Information Visualization Visual Analytics / Visual Data Mining / Knowledge Discovery Biological Data Visualization

Transcription

1 Curriculum Vitae Personal Data Name Title Contact Website Born Nationality Dipl.-Ing. Dr.techn. Marc Streit Assistant Professor Science Park III, A-4040 Linz February 26, 1983 in Klagenfurt, Austria Austria Short Biography Marc Streit is assistant professor at the Institute of Computer Graphics, Johannes Kepler University Linz, Austria. He finished his PhD at Graz University of Technology in early 2011 and moved to Linz later that year. As part of his tenure-track position, he spent a part of the year 2012 as a visiting researcher at the Center for Biomedical Informatics at Harvard Medical School. In 2014 he received a Fulbright scholarship for research and lecturing at Harvard University. He has won Best Paper Awards at InfoVis 13, BioVis 12, InfoVis 11, GI 10 and Honorable Mention Awards at CHI 14 and EuroVis 12. He is a co-author of the Nature Methods Points of View column. In 2013 he co-edited the Special Issue on Visual Analytics in the IEEE Computer journal. Additionally, he is actively contributing to the scientific community by serving on the organizing and program committee of several scientific events as well as by acting as a reviewer for high-quality journals and conferences. His scientific areas of interest include Information Visualization, Visual Analytics, and Biological Data Visualization, where he is particularly interested in the integrated analysis of large heterogeneous data. He is recognized for his work on cancer subtype analysis and the visualization of pathways. His research is embedded in the Caleyo project where he is one of the project leaders and founding-members. Research Interests Information Visualization Visual Analytics / Visual Data Mining / Knowledge Discovery Biological Data Visualization Professional 07/ /2014 Visiting Professor (Fulbright Scholarship for Research and Lecturing) at the School of Engineering & Applied Sciences, Harvard University, Boston, MA, USA since 11/2011 Assistant Professor at the Inst. of Computer Graphics, Johannes Kepler University Linz, Austria since 12/2011 Deputy Head of the Institute of Computer Graphics, Johannes Kepler University Linz, Austria since 03/2012 Lecturer at Salzburg University of Applied Sciences, Austria 07/ /2012 Visiting Researcher at the Center for Biomedical Informatics, Harvard Medical School, Boston, MA, USA 05/ /2011 Postdoctoral Researcher and Lecturer at Graz University of Technology 07/ /2009 Visiting Researcher at the Visual Computing and Computer Graphics Department, University of Rostock, Germany 10/ /2011 Faculty Member (Universitätsassistent) at Graz University of Technology 07/ /2011 Research Assistant at the Institute for Computer Graphics and Vision, Graz University of Technology Education 05/2011 PhD degree (Dr.techn.) from Graz University of Techn. with highest distinction Thesis: Guided Visual Analysis of Heterogeneous Data, Supervision: Univ. Prof. DI Dr. Dieter Schmalstieg 08/ /2011 Associated PhD Student in the Research Training Group diem osiris, University of Rostock, Germany 07/ /2011 Doctoral program in Computer Science at Graz University of Technology 06/2007 Master s degree (Dipl.-Ing.) from Graz University of Technology with highest distinction Thesis: Metabolic Pathways Influencing Gene-Expression Analysis, Supervision: Univ. Prof. DI Dr. Dieter Schmalstieg, DI Michael Kalkusch MBA 1

2 07/ /2007 Master s studies in Information Management at Graz University of Technology 07/2006 Bachelor s degree (Bakk.rer.soc.oec) from Graz University of Technology Thesis: Intuitive Data Visualization and Interactive Data Meta-Evaluation in Automated Multi- Parameter Tissue Cytometry, Supervision: Univ. Prof. DI Dr. Horst Bischof 10/ /2006 Bachelor s studies in Software Engineering and Management at Graz University of Technology Memberships in Professional Societies and Interest Groups IEEE Computer Society IEEE Technical Committee on Visualization and Graphics (VGTC) International Society for Computational Biology (ISCB) Austrian Computer Society (Österreichische Computer Gesellschaft) Awards and Scholarships 2014 Fulbright