Curriculum vitae

Associate Professor at the Faculty of Informatics, Masaryk University
Botanicka 68a, 602 00, Brno, Czech Republic

Professional Background

  • since 09/2017: Associate Professor, Masaryk University, Brno
  • 07/2012 - 08/2017: Assistant Professor, Masaryk University, Brno
  • 01/2012 - 06/2012: Java programmer and analyst, Home Credit International, Brno

Education and Academic Qualifications

  • 08/2017: Habilitation in Computer Science, Masaryk University
  • 12/2011: Ph.D. degree in Theoretical Informatics and Computer Graphics, Masaryk University
  • 2004 - 2006: Diploma in Theoretical Informatics and Computer Graphics (Dipl.-Inf., equivalent to M.Sc.), Masaryk University
  • 2001 - 2004: Diploma in Theoretical Informatics (Bc.), Masaryk University

Research Stays

  • 10/2014 - 03/2015: Institute of Computer Graphics and Algorithms, TU Wien, Austria
  • 10/2008 - 02/2009: Erasmus PhD stay at the University of Potsdam, Germany

Research Interests

  • Data visualization and visual analysis in diverse application domains
    • Biochemistry - protein engineering, drug design, proteomics, DNA nanotechnology.
    • Criminology - visual support of criminal investigations and data mining.
    • Geography - visual exploration of measurements from the polar station in Antarctica.
    • Medicine - MRI data processing and representation.
  • Application of VR approaches in different domains, namely education and nanotechnologies.

Research Projects

  • 2020 - 2023: Researcher at the MSMT INTER-COST project The SMC5/6 complex in nucleome organization (LTC20033)
  • 2018 - 2020: Principal investigator at the International DFG-GACR project Visual Analysis of Protein-Ligand Interactions (GC18-18647J)
  • 2017 - 2020: Researcher at the Czech Ministry of Internal Affairs project Complex analysis and Visualization of Heterogeneous Big Data (BV III/1-VS)
  • 2017 - 2019: Co-investigator GACR project Methods of Identification and Visualization of Tunnels for Flexible Ligands in Dynamic Proteins (GA17-07690S)
  • 2016 - 2018: Principal investigator at the Masaryk University Grant Agency (GAMU) project Expressive Visualization of Protein Complexes (MUNI/M/0822/2015)

Teaching

  • Visualization - introductory course to visualization principles
  • Visualization II - individual projects applying visualization techniques to selected domains
  • Computer Graphics Principles - introductory course to basic computer graphics
  • Intermediate Computer Graphics - selected advanced topics from computer graphics
  • Computational Geometry Project - seminar with programming selected algorithms from computational geometry
  • Seminar on Computer Graphics Research - presentations of selected research papers
  • Human-Computer Interaction Laboratory - individual student projects conducted in the HCI laboratory or Visitlab

Community Service

  • Member of the EuroVis Steering Committee (since 2019)
  • Member of the VCBM Steering Committee (since 2019)
  • Member of the GACR projects evaluation panel (since 04/2020)
  • Associate Editor for Computers & Graphics (since 07/2019)
  • Co-organizer of the Shonan meeting (02/2020)
  • Full Papers Co-Chair of VCBM 2020
  • General Chair of VCBM 2019
  • VisNotes Papers Co-Chair at PacificVis 2021
  • VisNotes Papers Co-Chair at PacificVis 2020
  • General Chair of EuroVis 2018
  • Short Papers Co-Chair at EuroVis 2017
  • Publicity Co-Chair at BioVis 2017
  • IPC member of IEEE SciVis, EuroVis, CGI, VCBM, STAG
  • Reviewer at EUROGRAPHICS, IEEE SciVis, EuroVis, VCBM, CGI conferences and Bioinformatics, Nucleic Acids Research, IEEE TVCG, Computers & Graphics, Journal of Visualization, The Visual Computer journals

Awards


Selected Publications

  • M. V. Sabando, P. Ulbrich, M. Selzer, J. Byska, J. Mican, I. Ponzoni, A. J. Soto, M. L. Ganuza, B. Kozlikova, "ChemVA: Interactive Visual Analysis of Chemical Compound Similarity in Virtual Screening". To appear in IEEE Transactions on Visualization and Computer Graphics, 2021. arxiv link
  • K. Zakopcanova, M. Rehacek, J. Batrna, D. Plakinger, S. Stoppel, B. Kozlikova. "Visilant: Visual Support for the Exploration and Analytical Process Tracking in Criminal Investigations". To appear in IEEE Transactions on Visualization and Computer Graphics, 2021. arxiv link
  • K. Furmanova, O. Vavra, B. Kozlikova, J. Damborsky, V. Vonasek, D. Bednar, J. Byska, "DockVis: Visual Analysis of Molecular Docking Trajectories". Computer Graphics Forum, 39.6 (2020), pp. 452-464. issn 0167-7055. link
  • D. Kouril, T. Isenberg, B. Kozlikova, M. Meyer, E. Groeller, I. Viola, "HyperLabels: Browsing of Dense and Hierarchical Molecular 3D Models". IEEE Transactions on Visualization and Computer Graphics, 2020. issn 1077-2626. link.
  • D. Duran, P. Hermosilla, T. Ropinski, B. Kozlikova, A. Vinacua, P. Vazquez, "Visualization of Large Molecular Trajectories". IEEE Transactions on Visualization and Computer Graphics, 25.1 (2019), pp. 987-996. issn: 1077-2626. link
  • D. Kouril, L. Cmolik, B. Kozlikova, H. Wu, G. Johnson, D. S. Goodsell, A. Olson, M. E. Groeller, I. Viola, "Labels on Levels: Labeling of Multi-Scale Multi-Instance and Crowded 3D Biological Environments". IEEE Transactions on Visualization and Computer Graphics, 25.1 (2019), pp. 977-986. issn: 1077-2626. link
  • A. Jurcik, D. Bednar, J. Byska, S. M. Marques, K. Furmanova, L. Daniel, P. Kokkonen, J. Brezovsky, O. Strnad, J. Stourac, A. Pavelka, M. Manak, J. Damborsky, B. Kozlikova, "CAVER Analyst 2.0: analysis and visualization of channels and tunnels in protein structures and molecular dynamics trajectories". Bioinformatics, 34.20 (2018), pp. 3586-3588. link
  • T. Klein, L. Autin, B. Kozlikova, D. S. Goodsell, A. Olson, M. E. Groeller, I. Viola, "Instant Construction and Visualization of Crowded Biological Environments". IEEE Transactions on Visualization and Computer Graphics, 24.1 (2018), pp. 862-872. issn: 1077-2626. link
  • K. Furmanova, M. Jaresova, J. Byska, A. Jurcik, J. Parulek, H. Hauser, B. Kozlikova, "Interactive exploration of ligand transportation through protein tunnels". BMC Bioinformatics, 18.2 (2017), p. 22. issn: 1471-2105. link
  • L. Kocincova, M. Jaresova, J. Byska, J. Parulek, H. Hauser, B. Kozlikova, "Comparative visualization of protein secondary structures". BMC Bioinformatics, 18.2 (2017), p. 23. issn: 1471-2105. link