RNDr. Jan Byška, Ph.D.

Curriculum Vitae

Person-Related Identification Information

• RNDr. Jan Byška, Ph.D.

Department

• Department of Visual Computing, Faculty of Informatics, Masaryk University

Employment - Position

• Assistant Professor

Education and Academic Qualifications

• 2011 – 2016: Doctoral Studies – Informatics, Masaryk University, Brno, Czech Republic
• 2006 – 2011: Bachelor & Master Studies – Applied Informatics & Computer Graphics

Employment

• Nov. 2019 – now: Adjunct Associate Professor at University of Bergen, Bergen, Norway
• Jul. 2018 – now: Assistant Professor at Masaryk University, Brno, Czech Republic
• Oct. 2016 – Jun. 2019: Postdoctoral Fellowship at University of Bergen, Bergen, Norway
• Apr. 2016 – Sep. 2016: Researcher at University of Bergen, Bergen, Norway
• Nov. 2011 – Dec. 2012: Researcher at Masaryk University, Brno, Czech Republic

Teaching Activities

• Computer Graphics, Visualization, Data-oriented Visual Computing

Scientific and Research Activities

• Various challenges in the field of visualization of biomolecular and time-dependent data.

Internship

• Oct. 2016 – Jun. 2019 PostDoc at University of Bergen, Bergen, Norway
• Apr. 2016 – Sep. 2016 Researcher at University of Bergen, Bergen, Norway
• Aug. 2015 - May. 2016 Intership at University of Bergen, Bergen, Norway

Activities Outside University

• General co-chair: BioVis (2023, 2024), Workshop on Molecular Graphics and Visual Analysis of Molecular Data (2018, 2019, 2020, 2021, 2023)
• Guest editor: Computers & Graphics (2020, 2021, 2023)
• Poster co-chair: EuroVis (2020, 2021), VCBM (2019, 2022), BioVis (2021)
• Tutorial co-organizer for Course in Science Communication (2018), NORBIS Summer School on Communicating Research by Visualization, Illustration, and Storytelling (2017), and Bio+Med+Vis Spring School (2021, 2022, 2023)
• Local co-organizer: VCBM (2016, 2019), EuroVis (2018)
• IPC: PacificVis (2020-2022), VCBM (2020-2022), EuroVis (2021-2024), IEEE VIS (2020-2024), BIOKDD (2020), LEVIA (2020), ACM IUI (2021)

Awards Related to Science and Research

• Best paper awards at BioVis 2016 and VCBM 2019.

