Visualization of tunnels in protein molecules. - Barbora Kozlíková; Filip Andres; Jiri Sochor (Afrigraph, 2007)

CAVER Viewer - the explorer of behaviour of tunnels in proteins. - Barbora Kozlíková; Jirí Sochor (Eurographics (Posters), 2010)

CAVER 3.0: A Tool for the Analysis of Transport Pathways in Dynamic Protein Structures. - Eva Chovancová; Antonín Pavelka; Petr Benes; Ondrej Strnad; Jan Brezovsky; Barbora Kozlíková; Artur Góra; Vilém Sustr; Martin Klvana; Petr Medek; Lada Biedermannová; Jiri Sochor; et al. (PLoS Comput. Biol., 2012)

Detection of Intramolecular Tunnels Connecting Sequence of Sites in Protein Structures. - Ondrej Strnad; Barbora Kozlíková; Jiri Sochor (PACBB, 2014)

Visualizing Movements of Protein Tunnels in Molecular Dynamics Simulations. - Barbora Kozlíková; Adam Jurcík; Jan Byska; Ondrej Strnad; Jiri Sochor (VCBM, 2014)

CAVER Analyst 1.0: graphic tool for interactive visualization and analysis of tunnels and channels in protein structures. - Barbora Kozlíková; Eva Sebestova; Vilém Sustr; Jan Brezovsky; Ondrej Strnad; Lukas Daniel; David Bednar; Antonín Pavelka; Martin Manak; Martin Bezdeka; Petr Benes; Matus Kotry; et al. (Bioinform., 2014)

Path-planning algorithm for transportation of molecules through protein tunnel bottlenecks. - Jan Byska; Ivana Kolingerová; Barbora Kozlíková; Jirí Sochor (SCCG, 2015)

Visibility-based approach to surface detection of tunnels in proteins. - Adam Jurcík; Jan Byska; Jirí Sochor; Barbora Kozlíková (SCCG, 2015)

Visualization of Biomolecular Structures: State of the Art. - Barbora Kozlíková; Michael Krone; Norbert Lindow; Martin Falk; Marc Baaden; Daniel Baum; Ivan Viola; Július Parulek; Hans-Christian Hege (EuroVis (STARs), 2015)

Generation of Variable Human Faces from 3D Scan Dataset. - Igor Chalas; Zuzana Ferkova; Katarína Furmanová; Jiri Sochor; Barbora Kozlíková (VS-GAMES, 2015)

MoleCollar and Tunnel Heat Map Visualizations for Conveying Spatio-Temporo-Chemical Properties Across and Along Protein Voids. - Jan Byska; Adam Jurcík; M. Eduard Gröller; Ivan Viola; Barbora Kozlíková (Comput. Graph. Forum, 2015)

Accelerated visualization of transparent molecular surfaces in molecular dynamics. - Adam Jurcík; Július Parulek; Jirí Sochor; Barbora Kozlíková (PacificVis, 2016)

Application of sampling-based path planning for tunnel detection in dynamic protein structures. - Vojtech Vonásek; Barbora Kozlíková (MMAR, 2016)

Unfolding and Interactive Exploration of Protein Tunnels and their Dynamics. - Ivan Kolesár; Jan Byska; Július Parulek; Helwig Hauser; Barbora Kozlíková (VCBM/MedViz, 2016)

Visual Analysis of Biomolecular Cavities: State of the Art. - Michael Krone; Barbora Kozlíková; Norbert Lindow; Marc Baaden; Daniel Baum; Július Parulek; Hans-Christian Hege; Ivan Viola (Comput. Graph. Forum, 2016)

CAVER: Algorithms for Analyzing Dynamics of Tunnels in Macromolecules. - Antonín Pavelka; Eva Sebestova; Barbora Kozlíková; Jan Brezovsky; Jirí Sochor; Jirí Damborský (IEEE ACM Trans. Comput. Biol. Bioinform., 2016)