Scholarship for Research and Lecturing at Harvard University 2014 Honorable Mention Award, ACM Conference on Human Factors in Comp. Systems (CHI 14) 2013 Best Paper Award, IEEE Information Visualization (InfoVis 13) 2012 Best Paper Award, IEEE Symosium on Biological Data Visualization (BioVis 12) rd Best Paper Award, Eurographics Conference on Visualization (EuroVis 12) 2011 Best Paper Award, IEEE Information Visualization (InfoVis 11) 2010 Best Student Paper Award, ACM Graphics Interface (GI 10) 2009 Scholarship for short time academic research and expert courses abroad (KUWI) granted by the Graz University of Technology 2006 Award for excellent performance as a student (Leistungsstipendium) granted by the Faculty of Computer Science, Graz University of Technology 2006 Research grant for students (Förderstipendium) awarded by the Faculty of Computer Science, Graz University of Technology Conference and Journal Functions Guest Editor 2013 IEEE Computer, Special Issue on Visual Analytics Organizing Committee 2014 Poster Chair at the Symposium on Biological Data Visualization (BioVis) Website Chair at the IEEE Symposium on Biological Data Visualization (BioVis) Program Committee IEEE Conference on Information Visualization (InfoVis) 2014 Eurographics Conference on Visualization (EuroVis) 2014 Eurographics Conference on Visualization Short Papers (EuroVis Short Papers) IEEE Symposium on Biological Data Visualization (BioVis) International Conference on Information Visualization Theory and Applications (IVAPP) 2014 International Conference on Cognitive Computing and Data-driven Business (i-know) 2013 International Conference on Intelligent Systems for Molecular Biology (ISMB) 2013 International EuroVis Workshop on Visual Analytics (EuroVA) 2014, 2012 Eurographics Workshop on Visual Computing for Biology and Medicine (VCBM) Central European Seminar on Computer Graphics (CESCG) International Conference on Information Visualisation (IV) DATA 2012 ICETE, Special Session HCI-KDD in Computational Sciences Other 2013 Best Poster Judge at the IEEE Symposium on Biological Data Visualization (BioVis) 2

3 Reviewing for Scientific Conferences and Journals IEEE Transactions on Visualization and Computer Graphics (TVCG) IEEE Conference on Information Visualization (InfoVis) Eurographics Conference on Visualization (EuroVis) IEEE Conference on Visual Analytics Science and Technology (VAST) IEEE Pacific Visualization Symposium (PacificVis) Bioinformatics Journal, Oxford University Press 2014 BMC Bioinformatics 2014 Computer Graphics & Applications (CG&A) IEEE Symposium on Biological Data Visualization (BioVis) 2013 Eurographics Computer Graphics Forum (CGF) 2013 Elsevier Journal of Computers & Graphics (C&G) 2013 IEEE Computer Journal International Conference on Information Visualization Theory and Applications (IVAPP) 2013 International Conference on Human Factors in Computing & Informatics (SouthCHI) 2012 Research Foundation Flanders (FWO) 2012, 2009 Conference on Information Visualisation Central European Seminar on Computer Graphics (CESCG) 2011 Sage Information Visualization Journal 2011 IEEE VisWeek Posters 2010 IEEE Virtual Reality Conference (VR) 2010 IEEE Visual Analytics (VAST) Challenge 2010 Austrian Academy of Sciences (Österreichische Akademie der Wissenschaften) Talks Fundamentals of Visualizing Biological Data, Invited talk at the Symposium on Biological Data Visualization (BioVis), Boston, MA, USA Visual Analysis of Tabular Data Subsets, Invited talk at the School of Engineering and Applied Sciences, Harard University, Boston, MA, USA Visual Analysis of Heterogeneous Data for Molecular Biology, Invited talk at the MedViz Seminar, Bergen, Norway Suche nach der Nadel im Genhaufen: Wie Visualisierung hilft, Krebs zu verstehen, Invited talk at the JKU Zukunft der Forschung event, Linz, Austria What comes first? Visual Analysis of Multi-Attribute Rankings, Invited talk at the VRVis Forum, Vienna, Austria Visualizing Biomolecular Data, Invited talk at the Summer School on Bioinformatics, Biomedicine, and Cloud Computing, Malaga, Spain Visual Cancer Subtype Analysis, Invited talk at the Symposium on Understanding Cancer Genomics through Information Visualization at Tokyo