David Sehnal

According to our database, David Sehnal authored at least 25 papers between 2011 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2023

PDBImages: a command-line tool for automated macromolecular structure visualization.

Adam Midlik, Sreenath Nair, Stephen Anyango, Mandar S. Deshpande, David Sehnal, Mihaly Varadi, Sameer Velankar

Bioinform., December, 2023

Mol* Volumes and Segmentations: visualization and interpretation of cell imaging data alongside macromolecular structure data and biological annotations.

Aliaksei Chareshneu, Adam Midlik, Crina-Maria Ionescu, Alexander S. Rose, Vladimír Horský, Alessio Cantara, Radka Svobodová Vareková, Karel Berka, David Sehnal

Nucleic Acids Res., July, 2023

2021

Mol* Viewer: modern web app for 3D visualization and analysis of large biomolecular structures.

David Sehnal, Sebastian Bittrich, Mandar S. Deshpande, Radka Svobodová Vareková, Karel Berka, Václav Bazgier, Sameer Velankar, Stephen K. Burley, Jaroslav Koca, Alexander S. Rose

Nucleic Acids Res., 2021

2020

BinaryCIF and CIFTools - Lightweight, efficient and extensible macromolecular data management.

David Sehnal, Sebastian Bittrich, Sameer Velankar, Jaroslav Koca, Radka Svobodová Vareková, Stephen K. Burley, Alexander S. Rose

PLoS Comput. Biol., 2020

PDBe: improved findability of macromolecular structure data in the PDB.

David R. Armstrong, John M. Berrisford, Matthew J. Conroy, Aleksandras Gutmanas, Stephen Anyango, Preeti Choudhary, Alice R. Clark, Jose M. Dana, Mandar S. Deshpande, Roisin Dunlop, Paul J. Gane, Romana Gáborová, Deepti Gupta, Pauline Haslam, Jaroslav Koca, Lora Mak, Saqib Mir, Abhik Mukhopadhyay, Nurul Nadzirin, Sreenath Nair, Typhaine Paysan-Lafosse, Lukás Pravda, David Sehnal, Osman Salih, Oliver S. Smart, James Tolchard, Mihaly Varadi, Radka Svobodová Vareková, Hossam Zaki, Gerard J. Kleywegt, Sameer Velankar

Nucleic Acids Res., 2020

2018

ChannelsDB: database of biomacromolecular tunnels and pores.

Lukás Pravda, David Sehnal, Radka Svobodová Vareková, Veronika Navrátilová, Dominik Tousek, Karel Berka, Michal Otyepka, Jaroslav Koca

Nucleic Acids Res., 2018

MOLEonline: a web-based tool for analyzing channels, tunnels and pores (2018 update).

Lukás Pravda, David Sehnal, Dominik Tousek, Veronika Navrátilová, Václav Bazgier, Karel Berka, Radka Svobodová Vareková, Jaroslav Koca, Michal Otyepka

Nucleic Acids Res., 2018

PDBe: towards reusable data delivery infrastructure at protein data bank in Europe.

Saqib Mir, Younes Alhroub, Stephen Anyango, David R. Armstrong, John M. Berrisford, Alice R. Clark, Matthew J. Conroy, Jose M. Dana, Mandar S. Deshpande, Deepti Gupta, Aleksandras Gutmanas, Pauline Haslam, Lora Mak, Abhik Mukhopadhyay, Nurul Nadzirin, Typhaine Paysan-Lafosse, David Sehnal, Sanchayita Sen, Oliver S. Smart, Mihaly Varadi, Gerard J. Kleywegt, Sameer Velankar

Nucleic Acids Res., 2018

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

David Sehnal, Alexander S. Rose, Jaroslav Koca, Stephen K. Burley, Sameer Velankar

Proceedings of the 1st Workshop on Molecular Graphics and Visual Analysis of Molecular Data, 2018

2015

ValidatorDB: database of up-to-date validation results for ligands and non-standard residues from the Protein Data Bank.

David Sehnal, Radka Svobodová Vareková, Lukás Pravda, Crina-Maria Ionescu, Stanislav Geidl, Vladimír Horský, Deepti Jaiswal Kundu, Michaela Wimmerová, Jaroslav Koca

Nucleic Acids Res., 2015

PatternQuery: web application for fast detection of biomacromolecular structural patterns in the entire Protein Data Bank.

David Sehnal, Lukás Pravda, Radka Svobodová Vareková, Crina-Maria Ionescu, Jaroslav Koca

Nucleic Acids Res., 2015

AtomicChargeCalculator: interactive web-based calculation of atomic charges in large biomolecular complexes and drug-like molecules.

