Jun.-Prof. Dr. Michael Krone

Junior Professor for Big Data Visual Analytics in Life Sciences

Office
Sand 14
72076 Tübingen
Room C308b (3rd floor)
 +49 7071 29-70456
michael.kronespam prevention@uni-tuebingen.de
http://va.informatik.uni-tuebingen.de

Office Hours
by arrangement

Profil on Google Scholar
Profil on ResearchGate
 

 


Research

Research Areas

  • Scientific Visualization for
    • Molecular Structures / Structural Biology
    • Material Sciences
    • Biomedical data
  • Visual Analytics
    • Interaktive visual analysis of big data
  • Computer Graphics
    • Rendering & Lighting
  • Parallelization & GPGPU
    • CUDA

Research Projects


Since 2018
Junior Professor for Big Data Visual Analytics

at the University of Tübingen

SoSe 2016 & 2017
Visiting Lecturer

at Ludwig-Maximilians-University (LMU), Munich

2016-2018
PostDoc

at the Visualization Research Center of the University of Stuttgart (VISUS)

2015
Doctorate (Dr. rer. nat.)

Ph.D. defense in Computer Science (summa cum laude), Main examiner: Prof. Dr. Thomas Ertl (University of Stuttgart), second examiner: Prof. Amitabh Varshney, Ph.D. (University of Maryland, College Park, USA)

2011
Research stay

at the University of Illinois at Urbana-Champaign, IL, USA (Theoretical and Computational Biophysics Group)

2009-2015
Scientific assistant and doctoral candidate

supervised by Prof. Dr. Thomas Ertl at the Visualization Research Center of the University of Stuttgart (VISUS)

