Information for

Logo VISUS

Dr. rer. nat. Michael Krone

Dr. rer. nat.  Michael Krone

Office: VISUS-Gebäude 00.107

Universität Stuttgart
Allmandring 19
70569 Stuttgart

Phone Number: +49 (711) 685-88623

Telefax Number: +49 (711) 685-88620

E-Mail Address: michael.krone@vis.uni-stuttgart.de

Research

SFB 716 "Dynamic simulation of systems with large particle numbers "

Subproject D.4 "Interactive Visualization of Protein-Solvent Systems' Dynamic and Complex Properties"

The aim of this subproject is to develop new approaches for the interactive visualization of protein-solvent-systems. Particular attention is paid to the specific properties of the solvent, as these can not be analyzed adequately with available visualization tools. Another important aspect is the interactive and exploratory visual analysis of the simulation data using efficient algorithms and parallelization for the analysis and visualization. In particular the exploitation of modern graphics cards is crucial for the accelleration of the computations.

Further informationen and downloads are available on the MegaMol-Developer-Site.

Teaching

Bachelor- and Master Theses, Internships:

  • Topics available on request!
    (see my german page for more detail about completed, ongoing and open thesis projects)

Courses and Lectures:

  • (see my german page for more detail about the courses)

Awards

  • IEEE VisWeek 2009: Honorable Mention for "Interactive Visualization of Molecular Surface Dynamics"
  • IEEE VisWeek 2012: Winner of the IEEE SciVis Contest 2012 (K. Scharnowski, M. Krone, P. Beck, and F. Sadlo: "Visualization of Polarization Domains in Barium Titanate")
  • Eurographics Workshop on Visual Computing for Biology and Medicine (VCBM) 2012: Best Paper Award for "Atomistic Visualization of Mesoscopic Whole-Cell Simulations"
  • IEEE VIS 2016: Winner of the IEEE SciVis Contest 2016 (S. Grottel, P. Gralka, J. Staib, K. Schatz, G. K. Karch, M. Hirschler, M. Krone, G. Reina, S. Gumhold, T. Ertl: "Visual and Structural Analysis of Point-based Simulation Ensembles").
  • IEEE VIS 2016 Workshop on Visualization in Practice: Best Paper Award for "MegaMol for Fun and Profit" (together with S. Grottel, G. Reina, C. Müller, and T. Ertl).
  • IEEE VGTC VPG Doctoral Dissertation Award 2016 Honorable Mention
  • Doctoral Dissertation Award of the SFB 716 2016 (award for the best dissertation in the years 2014/15)
  • ACM SIGGRAPH Symposium on Interactive 3D Graphics and Games (i3D) 2017: Best Paper Award for "Feature-based Volumetric Terrain Generation" (3rd place)

Invited Talks and Tutorials

  • 23.03.2011: Invited talk at the annual workshop of the special interest group (Fachgruppe) "Visual Computing in Medicine"
  • IEEE VisWeek 2012: Participation in the Doctoral Colloquium
  • 23.09.2015: Invited talk at the mini-symposium "Molecular Visualization" (University of Ulm)
  • IEEE VIS 2015: Tutorial "Interactive GPU-based Visualization of Large Dynamic Particle Data" (together with Martin Falk, Sebastian Grottel, and Guido Reina)
  • 14.01.2016: Invited talk at the Masaryk-University Brno, Czech Republic (Department of Computer Graphics and Design), titel: "Software and Hardware Infrastructures for Molecular Visualization"
  • 15.01.2016: Invited talk at the Technical University of Vienna (Institut for Computer Graphics and Algorithms), title: "Interactive Visual Analysis of Biomolecular Simulations"
  • Invitation to NII Shonan Meeting 086 "Web-based Molecular Graphics" (03.-08.09.2016)
  • Invitation to the "Structural Bioinformatics Training Workshop & Hackathon 2017 - Application of Big Data Technology and 3D Visualization", UC San Diego (26.-28.06.2017)
  • IEEE VIS 2017: Tutorial "Interactive Visualization of Large Dynamic Particle Data" (together with Martin Falk, Aaron Knoll, and Guido Reina)

Organizational Committees, Program Committees, Reviewing

  • International Program Committees
    • International Symposium on Big Data Visual Analytics (2016, 2017)
    • IEEE Symposium on Biological Data Visualization (2016, 2017)
    • EG/VGTC Conference on Visualization (Short Paper: 2016, 2017)
    • IEEE Pacific Visualization Symposium (Visualization Notes: 2017)
    • Spring Conference on Computer Graphics 2017
    • SIGRAD (2017)
  • Co-Organisator of the Special Session "From Virtual Reality to Immersive Analytics in Bioinformatics" at the Stereoscopic Displays and Applications XXIX in Burlingame, California (February 2018)
  • Co-organizor of the CECAM workshops "Particle-based Simulations for Hard and Soft Matter" (October 2016)
  • since 2009: Regular reviewing for various scientific conferences and journals in the fields of computer graphics, visualization, and bioinformatics (e.g., IEEE Trans. Vis. Comp. Graphics, Comput. Graph. Forum, ACM SIGGRAPH Asia, J. Mol. Graph. Model., J. Comput. Chem., Trans. Comput. Biol. Bioinf., Comp. Biol. Chem.)

