| P2Rank: machine learning based tool for rapid and accurate prediction of ligand binding sites from protein structure R Krivák, D Hoksza Journal of cheminformatics 10 (1), 39, 2018 | 596 | 2018 |
| PrankWeb: a web server for ligand binding site prediction and visualization L Jendele, R Krivak, P Skoda, M Novotny, D Hoksza Nucleic acids research 47 (W1), W345-W349, 2019 | 495 | 2019 |
| RNAcentral 2021: secondary structure integration, improved sequence search and new member databases Nucleic acids research 49 (D1), D212-D220, 2021 | 370 | 2021 |
| PrankWeb 3: accelerated ligand-binding site predictions for experimental and modelled protein structures D Jakubec, P Skoda, R Krivak, M Novotny, D Hoksza Nucleic Acids Research 50 (W1), W593-W597, 2022 | 196 | 2022 |
| R2DT is a framework for predicting and visualising RNA secondary structure using templates BA Sweeney, D Hoksza, EP Nawrocki, CE Ribas, F Madeira, JJ Cannone, ... Nature Communications 12 (1), 3494, 2021 | 135 | 2021 |
| Comprehensive characterization of amino acid positions in protein structures reveals molecular effect of missense variants S Iqbal, E Pérez-Palma, JB Jespersen, P May, D Hoksza, HO Heyne, ... Proceedings of the National Academy of Sciences 117 (45), 28201-28211, 2020 | 115 | 2020 |
| PDBe-KB: a community-driven resource for structural and functional annotations M Varadi, J Berrisford, M Deshpande, SS Nair, A Gutmanas, D Armstrong, ... Nucleic Acids Research 48 (D1), D344-D353, 2020 | 105 | 2020 |
| Improving protein-ligand binding site prediction accuracy by classification of inner pocket points using local features R Krivák, D Hoksza Journal of cheminformatics 7 (1), 12, 2015 | 94 | 2015 |
| PDBe-KB: collaboratively defining the biological context of structural data Nucleic acids research 50 (D1), D534-D542, 2022 | 58 | 2022 |
| Molpher: a software framework for systematic chemical space exploration D Hoksza, P Škoda, M Voršilák, D Svozil Journal of cheminformatics 6 (1), 7, 2014 | 54 | 2014 |
| MINERVA API and plugins: opening molecular network analysis and visualization to the community D Hoksza, P Gawron, M Ostaszewski, E Smula, R Schneider Bioinformatics 35 (21), 4496-4498, 2019 | 38 | 2019 |
| Efficient RNA pairwise structure comparison by SETTER method D Hoksza, D Svozil Bioinformatics 28 (14), 1858-1864, 2012 | 37 | 2012 |
| SETTER: web server for RNA structure comparison P Čech, D Svozil, D Hoksza Nucleic acids research 40 (W1), W42-W48, 2012 | 35 | 2012 |
| Closing the gap between formats for storing layout information in systems biology D Hoksza, P Gawron, M Ostaszewski, J Hasenauer, R Schneider Briefings in bioinformatics 21 (4), 1249-1260, 2020 | 31 | 2020 |
| MolArt: a molecular structure annotation and visualization tool D Hoksza, P Gawron, M Ostaszewski, R Schneider Bioinformatics 34 (23), 4127-4128, 2018 | 29 | 2018 |
| TRAVeLer: a tool for template-based RNA secondary structure visualization R Elias, D Hoksza BMC bioinformatics 18 (1), 487, 2017 | 29 | 2017 |
| Improving the performance of M-tree family by nearest-neighbor graphs T Skopal, D Hoksza East European Conference on Advances in Databases and Information Systems …, 2007 | 27 | 2007 |
| Using Neo4j for mining protein graphs: a case study D Hoksza, J Jelínek 2015 26th International Workshop on Database and Expert Systems Applications …, 2015 | 24 | 2015 |
| PrankWeb 4: a modular web server for protein–ligand binding site prediction and downstream analysis L Polák, P Škoda, K Riedlová, R Krivák, M Novotný, D Hoksza Nucleic Acids Research, gkaf421, 2025 | 20 | 2025 |
| MISCAST: MIssense variant to protein StruCture Analysis web SuiTe S Iqbal, D Hoksza, E Pérez-Palma, P May, JB Jespersen, SS Ahmed, ... Nucleic Acids Research 48 (W1), W132-W139, 2020 | 20 | 2020 |
Radoslav KrivakIOCB Prague, Charles University in PragueVerified email at ksi.ms.mff.cuni.cz