University, Tokyo, Japan Visual Cancer Subtype Analysis, Invited talk at the Park Lab, Center for Biomedical Informatics, Harvard Medical School, Boston, MA, USA Caleydo - Visualization for Molecular Biology, Invited talk at the Media Interaction Lab, University of Applied Sciences Upper Austria, Hagenberg, Austria Caleydo - Visualization for Molecular Biology, Invited talk at the CHIPS Network organized by Johnson & Johnson, Remote Visual Analysis of Heterogeneous Data, Invited talk at the Image and Signal Processing Group, Univ. of Leipzig, Leipzig, Germany Visual Analysis of Heterogeneous Data, Invited talk at the Institute of Computer Graphics and Algorithms, Vienna University of Technology, Vienna, Austria Visualization of Biomolecular Data, Invited talk at the Institute of Bioinformatics, Johannes Kepler University Linz, Linz, Austria Model-Driven Design for the Visual Analysis of Heterogeneous Data, Invited talk at IEEE VisWeek 11, Special TVCG Session, Providence, RI, USA Visual Support for Heterogeneous Analysis Scenarios, Panelist at the Workshop on Trends in Visual Computing and Visual Analytics, Kuehlungsborn, Germany. 3

4 Guided Visual Analysis of Heterogeneous Data, PhD Defense, Graz, Austria Collaborative Information Linking: Bridging Knowledge Gaps Between Users by Linking Across Applications, IEEE Pacific Visualization Symp. (PacificVis 2011), Hong Kong, China Caleydo: Visual Analysis of Biomolecular Data, Invited talk at the MRC Laboratory of Molecular Biology (LMB), Cambridge, UK Caleydo: Visual Analysis of Biomolecular Data, Invited talk at the European BioInformatics Institute (EBI), Cambridge, UK Caleydo: Visual Analysis of Biomolecular Data, Invited talk at the Eurographics Workshop on Visual Computing for Biology and Medicine (VCBM), Leipzig, Germany Caleydo and Visual Links, Invited talk at the VRVis Research Company, Vienna, Austria Towards Multi-User Multi-Level Interaction, CoVIS Workshop on Collaborative Visualization on Interactive Surfaces (IEEE VisWeek), Atlantic City, NJ, USA Connecting Genes With Diseases - A Holistic Approach, Invited talk at the Research Training Group diem osiris, Rostock, Germany Caleydo Project Overview, Invited talk at the Visual Computing and Computer Graphics Department at the University of Rostock, Rostock, Germany Gaze-Based Focus Adaption in an Information Visualization System, Computer Graphics and Visualization and Image Processing 2009 Conference (CGVCVIP), Algarve, Portugal Caleydo: Visualization of Gene Expression Data in the Context of Biological Processes, Invited talk at the AUVA Research Center for Traumatology, Vienna, Austria Novel InfoVis Techniques Applied to Pathways and Gene Expression Data, Invited talk at the Institute for Genomics and Bioinformatics, Graz Univ. of Technology, Austria Navigation and Exploration of Interconnected Pathways, EuroVis Conference, Eindhoven, Netherlands. Grants PIPES-VS-DAMS - Privacy Preserving Visual Dynamic Network Analysis for Advanced System Monitoring on Multiple Scales. Funded by the Austrian Research Promotion Agency (FFG), IKT der Zukunft program, Grant no , Project volume EUR Caleydoplex - Information Exploration in Teams. Funded by the Austrian Science Fund (FWF), Grant no. P22902, Project volume EUR InGeneious - Visualization of Biomolecular and Clinical Data. Funded by the Austrian Research Promotion Agency (FFG), BRIDGE program, Grant no , Project volume EUR. Publications Peer-reviewed Journal Publications [1] Marc Streit, Alexander Lex, Samuel Gratzl, Christian Partl, Dieter Schmalstieg, Hanspeter Pfister, Peter J. Park, and Nils Gehlenborg. Guided visual exploration of genomic stratifications in cancer. Nature Methods, to appear. [2] Samuel Gratzl, Nils Gehlenborg, Alexander Lex, Hanspeter Pfister, and Marc Streit. Domino: Extracting, comparing, and manipulating subsets across multiple tabular datasets. IEEE Transactions on Visualization and Computer Graphics (InfoVis 14), to appear. [3] Thomas Mühlbachler, Harald Piringer, Samuel Gratzl, and Marc Streit. Opening the black box: Strategies for increased user involvement in existing algorithm implementations. IEEE Transactions on Visualization and Computer Graphics (VAST 14), to appear. [4] Christian Partl, Alexander Lex, Marc Streit, Hendrik Strobelt, Anne Mai Wasserman, Hanspeter Pfister, and Dieter Schmalstieg. ConTour: Data-driven exploration of multi-relational datasets for drug discovery. IEEE Transactions on Visualization and Computer Graphics (VAST 14), to appear. [5] Marc Streit and Nils Gehlenborg. Points of view: Bar charts and box plots. Nature Methods, 11(2): , [6] Marc Streit, Samuel Gratzl, Michael Gillhofer, Andreas Mayr, Andreas Mitterecker, and Sepp Hochreiter. Furby: Fuzzy force-directed bicluster visualization. BMC Bioinformatics, 15(Suppl 6):S4,

