Jirí Damborský
Orcid: 0000-0002-7848-8216Affiliations:
- Masaryk University, Brno, Czech Republic
According to our database1,
Jirí Damborský
authored at least 41 papers
between 1997 and 2023.
Collaborative distances:
Collaborative distances:
Timeline
Legend:
Book In proceedings Article PhD thesis Dataset OtherLinks
Online presence:
-
on orcid.org
On csauthors.net:
Bibliography
2023
PredictONCO: a web tool supporting decision-making in precision oncology by extending the bioinformatics predictions with advanced computing and machine learning.
Briefings Bioinform., November, 2023
FireProt 2.0: web-based platform for the fully automated design of thermostable proteins.
Briefings Bioinform., November, 2023
pyCaverDock: Python implementation of the popular tool for analysis of ligand transport with advanced caching and batch calculation support.
Bioinform., August, 2023
CoRR, 2023
2022
Nucleic Acids Res., 2022
Nucleic Acids Res., 2022
CalFitter 2.0: Leveraging the power of singular value decomposition to analyse protein thermostability.
Nucleic Acids Res., 2022
2021
Nucleic Acids Res., 2021
Bioinform., 2021
2020
IEEE ACM Trans. Comput. Biol. Bioinform., 2020
EnzymeMiner: automated mining of soluble enzymes with diverse structures, catalytic properties and stabilities.
Nucleic Acids Res., 2020
Comput. Graph. Forum, 2020
2019
Caver Web 1.0: identification of tunnels and channels in proteins and analysis of ligand transport.
Nucleic Acids Res., 2019
Analysis of Long Molecular Dynamics Simulations Using Interactive Focus+Context Visualization.
Comput. Graph. Forum, 2019
CaverDock: a molecular docking-based tool to analyse ligand transport through protein tunnels and channels.
Bioinform., 2019
2018
Detection of Chloroalkanes by Surface-Enhanced Raman Spectroscopy in Microfluidic Chips.
Sensors, 2018
HotSpot Wizard 3.0: web server for automated design of mutations and smart libraries based on sequence input information.
Nucleic Acids Res., 2018
Nucleic Acids Res., 2018
CAVER Analyst 2.0: analysis and visualization of channels and tunnels in protein structures and molecular dynamics trajectories.
Bioinform., 2018
2017
Catalytic Cycle of Haloalkane Dehalogenases Toward Unnatural Substrates Explored by Computational Modeling.
J. Chem. Inf. Model., August, 2017
Nucleic Acids Res., 2017
Proceedings of the VCBM 17: Eurographics Workshop on Visual Computing for Biology and Medicine, 2017
Proceedings of the 11th International Conference on Practical Applications of Computational Biology & Bioinformatics, 2017
2016
IEEE ACM Trans. Comput. Biol. Bioinform., 2016
PredictSNP2: A Unified Platform for Accurately Evaluating SNP Effects by Exploiting the Different Characteristics of Variants in Distinct Genomic Regions.
PLoS Comput. Biol., 2016
HotSpot Wizard 2.0: automated design of site-specific mutations and smart libraries in protein engineering.
Nucleic Acids Res., 2016
2015
FireProt: Energy- and Evolution-Based Computational Design of Thermostable Multiple-Point Mutants.
PLoS Comput. Biol., 2015
Mechanism-Based Discovery of Novel Substrates of Haloalkane Dehalogenases Using <i>in Silico</i> Screening.
J. Chem. Inf. Model., 2015
2014
PredictSNP: Robust and Accurate Consensus Classifier for Prediction of Disease-Related Mutations.
PLoS Comput. Biol., 2014
CAVER Analyst 1.0: graphic tool for interactive visualization and analysis of tunnels and channels in protein structures.
Bioinform., 2014
2012
CAVER 3.0: A Tool for the Analysis of Transport Pathways in Dynamic Protein Structures.
PLoS Comput. Biol., 2012
2011
Proceedings of the Environmental Software Systems. Frameworks of eEnvironment, 2011
2009
Nucleic Acids Res., 2009
2006
Mechanism of enhanced conversion of 1, 2, 3-trichloropropane by mutant haloalkane dehalogenase revealed by molecular modeling.
J. Comput. Aided Mol. Des., 2006
BMC Bioinform., 2006
2004
Binding of Fatty Acids to beta-Cryptogein: Quantitative Structure-Activity Relationships and Design of Selective Protein Mutants.
J. Chem. Inf. Model., 2004
2003
Comparative binding energy analysis of haloalkane dehalogenase substrates: Modelling of enzyme-substrate complexes by molecular docking and quantum mechanical calculations.
J. Comput. Aided Mol. Des., 2003
2000
Stability of Complexes of Aromatic Amides with Bromide Anion: Quantitative Structure-Property Relationships.
J. Chem. Inf. Comput. Sci., 2000
TRITON: in silico construction of protein mutants and prediction of their activities.
Bioinform., 2000
1998
A Molecular Modeling Study of the Catalytic Mechanism of Haloalkane Dehalogenase. 2. Quantum Chemical Study of Complete Reaction Mechanism.
J. Chem. Inf. Comput. Sci., 1998
1997
A Molecular Modeling Study of the Catalytic Mechanism of Haloalkane Dehalogenase: 1. Quantum Chemical Study of the First Reaction Step.
J. Chem. Inf. Comput. Sci., 1997