doc. RNDr. Barbora Kozlíková, Ph.D.

Curriculum vitae

Name, first names, scientific degrees

• doc. RNDr. Kozlikova Barbora, Ph.D.

Department/Faculty/University

• 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.

Internship and stays for the purpose of study or work

• 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

• SCHÄFER, Marco, Nicolas BRICH, Jan BYŠKA, Sérgio Manuel MARQUES, David BEDNÁŘ, Philipp THIEL, Barbora KOZLÍKOVÁ a Michael KRONE. InVADo: Interactive Visual Analysis of Molecular Docking Data. IEEE Transactions on Visualization and Computer Graphics. IEEE Computer Society, 2024, roč. 30, č. 4, s. 1984-1997. ISSN 1077-2626. Dostupné z: https://dx.doi.org/10.1109/TVCG.2023.3337642. URL info
• ULBRICH, Pavol, Manuela WALDNER, Katarína FURMANOVÁ, Sérgio Manuel MARQUES, David BEDNÁŘ, Barbora KOZLÍKOVÁ a Jan BYŠKA. sMolBoxes: Dataflow Model for Molecular Dynamics Exploration. IEEE Transactions on Visualization and Computer Graphics. United States: IEEE Computer Society, 2023, roč. 29, č. 1, s. 581-590. ISSN 1077-2626. Dostupné z: https://dx.doi.org/10.1109/TVCG.2022.3209411. 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
• KOUŘIL, David, Tobias ISENBERG, Barbora KOZLÍKOVÁ, Miriah MEYER, Eduard GROELLER a Ivan VIOLA. HyperLabels: Browsing of Dense and Hierarchical Molecular 3D Models. IEEE Transactions on Visualization and Computer Graphics. 2021, roč. 27, č. 8, s. 3493-3504. ISSN 1077-2626. Dostupné z: https://dx.doi.org/10.1109/TVCG.2020.2975583. URL info
• ZÁKOPČANOVÁ, Kristína, Marko ŘEHÁČEK, Jozef BÁTRNA, Daniel PLAKINGER, Sergej STOPPEL a Barbora KOZLÍKOVÁ. Visilant: Visual Support for the Exploration and Analytical Process Tracking in Criminal Investigations. IEEE Transactions on Visualization and Computer Graphics. IEEE, 2021, roč. 27, č. 2, s. 881-890. ISSN 1077-2626. Dostupné z: https://dx.doi.org/10.1109/TVCG.2020.3030356. URL info
• SABANDO, María Virginia, Pavol ULBRICH, Matías SELZER, Jan BYŠKA, Jan MIČAN, Ignacio PONZONI, Axel J. SOTO, María Luján GANUZA a Barbora KOZLÍKOVÁ. ChemVA: Interactive Visual Analysis of Chemical Compound Similarity in Virtual Screening. IEEE Transactions on Visualization and Computer Graphics. IEEE, 2021, roč. 27, č. 2, s. 891-901. ISSN 1077-2626. Dostupné z: https://dx.doi.org/10.1109/TVCG.2020.3030438. 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
• 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

2024/03/22