Other

Images

Protein visualizations:

Publikationen

2017

Article

Gralka, Patrick; Grottel, Sebastian; Staib, Joachim; Schatz, Karsten; Karch, Grzegorz K.; Hirschler, M.; Krone, Michael; Reina, Guido; Gumhold, S.; Ertl, Thomas: 2016 IEEE Scientific Visualization Contest Winner: Visual and Structural Analysis of Point-based Simulation Ensembles.
IEEE Computer Graphics & Applications (2017).
[to appear]
Interactive GPU-based Generation of Solvent Excluded Surfaces
Hermosilla, Pedro; Krone, Michael; Guallar, Victor; Vázquez, Pere-Pau; Vinacua, Àlvar; Ropinski, Timo: Interactive GPU-based Generation of Solvent Excluded Surfaces.
The Visual Computer (Proceedings of CGI'2017) 33 (6), pp. 869-881 (2017).
Molecular Surface Maps
Krone, Michael; Frieß, Florian; Scharnowski, Katrin; Reina, Guido; Fademrecht, Silvia; Kulschewski, Tobias; Pleiss, Jürgen; Ertl, Thomas: Molecular Surface Maps.
IEEE Transactions on Visualization and Computer Graphics (Proceedings of the Scientific Visualization 2016) 23 (1), pp. 701-710 (2017).

Conference Paper

Molecular Visualization of Computational Biology Data: A Survey of Surveys
Alharbi, Naif; Alharbi, Mohammad; Martinez, Xavier; Krone, Michael; Rose, Alexander; Baaden, Marc; Laramee, Robert S.; Chavent, Matthieu: Molecular Visualization of Computational Biology Data: A Survey of Surveys.
In: EuroVis 2017 Short Papers (2017).
Feature-based Volumetric Terrain Generation
Becher, Michael; Krone, Michael; Reina, Guido; Ertl, Thomas: Feature-based Volumetric Terrain Generation.
In: ACM SIGGRAPH Symposium on Interactive 3D Graphics and Games (i3D), pp. 10:1-10:9 (2017).
Implicit Sphere Shadow Maps
Krone, Michael; Reina, Guido; Zahn, Sebastian; Tremel, Tina; Bahnmüller, Carsten; Ertl, Thomas: Implicit Sphere Shadow Maps.
In: IEEE PacificVis - Visualization Notes 4 (2017).
From Visualization Research to Public Presentation - Design and Realization of a Scientific Exhibition
Krone, Michael; Schatz, Karsten; Hieronymus, Nora; Müller, Christoph; Becher, Michael; Barthelmes, Tina; Cooper, April; Currle, Steffen; Gralka, Patrick; Hlawatsch, Marcel; Pietrzyk, Lisa; Rau, Tobias; Reina, Guido; Trefft, Rene; Ertl, Thomas: From Visualization Research to Public Presentation - Design and Realization of a Scientific Exhibition.
In: Proceedings of SIGRAD 2017 (2017).
[to appear]
Challenges and Opportunities using Software-defined Visualization in MegaMol
Rau, Tobias; Krone, Michael; Reina, Guido; Ertl, Thomas: Challenges and Opportunities using Software-defined Visualization in MegaMol.
In: 7th Workshop on Visual Analytics, Information Visualization and Scientific Visualization (2017).
[to appear]
Visual Debugging of SPH Simulations
Reinhardt, Stefan; Huber, Markus; Dumitrescu, Otilia; Krone, Michael; Eberhardt, Bernhard; Weiskopf, Daniel: Visual Debugging of SPH Simulations.
In: International Conference on Information Visualisation (iV2017) 21 (2017).

Conference Paper (Abstract Reviewed)

Visualization of Halo Topologies in Dark Matter Simulations
Schatz, Karsten; Krone, Michael; Müller, Christoph; Schneider, Jens; Reina, Guido; Ertl, Thomas: Visualization of Halo Topologies in Dark Matter Simulations.
In: Proceedings of TopoInVis (2017).