Crina-Maria Ionescu, David Sehnal, Francesco L. Falginella, Purbaj Pant, Lukás Pravda, Tomás Bouchal, Radka Svobodová Vareková, Stanislav Geidl, Jaroslav Koca

J. Cheminformatics, 2015

Method of Solving the Volume Between Triangulated Mesh Surfaces.

Szymon Tengler, David Sehnal

Proceedings of the Information Systems Architecture and Technology: Proceedings of 36th International Conference on Information Systems Architecture and Technology - ISAT 2015, 2015

2014

MotiveValidator: interactive web-based validation of ligand and residue structure in biomolecular complexes.

Radka Svobodová Vareková, Deepti Jaiswal Kundu, David Sehnal, Crina-Maria Ionescu, Stanislav Geidl, Lukás Pravda, Vladimír Horský, Michaela Wimmerová, Jaroslav Koca

Nucleic Acids Res., 2014

Consistency of sugar structures and their annotation in the PDB.

Deepti Jaiswal Kundu, David Sehnal, Radka Svobodová Vareková, Crina-Maria Ionescu, Jaroslav Koca

J. Cheminformatics, 2014

Anatomy of enzyme channels.

Lukás Pravda, Karel Berka, Radka Svobodová Vareková, David Sehnal, Pavel Banás, Roman A. Laskowski, Jaroslav Koca, Michal Otyepka

BMC Bioinform., 2014

2013

Predicting pKa values from EEM atomic charges.

Radka Svobodová Vareková, Stanislav Geidl, Crina-Maria Ionescu, Ondrej Skrehota, Tomás Bouchal, David Sehnal, Ruben Abagyan, Jaroslav Koca

J. Cheminformatics, 2013

MOLE 2.0: advanced approach for analysis of biomacromolecular channels.

David Sehnal, Radka Svobodová Vareková, Karel Berka, Lukás Pravda, Veronika Navrátilová, Pavel Banás, Crina-Maria Ionescu, Michal Otyepka, Jaroslav Koca

J. Cheminformatics, 2013

2012

MOLE<i>online</i> 2.0: interactive web-based analysis of biomacromolecular channels.

Karel Berka, Ondrej Hanák, David Sehnal, Pavel Banás, Veronika Navrátilová, Deepti Jaiswal Kundu, Crina-Maria Ionescu, Radka Svobodová Vareková, Jaroslav Koca, Michal Otyepka

Nucleic Acids Res., 2012

SiteBinder: An Improved Approach for Comparing Multiple Protein Structural Motifs.

David Sehnal, Radka Svobodová Vareková, Heinrich J. Huber, Stanislav Geidl, Crina-Maria Ionescu, Michaela Wimmerová, Jaroslav Koca

J. Chem. Inf. Model., 2012

QSPR designer - employ your own descriptors in the automated QSAR modeling process.

Ondrej Skrehota, Radka Svobodová Vareková, Stanislav Geidl, Michal Kudera, David Sehnal, Crina-Maria Ionescu, Jan Zidek, Jaroslav Koca

J. Cheminformatics, 2012

SiteBinder - an improved approach for comparing multiple protein structural motifs. Case studies on biologically important motifs.

David Sehnal, Radka Svobodová Vareková, Heinrich J. Huber, Stanislav Geidl, Crina-Maria Ionescu, Michaela Wimmerová, Jaroslav Koca

J. Cheminformatics, 2012

Searching for tunnels of proteins - comparison of approaches and available software tools.

Deepti Jaiswal Kundu, Radka Svobodová Vareková, Crina-Maria Ionescu, David Sehnal, Jaroslav Koca

J. Cheminformatics, 2012

2011

Predicting p<i>K</i>_a Values of Substituted Phenols from Atomic Charges: Comparison of Different Quantum Mechanical Methods and Charge Distribution Schemes.

Radka Svobodová Vareková, Stanislav Geidl, Crina-Maria Ionescu, Ondrej Skrehota, Michal Kudera, David Sehnal, Tomás Bouchal, Ruben Abagyan, Heinrich J. Huber, Jaroslav Koca

J. Chem. Inf. Model., 2011

QSPR designer - a program to design and evaluate QSPR models. Case study on pK_a prediction.

Ondrej Skrehota, Radka Svobodová Vareková, Stanislav Geidl, Michal Kudera, David Sehnal, Crina-Maria Ionescu, Jaroslav Koca

J. Cheminformatics, 2011