles
O Strnad
PhD thesis. Masaryk Univer sity, 2014
SpyDirect: A Novel Biofunctionalization Method for High Stability and Longevity of Electronic Biosensors
K Guo, R Grünberg, Y Ren, T Chang, S Wustoni, O Strnad, A Koklu, ...
Advanced Science, 2306716, 2023
Detection of intramolecular tunnels connecting sequence of sites in protein structures
O Strnad, B Kozlikova, J Sochor
8th International Conference on Practical Applications of Computational …, 2014
Volume conductor: interactive visibility management for crowded volumes
Ž Lesar, R Alharbi, C Bohak, O Strnad, C Heinzl, M Marolt, I Viola
The visual computer 40 (2), 1005-1020, 2024
SynopSet: Multiscale Visual Abstraction Set for Explanatory Analysis of DNA Nanotechnology Simulations
D Luo, A Kouyoumdjian, O Strnad, H Miao, I Barišić, I Viola
arXiv preprint arXiv:2205.01628, 2022
E Chovancová, A Pavelka, P Beneš, O Strnad, J Brezovský, B Kozlíková, ...
Nanomatrix: Scalable Construction of Crowded Biological Environments
R Alharbi, O Strnad, T Klein, I Viola
IEEE Transactions on Visualization and Computer Graphics, 2024
Towards Differentiable Electron Microscopy Simulation: Methods and Applications
N Nguyen, F Liang, D Engel, C Bohak, O Strnad, T Ropinski, I Viola
2024 IEEE 17th Pacific Visualization Conference (PacificVis), 62-71, 2024
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