5 [7] C. Turkay, A. Lex, M. Streit, H. Pfister, and H. Hauser. Characterizing cancer subtypes using the dual analysis approach in caleydo. IEEE Computer Graphics and Applications, to appear. [8] Marc Streit and Oliver Bimber. Visual analytics: Seeking the unknown. Computer, 46(7):20 21, Guest Editors Introduction. [9] Samuel Gratzl, Alexander Lex, Nils Gehlenborg, Hanspeter Pfister, and Marc Streit. LineUp: Visual analysis of multi-attribute rankings. IEEE Transactions on Visualization and Computer Graphics (InfoVis 13), 19(12): , [10] Alexander Lex, Christian Partl, Denis Kalkofen, Marc Streit, Samuel Gratzl, Anne Mai Wasserman, Dieter Schmalstieg, and Hanspeter Pfister. Entourage: Visualizing relationships between biological pathways using contextual subsets. IEEE Transactions on Visualization and Computer Graphics (InfoVis 13), 19(12): , [11] Christian Partl, Alexander Lex, Marc Streit, Denis Kalkofen, Karl Kashofer, and Dieter Schmalstieg. en- Route: Dynamic path extraction from biological pathway maps for exploring heterogeneous experimental datasets. BMC Bioinformatics, 14(Suppl 19):S3, [12] Marc Streit, Hans-Jörg Schulz, Alexander Lex, Dieter Schmalstieg, and Heidrun Schumann. Model-driven design for the visual analysis of heterogeneous data. IEEE Transactions on Visualization and Computer Graphics, 18(6): , [13] Alexander Lex, Marc Streit, Hans-Jörg Schulz, Christian Partl, Dieter Schmalstieg, Peter J. Park, and Nils Gehlenborg. StratomeX: Visual analysis of large-scale heterogeneous genomics data for cancer subtype characterization. Computer Graphics Forum (EuroVis 12), 31(3): , [14] Rostislav Klebnikov, Bernhard Kainz, Markus Steinberger, Marc Streit, and Dieter Schmalstieg. Procedural texture synthesis for zoom-independent visualization of multivariate data. Computer Graphics Forum (EuroVis 12), 31(3): , [15] Markus Steinberger, Manuela Waldner, Marc Streit, Alexander Lex, and Dieter Schmalstieg. Contextpreserving visual links. IEEE Transactions on Visualization and Computer Graphics (InfoVis 11), 17(12): , [16] Alexander Lex, Hans-Jörg Schulz, Marc Streit, Christian Partl, and Dieter Schmalstieg. VisBricks: Multiform visualization of large, inhomogeneous data. IEEE Transactions on Visualization and Computer Graphics (InfoVis 11), 17(12): , [17] Alexander Lex, Marc Streit, Christian Partl, Karl Kashofer, and Dieter Schmalstieg. Comparative analysis of multidimensional, quantitative data. IEEE Transactions on Visualization and Computer Graphics (InfoVis 10), 16(6): , [18] Marc Streit, Alexander Lex, Michael Kalkusch, Kurt Zatloukal, and Dieter Schmalstieg. Caleydo: Connecting pathways and gene expression. Bioinformatics, 25(20): , [19] Marc Streit, Michael Kalkusch, Karl Kashofer, and Dieter Schmalstieg. Navigation and exploration of interconnected pathways. Computer Graphics Forum (EuroVis 08), 27(3): , [20] Marc Streit, Rupert C. Ecker, Katja Österreicher, Georg E. Steiner, Horst Bischof, Christine Bangert, Tamara Kopp, and Radu Rogojanu. 3d parallel coordinate systems-a new data visualization method in the context of microscopy-based multicolor tissue cytometry. Cytometry Part A, 69A(7): , [21] Rupert C. Ecker, Radu Rogojanu, Marc Streit, Katja Österreicher, and Georg E. Steiner. An improved method for discrimination of cell populations in tissue sections using microscopy-based multicolor tissue cytometry. Cytometry Part A, 69A(3): , Peer-reviewed Conference and Workshop Publications [1] Thomas Geymayer, Markus Steinberger, Alexander Lex, Marc Streit, and Dieter Schmalstieg. Show me the invisible: Visualizing hidden content. In Proceedings of the ACM SIGCHI Conference on Human Factors in Computing Systems (CHI 14), pages ACM Press, [2] Christian Partl, Alexander Lex, Marc Streit, Denis Kalkofen, Karl Kashofer, and Dieter Schmalstieg. en- Route: Dynamic path extraction from biological pathway maps for in-depth experimental data analysis. In Proceedings of the IEEE Symposium on Biological Data Visualization (BioVis 12), pages ,