2002-2008
Study of Computer Science

at the University of Stuttgart Secondary subject: Technical Biology

1983
born in Stuttgart


Publications

2016 – 2018

2018
  • F. Mwalongo, M. Krone, G. Reina, T. Ertl, “Web-based Volume Rendering using Progressive Importance-based Data Transfer,” in International Symposium on Vision, Modeling, and Visualization (VMV), 2018 (to appear).
  • N. Alharbi, M. Chavent, M. Krone, and R. S. Laramee, “VAPLI: Novel Visual Abstraction for Protein-Lipid Interactions,” in IEEE Scientific Visualization Conference (SciVis) Short Papers, 2018 (to appear).
  • C. Schulz, K. Schatz, M. Krone, M. Braun, T. Ertl, and D. Weiskopf, “Uncertainty Visualization for Secondary Structures of Proteins,” in 2018 IEEE Pacific Visualization Symposium (PacificVis), 2018, pp. 96–105.
  • C. Müller, M. Krone, M. Huber, V. Biener, D. Herr, S. Koch, G. Reina, D. Weiskopf, and T. Ertl, “Interactive Molecular Graphics for Augmented Reality Using HoloLens,” Journal of Integrative Bioinformatics, vol. 15, no. 2, 2018.
  • M. Krone, S. Grottel, G. Reina, C. Müller, and T. Ertl, “10 Years of MegaMol: The Pain and Gain of Creating Your Own Visualization Framework,” IEEE Computer Graphics and Applications, vol. 38, no. 1, pp. 109–114, Jan. 2018.
  • P. Gralka, S. Grottel, J. Staib, K. Schatz, G. Karch, M. Hirschler, M. Krone, G. Reina, S. Gumhold, and T. Ertl, “2016 IEEE Scientific Visualization Contest Winner: Visual and Structural Analysis of Point-based Simulation Ensembles,” IEEE Computer Graphics and Applications, vol. 38, no. 3, pp. 106–117, May 2018.
  • C. P. Bradley, N. Emamy, T. Ertl, D. Göddeke, A. Hessenthaler, T. Klotz, A. Krämer, M. Krone, B. Maier, M. Mehl, T. Rau, and O. Röhrle, “Enabling Detailed, Biophysics-Based Skeletal Muscle Models on HPC Systems,” Front. Physiol., vol. 9, 2018.
  • M. Becher, M. Krone, G. Reina, and T. Ertl, “Feature-based Volumetric Terrain Generation and Decoration,” IEEE Transactions on Visualization and Computer Graphics, pp. 1–1, 2018.
2017
  • K. Schatz, M. Krone, C. Müller, J. Schneider, G. Reina, and T. Ertl, “Visualization of Halo Topologies in Dark Matter Simulations,” in Proceedings of TopoInVis, 2017.
  • S. Reinhardt, M. Huber, O. Dumitrescu, M. Krone, B. Eberhardt, and D. Weiskopf, “Visual Debugging of SPH Simulations,” in 2017 21st International Conference Information Visualisation (IV), 2017, pp. 117–126.
  • T. Rau, M. Krone, G. Reina, and T. Ertl, “Challenges and Opportunities using Software-defined Visualization in MegaMol,” in 7th Workshop on Visual Analytics, Information Visualization and Scientific Visualization, 2017.
  • M. Krone, K. Schatz, N. Hieronymus, C. Müller, M. Becher, T. Barthelmes, A. Cooper, S. Currle, P. Gralka, M. Hlawatsch, L. Pietrzyk, T. Rau, G. Reina, R. Trefft, and T. Ertl, “From Visualization Research to Public Presentation - Design and Realization of a Scientific Exhibition,” in Proceedings of SIGRAD 2017, 2017, vol. 143, pp. 17–24.
  • M. Krone, F. Frieß, K. Scharnowski, G. Reina, S. Fademrecht, T. Kulschewski, J. Pleiss, and T. Ertl, “Molecular Surface Maps,” IEEE Trans. Vis. Comput. Graphics, vol. 23, no. 1, pp. 701–710, 2017.
  • M. Krone, G. Reina, S. Zahn, T. Tremel, C. Bahnmüller, and T. Ertl, “Implicit Sphere Shadow Maps,” in 2017 IEEE Pacific Visualization Symposium (PacificVis), 2017, pp. 275–279.
  • B. Kozlíková, M. Krone, M. Falk, N. Lindow, M. Baaden, D. Baum, I. Viola, J. Parulek, and H.-C. Hege, “Visualization of Biomolecular Structures: State of the Art Revisited,” Comput. Graph. Forum, vol. 36, no. 8, pp. 178–204, 2017.
  • P. Hermosilla, M. Krone, V. Guallar, P.-P. Vázquez, À. Vinacua, and T. Ropinski, “Interactive GPU-based generation of solvent-excluded surfaces,” Vis Comput, vol. 33, no. 6, pp. 869–881, Jun. 2017.
  • M. Becher, M. Krone, G. Reina, and T. Ertl, “Feature-based Volumetric Terrain Generation,” in Proceedings of the 21st ACM SIGGRAPH Symposium on Interactive 3D Graphics and Games, New York, NY, USA, 2017, pp. 10:1–10:9.
  • N. Alharbi, M. Alharbi, X. Martinez, M. Krone, A. S. Rose, M. Baaden, R. S. Laramee, and M. Chavent, “Molecular Visualization of Computational Biology Data: A Survey of Surveys,” in EuroVis 2017 - Short Papers, 2017.
2016
  • K. Schatz, C. Müller, M. Krone, J. Schneider, G. Reina, and T. Ertl, “Interactive visual exploration of a trillion particles,” in 6th IEEE Symposium on Large Data Analysis and Visualization (LDAV), 2016, pp. 56–64.
  • F. Mwalongo, M. Krone, M. Becher, G. Reina, and T. Ertl, “GPU-based remote visualization of dynamic molecular data on the web,” Graphical Models, 2016.
  • F. Mwalongo, M. Krone, G. Reina, and T. Ertl, “State-of-the-Art Report in Web-based Visualization,” Comput. Graph. Forum, vol. 35, no. 3, pp. 553–575, 2016.
  • C. Müller, M. Krone, K. Scharnowski, G. Reina, and T. Ertl, “An Evaluation of the Utility of Large High-Resolution Displays for Comparative Scientific Visualisation,” IJSI, vol. 9, no. 3, pp. 355–370, 2016.
  • M. Krone, B. Kozlíkova, N. Lindow, M. Baaden, D. Baum, J. Parulek, H.-C. Hege, and I. Viola, “Visual Analysis of Biomolecular Cavities: State of the Art,” Comput. Graph. Forum, vol. 35, no. 3, pp. 527–551, 2016.
  • S. Grottel, G. Reina, M. Krone, C. Müller, and T. Ertl, “MegaMol - for Fun and Profit,” in Workshop on Visualization in Practice, 2016.
  • M. Falk, S. Grottel, M. Krone, and G. Reina, Interactive GPU-based Visualization of Large Dynamic Particle Data. Morgan & Claypool Publishers, 2016.

