Curriculum vitae

Name, first names, scientific degrees
  • Kozlikova Barbora, Ph.D.
  • Department of Visual Computing, Faculty of Informatics, Masaryk University
Function, current position
  • Associate Professor
Education and academic qualifications
  • 12/2011 Doctorate in Computer Science, Masaryk University. Thesis topic: Visualization techniques for static and dynamic protein molecules and their channels.
  • 2004-2006 Diploma in Computer Science (M.Sc.), Masaryk University. Thesis topic: Interactive visualization of molecular models.
  • 2001-2004 Diploma in Computer Science (Bc.), Masaryk University. Thesis topic: Animation techniques.
Professional experience
  • since 09/2017, Associate professor at the Masaryk University.
  • 07/2012 - 08/2017, Assistant professor at the Masaryk University: Research, education, supervising bachelor and master students.
  • 01/2012 - 06/2012, Java programmer and analyst in Home Credit International: Design and development of enterprise applications.
Teaching activities
  • Visualization, Computer Graphics API, Computational Geometry Project, Laboratory of Human-Computer Interaction, Generative design programming.
Research activities
  • Research interest in molecular analysis and visualization, security visualization, visual analysis, computational geometry.
Akademické stáže, studijní nebo pracovní pobyty
  • 2008-2009: five months research stay at the Hasso-Plattner Institut at the University of Potsdam
  • 2014-2015: six months research stay at the Institute of Computer Graphics and Algorithms, TU Wien
  • 2015, 201: four short-term research stays in the Visualization Group at the University of Bergen, Norway
  • 2017: one month research stay at the Institute of Computer Graphics and Algorithms, TU Wien
  • 2008/10/01 – 2009/03/31: University of Potsdam, Potsdam, DEU
Other academic activities, research projects, grants
  • Since 10/2016: member of the Academic Senate FI MU
    Ongoing projects:
  • Czech Science Foundation project Methods of Identication and Visualization of Tunnels for Flexible Ligands in Dynamic Proteins (GA17-07690S)
  • Ministry of the Interior of the Czech Republic project Complex analysis and Visualization of Heterogeneous Big Data (BV III/1-VS)
  • International DFG-GACR project Visual Analysis of Protein-Ligand Interactions (GC18-18647J)
Non-university activities
  • Short Papers Co-Chair at EuroVis 2017
  • Publicity Co-Chair at BioVis 2017
  • General Chair of EuroVis 2018
  • General Chair of VCBM 2019
  • Full Papers Co-Chair at VCBM 2019
  • VisNotes co-chair at PacificVis 2020
  • IPC member of IEEE SciVis, EuroVis, CGI, VCBM
Most significant professional accomplishments
  • 2016: Best paper award at BioVis 2016 conference
  • 2017: Honorable mention best paper award at IEEE VIS 2017 conference
  • 2018: Honorable mention best paper award at IEEE VIS 2018 conference
Major publications
  • 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. 0-0, 12 s. ISSN 1471-2105. doi:10.1186/s12859-016-1449-z. URL info
  • FURMANOVÁ, Katarína, Miroslava JAREŠOVÁ, Jan BYŠKA, Adam JURČÍK, Julius PARULEK, Helwig HAUSER a Barbora KOZLÍKOVÁ. Interactive Exploration of Ligand Transportation through Protein Tunnels. BMC Bioinformatics. BioMed Central, 2017, roč. 18, č. 22, s. 1-16. ISSN 1471-2105. doi:10.1186/s12859-016-1448-0. URL info
  • KOZLÍKOVÁ, Barbora, Michael KRONE, Martin FALK, Norbert LINDOW, Marc BAADEN, Daniel BAUM, Ivan VIOLA, Julius PARULEK a Hans-Christian HEGE. Visualization of Biomolecular Structures: State of the Art Revisited. Computer Graphics Forum. Wiley-Blackwell, 2017, roč. 36, č. 8, s. 178-204. ISSN 0167-7055. doi:10.1111/cgf.13072. 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. doi:10.1109/TVCG.2015.2467434. info
  • PAVELKA, Antonín, Eva ŠEBESTOVÁ, Barbora KOZLÍKOVÁ, Jan BREZOVSKÝ, Jiří SOCHOR a Jiří DAMBORSKÝ. CAVER: Algorithms for Analyzing Dynamics of Tunnels in Macromolecules. IEEE/ACM Transactions on Computational Biology and Bioinformatics. IEEE Computer Society, 2016, roč. 13, č. 3, s. 505 - 517. ISSN 1545-5963. doi:10.1109/TCBB.2015.2459680. URL info
  • KRONE, Michael, Barbora KOZLÍKOVÁ, Norbert LINDOW, Marc BAADEN, Daniel BAUM, Julius PARULEK, Hans-Christian HEGE a Ivan VIOLA. Visual Analysis of Biomolecular Cavities: State of the Art. Computer Graphics Forum. The Eurographics Association and John Wiley & Sons Ltd., 2016, roč. 35, č. 3, s. 527-551. ISSN 0167-7055. doi:10.1111/cgf.12928. 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. doi:10.1111/cgf.12612. info
  • KOZLÍKOVÁ, Barbora, Eva ŠEBESTOVÁ, Vilém ŠUSTR, Jan BREZOVSKÝ, Ondřej STRNAD, Lukáš DANIEL, David BEDNÁŘ, Antonín PAVELKA, Martin MANAK, Martin BEZDĚKA, Petr BENEŠ, Matúš KOTRY, Artur Wiktor GORA, Jiří DAMBORSKÝ a Jiří SOCHOR. CAVER Analyst 1.0: Graphic tool for interactive visualization and analysis of tunnels and channels in protein structures. Bioinformatics. Oxford University Press, 2014, roč. 30, č. 18, s. 2684-2685. ISSN 1367-4803. doi:10.1093/bioinformatics/btu364. info
  • CHOVANCOVÁ, Eva, Antonín PAVELKA, Petr BENEŠ, Ondřej STRNAD, Jan BREZOVSKÝ, Barbora KOZLÍKOVÁ, Artur Wiktor GORA, Vilém ŠUSTR, Martin KLVAŇA, Petr MEDEK, Lada BIEDERMANNOVÁ, Jiří SOCHOR a Jiří DAMBORSKÝ. CAVER 3.0: A Tool for the Analysis of Transport Pathways in Dynamic Protein Structures. PLoS Computational Biology. 2012, roč. 8, č. 10, s. "nestránkováno", 12 s. ISSN 1553-7358. doi:10.1371/journal.pcbi.1002708. URL info


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