David Hoksza

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Petr ŠkodaUniverzita Karlova v PrazeVerified email at ksi.mff.cuni.cz
Radoslav KrivakCharles University in PragueVerified email at ksi.ms.mff.cuni.cz
Tomas SkopalProfessor of Computer Science, Charles UniversityVerified email at matfyz.cuni.cz
Daniel SvozilVerified email at vscht.cz
Jiří NovákLaboratory of Molecular Structure Characterization, Institute of Microbiology, Academy of SciencesVerified email at biomed.cas.cz
Jakub GalgonekInstitute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech RepublicVerified email at uochb.cas.cz
Marian NovotnýDept. of Cell Biology, Faculty of Science, Charles University in PragueVerified email at natur.cuni.cz
Sumaiya IqbalGroup Leader, Broad Institute of MIT and HarvardVerified email at broadinstitute.org
Dennis LalAssistant Professor and Assistant Staff at Cleveland Clinic; Visiting Scientist at Broad InstituteVerified email at broadinstitute.org
Patrick MayGenome Analysis, Bioinformatics Core, Luxembourg Centre for Systems BiomedicineVerified email at uni.lu
Marek OstaszewskiResearch scientist, University of LuxembourgVerified email at uni.lu
Piotr GawronLuxembourg Centre for Systems BiomedicineVerified email at cs.put.poznan.pl
Lukas JendeleETH ZurichVerified email at ethz.ch
Reinhard SchneiderProf. Bioinformatics, University of Luxembourg, Head of Bioinformatics Core Facility, LuxembourgVerified email at uni.lu
Jakub LokocUniverzita KarlovaVerified email at ksi.mff.cuni.cz
Anton I. PetrovOpen to work in RNA bioinformaticsVerified email at antonpetrov.com
Jaroslav PokornyFaculty of Mathematics and Physics, Charles UniversityVerified email at ksi.mff.cuni.cz
Anton S. PetrovResearch Scientist, Georgia Institute of TechnologyVerified email at biology.gatech.edu

David Hoksza

Charles University

Verified email at matfyz.cuni.cz - Homepage

structural bioinformatics proteomics cheminformatics computational drug discovery


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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	148	2019
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, 1-12, 2018	146	2018
RNAcentral 2021: secondary structure integration, improved sequence search and new member databases Nucleic acids research 49 (D1), D212-D220, 2021	79	2021
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	57	2020
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	42*	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), 1-13, 2015	42	2015
Molpher: a software framework for systematic chemical space exploration D Hoksza, P Škoda, M Voršilák, D Svozil Journal of cheminformatics 6 (1), 1-13, 2014	38	2014
Efficient RNA pairwise structure comparison by SETTER method D Hoksza, D Svozil Bioinformatics 28 (14), 1858-1864, 2012	34	2012
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	32*	2021
SETTER: web server for RNA structure comparison P Čech, D Svozil, D Hoksza Nucleic acids research 40 (W1), W42-W48, 2012	30	2012
Improving the performance of M-tree family by nearest-neighbor graphs T Skopal, D Hoksza Advances in Databases and Information Systems: 11th East European Conference …, 2007	27	2007
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	23	2019
MolArt: a molecular structure annotation and visualization tool D Hoksza, P Gawron, M Ostaszewski, R Schneider Bioinformatics 34 (23), 4127-4128, 2018	19	2018
TRAVeLer: a tool for template-based RNA secondary structure visualization R Elias, D Hoksza BMC bioinformatics 18 (1), 1-10, 2017	19	2017
SProt: sphere-based protein structure similarity algorithm J Galgonek, D Hoksza, T Skopal Proteome science 9, 1-12, 2011	16	2011
PDBe-KB: collaboratively defining the biological context of structural data Nucleic acids research 50 (D1), D534-D542, 2022	15	2022
Using Neo4j for mining protein graphs: a case study D Hoksza, J Jelínek 2015 26th International Workshop on Database and Expert Systems Applications …, 2015	14	2015
MultiSETTER: web server for multiple RNA structure comparison P Čech, D Hoksza, D Svozil BMC bioinformatics 16 (1), 1-8, 2015	13	2015
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	11	2020
Scaffold analysis of PubChem database as background for hierarchical scaffold-based visualization J Velkoborsky, D Hoksza Journal of Cheminformatics 8 (1), 1-14, 2016	11	2016

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