2011 – 2015

2015
  • K. Scharnowski, M. Krone, G. Reina, and T. Ertl, “On the Reproducibility of our Biomolecular Visualization,” in EuroVis Workshop on Reproducibility, Verification, and Validation in Visualization (EuroRV3), 2015.
  • B. Rau, F. Friess, M. Krone, C. Müller, and T. Ertl, “Enhancing visualization of molecular simulations using sonification,” in IEEE International Workshop on Virtual and Augmented Reality for Molecular Science (VARMS@IEEEVR), 2015, pp. 25–30.
  • F. Mwalongo, M. Krone, M. Becher, G. Reina, and T. Ertl, “Remote Visualization of Dynamic Molecular Data Using WebGL,” in International Conference on 3D Web Technology, 2015, pp. 115–122.
  • C. Müller, M. Krone, K. Scharnowski, G. Reina, and T. Ertl, “On the Utility of Large High-Resolution Displays for Comparative Scientific Visualisation,” in International Symposium on Visual Information Communication and Interaction (VINCI), 2015, vol. 8, pp. 131–136.
  • K. Lawonn, M. Krone, T. Ertl, and B. Preim, “On the Reproducibility of Line Integral Convolution for Real-Time Illustration of Molecular Surface Shape and Salient Regions,” in EuroVis Workshop on Reproducibility, Verification, and Validation in Visualization (EuroRV3), 2015.
  • M. Krone, C. Müller, T. Ertl, D. Kauker, A. C. Silva, D. Salsa, M. Gräber, and M. Kallert, “Remote Rendering and User Interaction on Mobile Devices for Scientific Visualization,” in International Symposium on Visual Information Communication and Interaction (VINCI), 2015, vol. 8.
  • M. Krone, “Interactive Visual Analysis of Biomolecular Simulations,” Dissertation, University of Stuttgart, 2015.
  • B. Kozlíková, M. Krone, N. Lindow, M. Falk, M. Baaden, D. Baum, I. Viola, J. Parulek, and H.-C. Hege, “Visualization of Biomolecular Structures: State of the Art,” in Eurographics Conference on Visualization (EuroVis) - STARs, 2015, pp. 61–81.
  • S. Grottel, M. Krone, C. Müller, G. Reina, and T. Ertl, “MegaMol - A Prototyping Framework for Particle-based Visualization,” IEEE Trans. Vis. Comput. Graphics, vol. 21, no. 2, pp. 201–214, 2015.
2014
  • K. Scharnowski, M. Krone, G. Reina, T. Kulschewski, J. Pleiss, and T. Ertl, “Comparative Visualization of Molecular Surfaces Using Deformable Models,” Comput. Graph. Forum, vol. 33, no. 3, pp. 191–200, 2014.
  • F. Mwalongo, M. Krone, G. Karch, M. Becher, G. Reina, and T. Ertl, “Visualization of Molecular Structures using State-of-the-Art Techniques in WebGL,” in International Conference on 3D Web Technology, 2014, vol. 19, pp. 133–141.
  • K. Lawonn, M. Krone, T. Ertl, and B. Preim, “Line Integral Convolution for Real-Time Illustration of Molecular Surface Shape and Salient Regions,” Comput. Graph. Forum, vol. 33, no. 3, pp. 181–190, 2014.
  • M. Krone, D. Kauker, G. Reina, and T. Ertl, “Visual Analysis of Dynamic Protein Cavities and Binding Sites,” in IEEE PacificVis - Visualization Notes, 2014, vol. 1, pp. 301–305.