2016

Article

Visualization of Molecular Structure: State of the Art Revisited
Kozlíková, Barbora; Krone, Michael; Falk, Martin; Lindow, Norbert; Baaden, Marc; Baum, Daniel; Viola, Ivan; Parulek, Julius; Hege, Hans-Christian: Visualization of Molecular Structure: State of the Art Revisited.
Computer Graphics Forum (2016).
Visual Analysis of Biomolecular Cavities: State of the Art
Krone, Michael; Kozlíková, Barbora; Lindow, Norbert; Baaden, Marc; Baum, Daniel; Parulek, Julius; Hege, Hans-Christian; Viola, Ivan: Visual Analysis of Biomolecular Cavities: State of the Art.
Computer Graphics Forum 35 (3), pp. 527-551 (2016).
An Evaluation of the Utility of Large High-Resolution Displays for Comparative Scientific Visualisation
Müller, Christoph; Krone, Michael; Scharnowski, Katrin; Reina, Guido; Ertl, Thomas: An Evaluation of the Utility of Large High-Resolution Displays for Comparative Scientific Visualisation.
International Journal of Software and Informatics 9 (3) (2016).
GPU-based Remote Visualization of Dynamic Molecular Data on the Web
Mwalongo, Finian; Krone, Michael; Becher, Michael; Reina, Guido; Ertl, Thomas: GPU-based Remote Visualization of Dynamic Molecular Data on the Web.
Graphical Models 88, pp. 57-65 (2016).
State-of-the-Art Report in Web-based Visualization
Mwalongo, Finian; Krone, Michael; Reina, Guido; Ertl, Thomas: State-of-the-Art Report in Web-based Visualization.
Computer Graphics Forum 35 (3), pp. 553-575 (2016).

Book

Interactive GPU-based Visualization of Large Dynamic Particle Data
Falk, Martin; Grottel, Sebastian; Krone, Michael; Reina, Guido: Interactive GPU-based Visualization of Large Dynamic Particle Data.
San Rafael, CA: Morgan & Claypool Publishers (2016)

Conference Paper

MegaMol - for Fun and Profit
Grottel, Sebastian; Reina, Guido; Krone, Michael; Müller, Christoph; Ertl, Thomas: MegaMol - for Fun and Profit.
In: Workshop on Visualization in Practice (2016).
Interactive Visual Exploration of a Trillion Particles
Schatz, Karsten; Müller, Christoph; Krone, Michael; Schneider, Jens; Reina, Guido; Ertl, Thomas: Interactive Visual Exploration of a Trillion Particles.
In: Symposium on Large Data Analysis and Visualization (LDAV), pp. 56-64 (2016).

2015

Article

MegaMol – A Prototyping Framework for Particle-based Visualization
Grottel, Sebastian; Krone, Michael; Müller, Christoph; Reina, Guido; Ertl, Thomas: MegaMol – A Prototyping Framework for Particle-based Visualization.
IEEE Transactions on Visualization and Computer Graphics 21 (2), pp. 201-214 (2015).

Conference Paper

Visualization of Molecular Structure: State of the Art
Kozlíková, Barbora; Krone, Michael; Lindow, Norbert; Falk, Martin; Baaden, Marc; Baum, Daniel; Viola, Ivan; Parulek, Julius; Hege, Hans-Christian: Visualization of Molecular Structure: State of the Art.
In: Eurographics Conference on Visualization (EuroVis) - STARs, pp. 61-81 (2015).
Remote Rendering and User Interaction on Mobile Devices for Scientific Visualization
Krone, Michael; Müller, Christoph; Ertl, Thomas; Kauker, Daniel; Silva, Augusto C.; Salsa, Diana; Gräber, Manuel; Kallert, Manuela: Remote Rendering and User Interaction on Mobile Devices for Scientific Visualization.
In: International Symposium on Visual Information Communication and Interaction (VINCI) 8 (2015).
On the Utility of Large High-Resolution Displays for Comparative Scientific Visualisation
Müller, Christoph; Krone, Michael; Scharnowski, Katrin; Reina, Guido; Ertl, Thomas: On the Utility of Large High-Resolution Displays for Comparative Scientific Visualisation.
In: International Symposium on Visual Information Communication and Interaction (VINCI) 8 (2015).
Remote Visualization of Dynamic Molecular Data using WebGL
Mwalongo, Finian; Krone, Michael; Becher, Michael; Reina, Guido; Ertl, Thomas: Remote Visualization of Dynamic Molecular Data using WebGL.
In: International Conference on 3D Web Technology (Web3D) 20, pp. 115-122 (2015).
Enhancing Visualization of Molecular Simulations using Sonification
Rau, Benjamin; Frieß, Florian; Krone, Michael; Müller, Christoph; Ertl, Thomas: Enhancing Visualization of Molecular Simulations using Sonification.
In: International Workshop on Virtual and Augmented Reality for Molecular Science (VARMS@IEEEVR) 1, pp. 25-30 (2015).