AnimoAminoMiner: Exploration of Protein Tunnels and their Properties in Molecular Dynamics. - Jan Byska; Mathieu Le Muzic; M. Eduard Gröller; Ivan Viola; Barbora Kozlíková (IEEE Trans. Vis. Comput. Graph., 2016)

Tunnel detection in protein structures using sampling-based motion planning. - Vojtech Vonásek; Barbora Kozlíková (RoMoCo, 2017)

AnthroVis: visual analysis of 3D mesh ensembles for forensic anthropology. - Katarína Furmanová; Petra Urbanová; Barbora Kozlíková (SCCG, 2017)

Protein Tunnel Reprojection for Physico-Chemical Property Analysis. - Jan Malzahn; Barbora Kozlíková; Timo Ropinski (VCBM, 2017)

Watergate: Visual Exploration of Water Trajectories in Protein Dynamics. - Viktor Vad; Jan Byska; Adam Jurcík; Ivan Viola; M. Eduard Gröller; Helwig Hauser; Sérgio M. Marques; Jirí Damborský; Barbora Kozlíková (VCBM, 2017)

Interactive exploration of ligand transportation through protein tunnels. - Katarína Furmanová; Miroslava Jaresová; Jan Byska; Adam Jurcík; Július Parulek; Helwig Hauser; Barbora Kozlíková (BMC Bioinform., 2017)

Comparative visualization of protein secondary structures. - Lucia Kocincová; Miroslava Jaresová; Jan Byska; Július Parulek; Helwig Hauser; Barbora Kozlíková (BMC Bioinform., 2017)

Visualization of Biomolecular Structures: State of the Art Revisited. - Barbora Kozlíková; Michael Krone; Martin Falk; Norbert Lindow; Marc Baaden; Daniel Baum; Ivan Viola; Július Parulek; Hans-Christian Hege (Comput. Graph. Forum, 2017)

Generating various composite human faces from real 3D facial images. - Igor Chalas; Petra Urbanova; Vojtech Jurík; Zuzana Ferkova; Marie Jandová; Jirí Sochor; Barbora Kozlíková (Vis. Comput., 2017)

CAVER Analyst 2.0: analysis and visualization of channels and tunnels in protein structures and molecular dynamics trajectories. - Adam Jurcík; David Bednar; Jan Byska; Sérgio M. Marques; Katarína Furmanová; Lukas Daniel; Piia Kokkonen; Jan Brezovsky; Ondrej Strnad; Jan Stourac; Antonín Pavelka; Martin Manak; et al. (Bioinform., 2018)

COZOID: contact zone identifier for visual analysis of protein-protein interactions. - Katarína Furmanová; Jan Byska; M. Eduard Gröller; Ivan Viola; Jan J. Palecek; Barbora Kozlíková (BMC Bioinform., 2018)

Instant Construction and Visualization of Crowded Biological Environments. - Tobias Klein; Ludovic Autin; Barbora Kozlíková; David S. Goodsell; Arthur J. Olson; M. Eduard Gröller; Ivan Viola (IEEE Trans. Vis. Comput. Graph., 2018)

Visual Analysis of Ligand Trajectories in Molecular Dynamics. - Adam Jurcík; Katarína Furmanová; Jan Byska; Vojtech Vonásek; Ondrej Vávra; Pavol Ulbrich; Helwig Hauser; Barbora Kozlíková (PacificVis, 2019)

Computing multiple guiding paths for sampling-based motion planning. - Vojtech Vonásek; Robert Penicka; Barbora Kozlíková (ICAR, 2019)

DockVis: Visual Analysis of Molecular Docking Data. - Katarína Furmanová; Barbora Kozlíková; Vojtech Vonásek; Jan Byska (VCBM, 2019)

LOOPS: Visual Analysis Tool for Non-Periodic Protein Structures. - Pavol Ulbrich; Michal Hornák; Barbora Kozlíková (EuroVis (Posters), 2019)