  • M. Krone, M. Huber, K. Scharnowski, M. Hirschler, D. Kauker, G. Reina, U. Nieken, D. Weiskopf, and T. Ertl, “Evaluation of Visualizations for Interface Analysis of SPH,” in EuroVis - Short Papers, 2014, vol. 3, pp. 109–113.
  • J. Heinrich, M. Krone, S. I. O’Donoghue, and D. Weiskopf, “Visualising Intrinsic Disorder and Conformational Variation in Protein Ensembles,” Faraday Discuss., vol. 169, pp. 179–193, 2014.
  • T. Ertl, M. Krone, S. Kesselheim, K. Scharnowski, G. Reina, and C. Holm, “Visual Analysis for Space-Time Aggregation of Biomolecular Simulations,” Faraday Discuss., vol. 169, pp. 167–178, 2014.
2013
  • K. Scharnowski, M. Krone, F. Sadlo, P. Beck, J. Roth, H.-R. Trebin, and T. Ertl, “2012 IEEE Visualization Contest Winner: Visualizing Polarization Domains in Barium Titanate,” IEEE Comput. Graph. Appl., vol. 33, no. 5, pp. 9–17, 2013.
  • M. Krone, G. Reina, C. Schulz, T. Kulschewski, J. Pleiss, and T. Ertl, “Interactive Extraction and Tracking of Biomolecular Surface Features,” Comput. Graph. Forum, vol. 32, no. 3, pp. 331–340, 2013.
  • D. Kauker, M. Krone, A. Panagiotidis, G. Reina, and T. Ertl, “Rendering Molecular Surfaces using Order-Independent Transparency,” in Eurographics Symposium on Parallel Graphics and Visualization, 2013, vol. 13, pp. 33–40.
  • D. Kauker, M. Krone, A. Panagiotidis, G. Reina, and T. Ertl, “Evaluation of per-pixel linked lists for distributed rendering and comparative analysis,” CVS, vol. 15, no. 3, pp. 111–121, 2013.
  • M. Falk, M. Krone, and T. Ertl, “Atomistic Visualization of Mesoscopic Whole-Cell Simulations Using Ray-Casted Instancing,” Comput. Graph. Forum, vol. 32, no. 8, pp. 195–206, 2013.
2012
  • M. Krone, J. E. Stone, T. Ertl, and K. Schulten, “Fast Visualization of Gaussian Density Surfaces for Molecular Dynamics and Particle System Trajectories,” in EuroVis - Short Papers, 2012, vol. 1, pp. 67–71.
  • S. Grottel, M. Krone, K. Scharnowski, and T. Ertl, “Object-Space Ambient Occlusion for Molecular Dynamics,” in IEEE Pacific Visualization Symposium, 2012, pp. 209–216.
  • M. Falk, M. Krone, and T. Ertl, “Atomistic Visualization of Mesoscopic Whole-Cell Simulations,” in EG Workshop on Visual Computing for Biology and Medicine, 2012, pp. 123–130.
2011
  • B. Thomaß, J. Walter, M. Krone, H. Hasse, and T. Ertl, “Interactive Exploration of Polymer-Solvent Interactions,” in Vision, Modeling, and Visualization, 2011, vol. 16, pp. 301–308.
  • M. Krone, S. Grottel, and T. Ertl, “Parallel Contour-Buildup Algorithm for the Molecular Surface,” in IEEE Symposium on Biological Data Visualization, 2011, pp. 17–22.
  • M. Krone, M. Falk, S. Rehm, J. Pleiss, and T. Ertl, “Interactive Exploration of Protein Cavities,” Comput. Graph. Forum, vol. 30, no. 3, pp. 673–682, 2011.
  • M. Chavent, B. Lévy, M. Krone, K. Bidmon, J.-P. Nominé, T. Ertl, and M. Baaden, “GPU-powered Tools Boost Molecular Visualization,” Brief. Bioinform., vol. 12, no. 6, pp. 689–701, 2011.