Conference Paper (Abstract Reviewed)

On the Reproducibility of Line Integral Convolution for Real-Time Illustration of Molecular Surface Shape and Salient Regions
Lawonn, Kai; Krone, Michael; Ertl, Thomas; Preim, Bernhard: On the Reproducibility of Line Integral Convolution for Real-Time Illustration of Molecular Surface Shape and Salient Regions.
In: EuroRV3: EuroVis Workshop on Reproducibility, Verification, and Validation in Visualization 3 (2015).
On the Reproducibility of our Biomolecular Visualization
Scharnowski, Katrin; Krone, Michael; Reina, Guido; Ertl, Thomas: On the Reproducibility of our Biomolecular Visualization.
In: EuroRV3: EuroVis Workshop on Reproducibility, Verification, and Validation in Visualization 3 (2015).

PhD Thesis

Interactive Visual Analysis of Biomolecular Simulations
Krone, Michael: Interactive Visual Analysis of Biomolecular Simulations. Diss., Universität Stuttgart (2015).

2014

Article

Visual Analysis for Space-Time Aggregation of Biomolecular Simulations
Ertl, Thomas; Krone, Michael; Kesselheim, Stefan; Scharnowski, Katrin; Reina, Guido; Holm, Christian: Visual Analysis for Space-Time Aggregation of Biomolecular Simulations.
Faraday Discussions 169 (2014).
Visualising Intrinsic Disorder and Conformational Variation in Protein Ensembles
Heinrich, Julian; Krone, Michael; Weiskopf, Daniel; O'Donoghue, Seán: Visualising Intrinsic Disorder and Conformational Variation in Protein Ensembles.
Faraday Discussions 169 (2014).
Line Integral Convolution for Real-Time Illustration of Molecular Surface Shape and Salient Regions
Lawonn, Kai; Krone, Michael; Ertl, Thomas; Preim, Bernhard: Line Integral Convolution for Real-Time Illustration of Molecular Surface Shape and Salient Regions.
Computer Graphics Forum 33 (3), pp. 181-190 (2014).
Comparative Visualization of Molecular Surfaces Using Deformable Models
Scharnowski, Katrin; Krone, Michael; Reina, Guido; Kulschewski, Tobias; Pleiss, Jürgen; Ertl, Thomas: Comparative Visualization of Molecular Surfaces Using Deformable Models.
Computer Graphics Forum 33 (3), pp. 191-200 (2014).

Conference Paper

Evaluation of Visualizations for Interface Analysis of SPH
Krone, Michael; Huber, Markus; Scharnowski, Katrin; Hirschler, Manuel; Kauker, Daniel; Reina, Guido; Nieken, Ulrich; Weiskopf, Daniel; Ertl, Thomas: Evaluation of Visualizations for Interface Analysis of SPH.
In: EuroVis 2014 Short Papers 3, pp. 109-113 (2014).
Visual Analysis of Dynamic Protein Cavities and Binding Sites
Krone, Michael; Kauker, Daniel; Reina, Guido; Ertl, Thomas: Visual Analysis of Dynamic Protein Cavities and Binding Sites.
In: IEEE PacificVis - Visualization Notes 1, pp. 301-305 (2014).
Visualization of Molecular Structures using State-of-the-Art Techniques in WebGL
Mwalongo, Finian; Krone, Michael; Karch, Grzegorz K.; Becher, Michael; Reina, Guido; Ertl, Thomas: Visualization of Molecular Structures using State-of-the-Art Techniques in WebGL.
In: International Conference on 3D Web Technology (Web3D'14) 19, pp. 133-141 (2014).