Analysis of Long Molecular Dynamics Simulations Using Interactive Focus+Context Visualization. - Jan Byska; Thomas Trautner; Sérgio M. Marques; Jirí Damborský; Barbora Kozlíková; Manuela Waldner (Comput. Graph. Forum, 2019)

Sampling-Based Motion Planning for Tracking Evolution of Dynamic Tunnels in Molecular Dynamics Simulations. - Vojtech Vonásek; Adam Jurcík; Katarína Furmanová; Barbora Kozlíková (J. Intell. Robotic Syst., 2019)

Visualization of Large Molecular Trajectories. - David Duran; Pedro Hermosilla; Timo Ropinski; Barbora Kozlíková; Àlvar Vinacua; Pere-Pau Vázquez (IEEE Trans. Vis. Comput. Graph., 2019)

Labels on Levels: Labeling of Multi-Scale Multi-Instance and Crowded 3D Biological Environments. - David Kouril; Ladislav Cmolík; Barbora Kozlíková; Hsiang-Yun Wu; Graham Johnson; David S. Goodsell; Arthur J. Olson; M. Eduard Gröller; Ivan Viola (IEEE Trans. Vis. Comput. Graph., 2019)

Case Studies for Working with Domain Experts. - Johanna Beyer; Charles D. Hansen; Mario Hlawitschka; Ingrid Hotz; Barbora Kozlíková; Gerik Scheuermann; Markus Stommel; Marc Streit; Johannes Waschke; Thomas Wischgoll; Yong Wan (Foundations of Data Visualization, 2020)

PINGU Principles of Interactive Navigation for Geospatial Understanding. - Zoltán Orémus; Kahin Akram Hassan; Jirí Chmelík; Michaela Knazková; Jan Byska; Renata Georgia Raidou; Barbora Kozlíková (PacificVis, 2020)

Foreword: Special Section on the Eurographics Workshop on Visual Computing for Biology and Medicine (EG VCBM) 2019. - Barbora Kozlíková; Bernhard Preim; Katja Bühler; Renata G. Raidou (Comput. Graph., 2020)

The moving target of visualization software for an increasingly complex world. - Guido Reina; Hank Childs; Kresimir Matkovic; Katja Bühler; Manuela Waldner; David Pugmire; Barbora Kozlíková; Timo Ropinski; Patric Ljung; Takayuki Itoh; M. Eduard Gröller; Michael Krone (Comput. Graph., 2020)

DockVis: Visual Analysis of Molecular Docking Trajectories. - Katarína Furmanová; Ondrej Vávra; Barbora Kozlíková; Jirí Damborský; Vojtech Vonásek; David Bednar; Jan Byska (Comput. Graph. Forum, 2020)

ProteiNN: Intrinsic-Extrinsic Convolution and Pooling for Scalable Deep Protein Analysis. - Pedro Hermosilla; Marco Schäfer; Matej Lang; Gloria Fackelmann; Pere-Pau Vázquez; Barbora Kozlíková; Michael Krone; Tobias Ritschel 001; Timo Ropinski (CoRR, 2020)

Searching Multiple Approximate Solutions in Configuration Space to Guide Sampling-Based Motion Planning. - Vojtech Vonásek; Robert Penicka; Barbora Kozlíková (J. Intell. Robotic Syst., 2020)

Formalizing Biological and Medical Visualization (NII Shonan Meeting 167). - Renata Georgia Raidou; Barbora Kozlíková; Johanna Beyer; Timo Ropinski; Issei Fujishiro (NII Shonan Meet. Rep., 2020)

Multiscale Visual Drilldown for the Analysis of Large Ensembles of Multi-Body Protein Complexes. - Katarína Furmanová; Adam Jurcík; Barbora Kozlíková; Helwig Hauser; Jan Byska (IEEE Trans. Vis. Comput. Graph., 2020)