2008 – 2010

2010
  • M. Krone, C. Dachsbacher, and T. Ertl, “Parallel Computation and Interactive Visualization of Time-varying Solvent Excluded Surfaces,” in Proc. of ACM International Conference on Bioinformatics and Computational Biology, 2010, vol. 1, pp. 402–405.
2009
  • M. Krone, K. Bidmon, and T. Ertl, “Interactive Visualization of Molecular Surface Dynamics,” IEEE Trans. Vis. Comput. Graphics, vol. 15, no. 6, pp. 1391–1398, 2009.
2008
  • M. Krone, K. Bidmon, and T. Ertl, “GPU-based Visualisation of Protein Secondary Structure,” in Theory and Practice of Computer Graphics, 2008, vol. 8, pp. 115–122.

Awards and Honors

  • ACM SIGGRAPH Symposium on Interactive 3D Graphics and Games (i3D) 2017: Best Paper Award for “Feature-based Volumetric Terrain Generation” (3rd place)
  • IEEE VGTC VPG Doctoral Dissertation Award 2016 Honorable Mention
  • Doctoral Dissertation Award of the Collaborative Research Center 716 2016 (best Ph.D. thesis in 2014/2015)
  • 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” (S. Grottel, G. Reina, M. Krone, C. Müller, T. Ertl)
  • IEEE VisWeek 2012: Winner of the IEEE SciVis Contest (K. Scharnowski, M. Krone, P. Beck, F. Sadlo: “Visualization of Polarization Domains in Barium Titanate”)
  • Eurographics Workshop on Visual Computing for Biology and Medicine 2012: Best Paper Award for “Atomistic Visualization of Mesoscopic Whole-Cell Simulations”
  • IEEE VisWeek 2009: Honorable Mention for “Interactive Visualization of Molecular Surface Dynamics” (Best Paper Award finalist)

Services / Memberships

  • Member IEEE
  • Co-Organizer of NII Shonan Meeting Seminar No.145 "The Moving Target of Visualization Software for an Ever More Complex World" (together with Prof. Hank Childs, University of Oregon, USA, Prof. Takayuki Itoh, Ochanomizu University, Japan, and Dr. Guido Reina, University of Stuttgart)
  • Organizing comittee (Abstract Chair) of the Community of Special Interest (COSI) event “BioVis – Biological Data Visualizations” at ISMB (Chicago, IL, Jun. 2018)
  • Co-Organizer of the “Workshop on Molecular Graphics and Visual Analysis of Molecular Data” at the 20th EG/VGTC Conference on Visualization (EuroVis, Brno, Czech Republic, Jun. 2018)
  • Co-Organizer of the special session “From Virtual Reality to Immersive Analytics in Bioinformatics” at Stereoscopic Displays and Applications XXIX (Burlingame, CA, Feb. 2018)
  • Co-Organizer of the CECAM workshop “Particle-based Simulations for Hard and Soft Matter” (Oct. 2016)
  • Committee member and opponent of the Ph.D. defense of Mr. Ivan Kolesár (23.06.2017, University of Bergen, Norway; Advisor: Prof. Dr. Helwig Hauser)
  • Member of International Program Committees (excerpt):
    • International Symposium on Big Data Visual Analytics (2016, 2017)
    • IEEE Symposium on Biological Data Visualization (2016, 2017)
    • EG/VGTC Conference on Visualization (Full Paper: 2018, 2019; Short Paper: 2016, 2017, 2018)
    • IEEE Pacific Visualization Symposium (Visualization Notes: 2017, 2018)
  • since 2009: Reviewer for many scientific conferences and journals in the fields of visualization, computer graphics, and bioinformatics (e.g., IEEE Trans. Vis. Comp. Graphics, Comput. Graph. Forum, ACM SIGGRAPH Asia, J. Mol. Graph. Model., J. Comput. Chem., IEEE Trans. Comput. Biol. Bioinf., Comp. Biol. Chem.)