Major Publications

• KUŤÁK, David, Pere-Pau VÁZQUEZ, Tobias ISENBERG, Michael KRONE, Marc BAADEN, Jan BYŠKA, Barbora KOZLÍKOVÁ a Haichao MIAO. State of the Art of Molecular Visualization in Immersive Virtual Environments. Computer Graphics Forum. Wiley-Blackwell, 2023, roč. 42, č. 6, s. 1-29. ISSN 0167-7055. Dostupné z: https://dx.doi.org/10.1111/cgf.14738. URL info
• KUŤÁK, David, Matias Nicolás SELZER, Jan BYŠKA, María Luján GANUZA, Ivan BARIŠIĆ, Barbora KOZLÍKOVÁ a Haichao MIAO. Vivern – A Virtual Environment for Multiscale Visualization and Modeling of DNA Nanostructures. IEEE Transactions on Visualization and Computer Graphics. 2022, roč. 28, č. 12, s. 4825-4838. ISSN 1077-2626. Dostupné z: https://dx.doi.org/10.1109/TVCG.2021.3106328. URL info
• PLANAS IGLESIAS, Joan, Filip OPÁLENÝ, Pavol ULBRICH, Jan ŠTOURAČ, Zainab Kemi SANUSI, José Gaspar RANGEL PAMPLONA PIZARRO PINTO, Andrea SMITH, Jan BYŠKA, Jiří DAMBORSKÝ, Barbora KOZLÍKOVÁ a David BEDNÁŘ. LoopGrafter: a web tool for transplanting dynamical loops for protein engineering. Nucleic acids research. Oxford: Oxford University Press, 2022, roč. 50, W1, s. "W465"-"W473", 9 s. ISSN 0305-1048. Dostupné z: https://dx.doi.org/10.1093/nar/gkac249. URL info
• FURMANOVÁ, Katarína, Adam JURČÍK, Barbora KOZLÍKOVÁ, Helwig HAUSER a Jan BYŠKA. Multiscale Visual Drilldown for the Analysis of Large Ensembles of Multi-Body Protein Complexes. IEEE Transactions on Visualization and Computer Graphics. IEEE, 2020, roč. 26, č. 1, s. 843-852. ISSN 1077-2626. Dostupné z: https://dx.doi.org/10.1109/TVCG.2019.2934333. URL info
• FURMANOVÁ, Katarína, Ondřej VÁVRA, Barbora KOZLÍKOVÁ, Jiří DAMBORSKÝ, Vojtěch VONÁSEK, David BEDNÁŘ a Jan BYŠKA. DockVis: Visual Analysis of Molecular Docking Trajectories. Computer Graphics Forum. Wiley-Blackwell, 2020, roč. 39, č. 6, s. 452-464. ISSN 0167-7055. Dostupné z: https://dx.doi.org/10.1111/cgf.14048. URL info
• BEDOUCHA, Pierre, Reuter NATHALIE, Helwig HAUSER a Jan BYŠKA. Visual exploration of large normal mode spaces to study protein flexibility. Computers & Graphics. Netherlands: Elsevier Science Direct, 2020, roč. 90, August, s. 73-83. ISSN 0097-8493. Dostupné z: https://dx.doi.org/10.1016/j.cag.2020.05.025. URL info
• BYŠKA, Jan, Thomas TRAUTNER, Sérgio Manuel MARQUES, Jiří DAMBORSKÝ, Barbora KOZLÍKOVÁ a Manuela WALDNER. Analysis of Long Molecular Dynamics Simulations Using Interactive Focus+Context Visualization. Computer Graphics Forum. Wiley-Blackwell, 2019, roč. 38, č. 3, s. 441-453. ISSN 0167-7055. Dostupné z: https://dx.doi.org/10.1111/cgf.13701. URL info
• JURČÍK, Adam, David BEDNÁŘ, Jan BYŠKA, Sérgio Manuel MARQUES, Katarína FURMANOVÁ, Lukáš DANIEL, Piia Pauliina KOKKONEN, Jan BREZOVSKÝ, Ondřej STRNAD, Jan ŠTOURAČ, Antonín PAVELKA, Martin MANAK, Jiří DAMBORSKÝ a Barbora KOZLÍKOVÁ. CAVER Analyst 2.0: Analysis and Visualization of Channels and Tunnels in Protein Structures and Molecular Dynamics Trajectories. Bioinformatics. 2018, roč. 34, č. 20, s. 3586-3588. ISSN 1367-4803. Dostupné z: https://dx.doi.org/10.1093/bioinformatics/bty386. URL info
• KOCINCOVÁ, Lucia, Miroslava JAREŠOVÁ, Jan BYŠKA, Julius PARULEK, Helwig HAUSER a Barbora KOZLÍKOVÁ. Comparative Visualization of Protein Secondary Structures. BMC Bioinformatics. BioMed Central, 2017, roč. 18, č. 23, s. 1-12. ISSN 1471-2105. Dostupné z: https://dx.doi.org/10.1186/s12859-016-1449-z. URL info
• BYŠKA, Jan, Mathieu Le MUZIC, Eduard GRÖLLER, Ivan VIOLA a Barbora KOZLÍKOVÁ. AnimoAminoMiner: Exploration of Protein Tunnels and their Properties in Molecular Dynamics. IEEE Transactions on Visualization and Computer Graphics. IEEE, 2016, roč. 22, č. 1, s. 747-756. ISSN 1077-2626. Dostupné z: https://dx.doi.org/10.1109/TVCG.2015.2467434. info
• BYŠKA, Jan, Adam JURČÍK, Eduard M. GRÖLLER, Ivan VIOLA a Barbora KOZLÍKOVÁ. MoleCollar and Tunnel Heat Map Visualizations for Conveying Spatio-Temporo-Chemical Properties Across and Along Protein Voids. Computer Graphics Forum. Wiley-Blackwell, 2015, roč. 34, č. 3, s. 1-10. ISSN 0167-7055. Dostupné z: https://dx.doi.org/10.1111/cgf.12612. info

2024/01/21