Visual Analysis of Protein-Protein Interaction Docking Models Using COZOID Tool. - Jan Byska; Adam Jurcík; Katarína Furmanová; Barbora Kozlíková; Jan J. Palecek (Protein-Protein Interaction Networks, 2020)

Intrinsic-Extrinsic Convolution and Pooling for Learning on 3D Protein Structures. - Pedro Hermosilla; Marco Schäfer; Matej Lang; Gloria Fackelmann; Pere-Pau Vázquez; Barbora Kozlíková; Michael Krone; Tobias Ritschel 001; Timo Ropinski (ICLR, 2021)

VRdeo: Creating engaging educational material for asynchronous student-teacher exchange using virtual reality. - Vojtech Bruza; Jan Byska; Jan Mican; Barbora Kozlíková (Comput. Graph., 2021)

Foreword: Special section on the Eurographics Workshop on Visual Computing for Biology and Medicine (EG VCBM) 2020. - Barbora Kozlíková; Michael Krone; Kay Nieselt; Renata G. Raidou; Noeska N. Smit (Comput. Graph., 2021)

HyperLabels: Browsing of Dense and Hierarchical Molecular 3D Models. - David Kouril; Tobias Isenberg 001; Barbora Kozlíková; Miriah Meyer; M. Eduard Gröller; Ivan Viola (IEEE Trans. Vis. Comput. Graph., 2021)

ChemVA: Interactive Visual Analysis of Chemical Compound Similarity in Virtual Screening. - María Virginia Sabando; Pavol Ulbrich; Matias Nicolás Selzer; Jan Byska; Jan Mican; Ignacio Ponzoni; Axel J. Soto; Maria Luján Ganuza; Barbora Kozlíková (IEEE Trans. Vis. Comput. Graph., 2021)

Visilant: Visual Support for the Exploration and Analytical Process Tracking in Criminal Investigations. - Kristína Zákopcanová; Marko Rehácek; Jozef Bátrna; Daniel Plakinger; Sergej Stoppel; Barbora Kozlíková (IEEE Trans. Vis. Comput. Graph., 2021)

ChromoSkein: Untangling Three-Dimensional Chromatin Fiber With a Web-Based Visualization Framework. - Matús Talcík; Filip Opálený; Tereza Clarence; Katarína Furmanová; Jan Byska; Barbora Kozlíková; David Kouril (CoRR, 2022)

LoopGrafter: a web tool for transplanting dynamical loops for protein engineering. - Joan Planas-Iglesias; Filip Opálený; Pavol Ulbrich; Jan Stourac; Zainab K. Sanusi; Gaspar R. P. Pinto; Andrea Schenkmayerova; Jan Byska; Jirí Damborský; Barbora Kozlíková; David Bednar (Nucleic Acids Res., 2022)

Vivern-A Virtual Environment for Multiscale Visualization and Modeling of DNA Nanostructures. - David Kuták; Matias Nicolás Selzer; Jan Byska; Maria Luján Ganuza; Ivan Barisic; Barbora Kozlíková; Haichao Miao (IEEE Trans. Vis. Comput. Graph., 2022)

Visualization of Biomedical Data - Shaping the Future and Building Bridges (Dagstuhl Seminar 23451). - Katja Bühler; Barbora Kozlíková; Michael Krone; Cagatay Turkay; Ramasamy Pathmanaban (Dagstuhl Reports, 2023)

sMolBoxes: Dataflow Model for Molecular Dynamics Exploration. - Pavol Ulbrich; Manuela Waldner; Katarína Furmanová; Sérgio M. Marques; David Bednár; Barbora Kozlíková; Jan Byska (IEEE Trans. Vis. Comput. Graph., 2023)

xOpat: eXplainable Open Pathology Analysis Tool. - Jirí Horák; Katarína Furmanová; Barbora Kozlíková; Tomás Brázdil; Petr Holub; M. Kacenga; Matej Gallo; R. Nenutil; Jan Byska; Vít Rusnák (Comput. Graph. Forum, 2023)

