Publications by authors named "Jan Stourac"

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Visual Support for the Loop Grafting Workflow on Proteins.
Filip Opaleny, Pavol Ulbrich, Joan Planas-Iglesias, Jan Byska, Jan Stourac

IEEE Trans Vis Comput Graph· January 2025

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Analysis of mutations in precision oncology using the automated, accurate, and user-friendly web tool PredictONCO.
Rayyan Tariq Khan, Petra Pokorna, Jan Stourac, Simeon Borko, Adam Dobias

Comput Struct Biotechnol J· December 2024

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A computational workflow for analysis of missense mutations in precision oncology.
Rayyan Tariq Khan, Petra Pokorna, Jan Stourac, Simeon Borko, Ihor Arefiev

J Cheminform· July 2024

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PredictONCO: a web tool supporting decision-making in precision oncology by extending the bioinformatics predictions with advanced computing and machine learning.
Jan Stourac, Simeon Borko, Rayyan T Khan, Petra Pokorna, Adam Dobias

Brief Bioinform· November 2023

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pyCaverDock: Python implementation of the popular tool for analysis of ligand transport with advanced caching and batch calculation support.
Ondrej Vavra, Jakub Beranek, Jan Stourac, Martin Surkovsky, Jiri Filipovic

Bioinformatics· August 2023

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Virtual screening of potential anticancer drugs based on microbial products.
Gaspar P Pinto, Natalie M Hendrikse, Jan Stourac, Jiri Damborsky, David Bednar

Semin Cancer Biol· November 2022

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SoluProtMut: A manually curated database of protein solubility changes upon mutations.
Jan Velecký, Marie Hamsikova, Jan Stourac, Milos Musil, Jiri Damborsky

Comput Struct Biotechnol J· November 2022

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Fully automated virtual screening pipeline of FDA-approved drugs using Caver Web.
Milos Musil, Andrej Jezik, Marie Jankujova, Jan Stourac, Jakub Galgonek

Comput Struct Biotechnol J· November 2022

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LoopGrafter: a web tool for transplanting dynamical loops for protein engineering.
Joan Planas-Iglesias, Filip Opaleny, Pavol Ulbrich, Jan Stourac, Zainab Sanusi

Nucleic Acids Res· July 2022

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CalFitter 2.0: Leveraging the power of singular value decomposition to analyse protein thermostability.
Antonin Kunka, David Lacko, Jan Stourac, Jiri Damborsky, Zbynek Prokop

Nucleic Acids Res· July 2022

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FireProtASR: A Web Server for Fully Automated Ancestral Sequence Reconstruction.
Milos Musil, Rayyan Tariq Khan, Andy Beier, Jan Stourac, Hannes Konegger

Brief Bioinform· July 2021

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Computational design of enzymes for biotechnological applications.
Joan Planas-Iglesias, Sérgio M Marques, Gaspar P Pinto, Milos Musil, Jan Stourac

Biotechnol Adv· April 2021

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Fully Automated Ancestral Sequence Reconstruction using FireProt.
Rayyan Tariq Khan, Milos Musil, Jan Stourac, Jiri Damborsky, David Bednar

Curr Protoc· February 2021

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FireProtDB: database of manually curated protein stability data.
Jan Stourac, Juraj Dubrava, Milos Musil, Jana Horackova, Jiri Damborsky

Nucleic Acids Res· January 2021

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EnzymeMiner: automated mining of soluble enzymes with diverse structures, catalytic properties and stabilities.
Jiri Hon, Simeon Borko, Jan Stourac, Zbynek Prokop, Jaroslav Zendulka

Nucleic Acids Res· July 2020

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CaverDock: a molecular docking-based tool to analyse ligand transport through protein tunnels and channels.
Ondrej Vavra, Jiri Filipovic, Jan Plhak, David Bednar, Sergio M Marques, Jan Stourac

Bioinformatics· December 2019

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Fast Screening of Inhibitor Binding/Unbinding Using Novel Software Tool CaverDock.
Gaspar P Pinto, Ondrej Vavra, Jiri Filipovic, Jan Stourac, David Bednar

Front Chem· October 2019

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Caver Web 1.0: identification of tunnels and channels in proteins and analysis of ligand transport.
Jan Stourac, Ondrej Vavra, Piia Kokkonen, Jiri Filipovic, Gaspar Pinto

Nucleic Acids Res· July 2019

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CAVER Analyst 2.0: analysis and visualization of channels and tunnels in protein structures and molecular dynamics trajectories.
Adam Jurcik, David Bednar, Jan Byska, Sergio M Marques, Katarina Furmanova, Jan Stourac

Bioinformatics· October 2018

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CalFitter: a web server for analysis of protein thermal denaturation data.
Stanislav Mazurenko, Jan Stourac, Antonin Kunka, Sava Nedeljkovic, David Bednar

Nucleic Acids Res· July 2018

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HotSpot Wizard 3.0: web server for automated design of mutations and smart libraries based on sequence input information.
Lenka Sumbalova, Jan Stourac, Tomas Martinek, David Bednar, Jiri Damborsky

Nucleic Acids Res· July 2018

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FireProt: web server for automated design of thermostable proteins.
Milos Musil, Jan Stourac, Jaroslav Bendl, Jan Brezovsky, Zbynek Prokop

Nucleic Acids Res· July 2017

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NewProt - a protein engineering portal.
Andreas Schwarte, Maika Genz, Lilly Skalden, Alberto Nobili, Clare Vickers, Jan Stourac

Protein Eng Des Sel· June 2017

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Top 10 metrics for life science software good practices.
Haydee Artaza, Neil Chue Hong, Manuel Corpas, Angel Corpuz, Rob Hooft, Jan Stourac

F1000Res· September 2016

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PredictSNP2: A Unified Platform for Accurately Evaluating SNP Effects by Exploiting the Different Characteristics of Variants in Distinct Genomic Regions.
Jaroslav Bendl, Miloš Musil, Jan Štourač, Jaroslav Zendulka, Jiří Damborský

PLoS Comput Biol· May 2016

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