2013

Article

Atomistic Visualization of Mesoscopic Whole-Cell Simulations using Ray-Casted Instancing
Falk, Martin; Krone, Michael; Ertl, Thomas: Atomistic Visualization of Mesoscopic Whole-Cell Simulations using Ray-Casted Instancing.
Computer Graphics Forum 32 (8), pp. 195-206 (2013).
Evaluation of per-pixel linked lists for distributed rendering and comparative analysis
Kauker, Daniel; Krone, Michael; Panagiotidis, Alexandros; Reina, Guido; Ertl, Thomas: Evaluation of per-pixel linked lists for distributed rendering and comparative analysis.
Computing and Visualization in Science 15 (3), pp. 111-121 (2013).
Interactive Extraction and Tracking of Biomolecular Surfaces Features
Krone, Michael; Reina, Guido; Schulz, Christoph; Kulschewski, Tobias; Pleiss, Jürgen; Ertl, Thomas: Interactive Extraction and Tracking of Biomolecular Surfaces Features.
Computer Graphics Forum 32 (3), p. 331–340 (2013).
2012 IEEE Visualization Contest Winner: Visualization of Polarization Domains in Barium Titanate
Scharnowski, Katrin; Krone, Michael; Sadlo, Filip; Beck, Philipp; Roth, Johannes; Trebin, Hans-Rainer; Ertl, Thomas: 2012 IEEE Visualization Contest Winner: Visualization of Polarization Domains in Barium Titanate.
IEEE Computer Graphics & Applications 33 (5), pp. 9-17 (2013).

Conference Paper

Rendering Molecular Surfaces using Order-Independent Transparency
Kauker, Daniel; Krone, Michael; Panagiotidis, Alexandros; Reina, Guido; Ertl, Thomas: Rendering Molecular Surfaces using Order-Independent Transparency.
In: Eurographics Symposium on Parallel Graphics and Visualization (EGPGV) 13, pp. 33-40 (2013).

2012

Conference Paper

Atomistic Visualization of Mesoscopic Whole-Cell Simulations
Falk, Martin; Krone, Michael; Ertl, Thomas: Atomistic Visualization of Mesoscopic Whole-Cell Simulations.
In: EG Workshop on Visual Computing for Biology and Medicine (VCBM), pp. 123-130 (2012).
Object-Space Ambient Occlusion for Molecular Dynamics
Grottel, Sebastian; Krone, Michael; Scharnowski, Katrin; Ertl, Thomas: Object-Space Ambient Occlusion for Molecular Dynamics.
In: Proceedings of IEEE Pacific Visualization Symposium 2012, pp. 209-216 (2012).
Fast Visualization of Gaussian Density Surfaces for Molecular Dynamics and Particle System Trajectories
Krone, Michael; Stone, John E.; Ertl, Thomas; Schulten, Klaus: Fast Visualization of Gaussian Density Surfaces for Molecular Dynamics and Particle System Trajectories.
In: EuroVis 2012 Short Papers 1, pp. 67-71 (2012).

2011

Article

GPU-powered tools boost molecular visualization
Chavent, Matthieu; Lévy, Bruno; Krone, Michael; Bidmon, Katrin; Nominé, Jean-Philippe; Ertl, Thomas; Baaden, Marc: GPU-powered tools boost molecular visualization.
Briefings in Bioinformatics 12 (6), pp. 689-701 (2011).
Interactive Exploration of Protein Cavities
Krone, Michael; Falk, Martin; Rehm, Sascha; Pleiss, Jürgen; Ertl, Thomas: Interactive Exploration of Protein Cavities.
Computer Graphics Forum 30 (3), pp. 673-682 (2011).

Conference Paper

Parallel Contour-Buildup Algorithm for the Molecular Surface
Krone, Michael; Grottel, Sebastian; Ertl, Thomas: Parallel Contour-Buildup Algorithm for the Molecular Surface.
In: Proceedings of IEEE Symposium on Biological Data Visualization (biovis'11), pp. 17-22 (2011).
Interactive Exploration of Polymer-Solvent Interactions
Thomaß, Bertram; Walter, Jonathan; Krone, Michael; Hasse, Hans; Ertl, Thomas: Interactive Exploration of Polymer-Solvent Interactions.
In: International Workshop on Vision, Modeling and Visualization 16, pp. 301-308 (2011).

2010

Conference Paper

Parallel Computation and Interactive Visualization of Time-varying Solvent Excluded Surfaces
Krone, Michael; Dachsbacher, Carsten; Ertl, Thomas: Parallel Computation and Interactive Visualization of Time-varying Solvent Excluded Surfaces.
In: International Conference On Bioinformatics and Computational Biology 2010, pp. 402-405 (2010).

2009

Article

Interactive Visualization of Molecular Surface Dynamics
Krone, Michael; Bidmon, Katrin; Ertl, Thomas: Interactive Visualization of Molecular Surface Dynamics.
IEEE Transactions on Visualization and Computer Graphics (Proceedings Visualization / Information Visualization 2009) 15 (6), pp. 1391-1398 (2009).

2008

Conference Paper

GPU-based Visualisation of Protein Secondary Structure
Krone, Michael; Bidmon, Katrin; Ertl, Thomas: GPU-based Visualisation of Protein Secondary Structure.
In: Proceedings of TP.CG'08, pp. 115-122 (2008).