State of the Art of Molecular Visualization in Immersive Virtual Environments. - David Kuták; Pere-Pau Vázquez; Tobias Isenberg 001; Michael Krone; Marc Baaden; Jan Byska; Barbora Kozlíková; Haichao Miao (Comput. Graph. Forum, 2023)

A multimodal smartwatch-based interaction concept for immersive environments. - Matej Lang; Clemens Strobel; Felix Weckesser; Danielle Langlois; Enkelejda Kasneci; Barbora Kozlíková; Michael Krone (Comput. Graph., 2023)

Interactive Diagrams for Software Documentation. - Adam Stspánek; David Kuták; Barbora Kozlíková; Jan Byska (VISSOFT, 2024)

Design and evaluation of alphabetic and numeric input methods for virtual reality. - David Kuták; Danielle Langlois; Roman Rozic; Jan Byska; Haichao Miao; Simone Kriglstein; Barbora Kozlíková (Comput. Graph., 2024)

Virtual reality inspection of chromatin 3D and 2D data. - Elena Molina; David Kouril; Tobias Isenberg 001; Barbora Kozlíková; Pere-Pau Vázquez (Comput. Graph., 2024)

Antarstick: Extracting Snow Height From Time-Lapse Photography. - Matej Lang; Radoslav Mráz; Marek Trtík; Sergej Stoppel; Jan Byska; Barbora Kozlíková (Comput. Graph. Forum, 2024)

Interactive Diagrams for Software Documentation. - Adam J. Stepánek; David Kuták; Barbora Kozlíková; Jan Byska (CoRR, 2024)

InVADo: Interactive Visual Analysis of Molecular Docking Data. - Marco Schäfer; Nicolas Brich; Jan Byska; Sérgio M. Marques; David Bednár; Philipp Thiel; Barbora Kozlíková; Michael Krone (IEEE Trans. Vis. Comput. Graph., 2024)

ProjectAnatomy : a handy tool for learning forearm anatomy with augmented physicalisations. - Hana Pokojná; Barbora Kozlíková; Katarína Furmanová; Simone Kriglstein (Behav. Inf. Technol., 2024)

Tasks and Visual Abstractions for 3D Chromatin Representation. - Adam Rychlý; Jan Byska; Barbora Kozlíková; Katarína Furmanová (Comput. Graph. Forum, 2025)

Who Let the Guards Out: Visual Support for Patrolling Games. - Matej Lang; Adam J. Stepánek; Róbert Zvara; Vojtech Rehák; Barbora Kozlíková (IEEE Trans. Vis. Comput. Graph., 2025)

Visual Support for the Loop Grafting Workflow on Proteins. - Filip Opálený; Pavol Ulbrich; Joan Planas-Iglesias; Jan Byska; Jan Stourac; David Bednár; Katarína Furmanová; Barbora Kozlíková (IEEE Trans. Vis. Comput. Graph., 2025)

The Language of Infographics: Toward Understanding Conceptual Metaphor Use in Scientific Storytelling. - Hana Pokojná; Tobias Isenberg 001; Stefan Bruckner; Barbora Kozlíková; Laura A. Garrison (IEEE Trans. Vis. Comput. Graph., 2025)

Immersive and Interactive Learning With eDIVE: A Solution for Creating Collaborative VR Education Experiences. - Vojtech Bruza; Alzbeta Sasinková; Cenek Sasinka; Zdenek Stachon; Barbora Kozlíková; Jirí Chmelík (Comput. Graph. Forum, 2025)

VizCV: AI-assisted visualization of researchers' publications tracks. - Vladimír Lazárik; Marco Agus; Barbora Kozlíková; Pere-Pau Vázquez (CoRR, 2025)

Helveg: Diagrams for Software Documentation. - Adam J. Stepánek; David Kuták; Barbora Kozlíková; Jan Byska (CoRR, 2025)