6 [3] Clemens Holzhüter, Alexander Lex, Dieter Schmalstieg, Hans-Jörg Schulz, Heidrun Schumann, and Marc Streit. Visualizing uncertainty in biological expression data. In Proceedings of the SPIE Conference on Visualization and Data Analysis (VDA 12), volume 8294, page 82940O. IS&T/SPIE, [4] Thomas Geymayer, Alexander Lex, Marc Streit, and Dieter Schmalstieg. Visualizing the effects of logically combined filters. In Proceedings of the Conference on Information Visualisation (IV 11), pages IEEE, [5] Alexander Lex, Marc Streit, Ernst Kruijff, and Dieter Schmalstieg. Caleydo: Design and evaluation of a visual analysis framework for gene expression data in its biological context. In Proceeding of the IEEE Symposium on Pacific Visualization (PacificVis 10), pages IEEE, [6] Manuela Waldner, Werner Puff, Alexander Lex, Marc Streit, and Dieter Schmalstieg. Visual links across applications. In Proceedings of the Conference on Graphics Interface (GI 10), pages Canadian Human-Computer Communications Society, [7] Marc Streit, Alexander Lex, Heimo Müller, and Dieter Schmalstieg. Gaze-based focus adaption in an information visualization system. In Proceedings of the Conference on Computer Graphics and Visualization and Image Processing (CGVCVIP 09), [8] Manuela Waldner, Alexander Lex, Marc Streit, and Dieter Schmalstieg. Design considerations for collaborative information workspaces in multi-display environments. In Proceedings of the Workshop on Collaborative Visualization on Interactive Surfaces (VisWeek 09) - Technical Report LMU-MI , Ludwig Maximilias University Munich, pages 36 39, ISSN [9] Marc Streit, Hans-Jörg Schulz, Dieter Schmalstieg, and Heidrun Schumann. Towards multi-user multi-level interaction. In Technical Report LMU-MI , Ludwig Maximilias University Munich: Proceedings of the Workshop on Collaborative Visualization on Interactive Surfaces, pages 5 8, [10] Heimo Müller, Robert Reihs, Stefan Sauer, Kurt Zatloukal, Marc Streit, Lex Alexander, Bernhard Schlegl, and Dieter Schmalstieg. Connecting genes with diseases. In Proceedings of the Conference on Information Visualisation (IV 09). IEEE Computer Society Press, [11] Heimo Müller, Kurt Zatloukal, Marc Streit, and Dieter Schmalstieg. Interactive exploration of medical data sets. In Proceedings of the Conference of BioMedical Visualisation, pages IEEE Computer Society Press, [12] Marc Streit, Michael Kalkusch, and Dieter Schmalstieg. Interactive visualization of metabolic pathways. In Poster Compendium of the IEEE Conference on Visualization (Vis 07). IEEE Computer Society Press, Tutorials 02/2013 Marc Streit and Alexander Lex, Cancer Data Analysis with Caleydo StratomeX and enroute, Symp. on Understanding Cancer Genomics through Information Visualization at Tokyo University, Tokyo, Japan. 10/2012 Marc Streit, Hans-Jörg Schulz, and Alexander Lex, Connecting the Dots - Showing Relationships in Data and Beyond, VisWeek 12, Seattle, WA, USA. 01/2012 Marc Streit and Hans-Jörg Schulz, Visual Linking in Information Visualization and Beyond, University of Rostock, Rostock, Germany. Exhibitions 12/ /2009 Marc Streit, Alexander Lex, Dieter Schmalstieg, Heimo Müller, and Kurt Zatloukal, FWF Austrian Science Fund 40-Year Anniversary, Graz, Austria. Teaching Experience Courses at Johannes Kepler University Linz Information Visualization (Lecture and lab) Computer Graphics (Lab) Visual Analytics (Lecture) Accompanying Lectures for Project Students (Seminar) Visual Computing for Virtual Anatomy (Lecture) 6

7 Courses at Harvard University 2014 CS 109 / AC 209 / Stat 121 / E Data Science (Lecture - Visualization part) Courses at Salzburg University of Applied Science Since 2013 Visual Analytics (Lecture and lab) Computer Graphics (Lecture and lab) Courses at Graz University of Technology Computer Graphics Selected Topics: Visualization (Lecture and lab) Computer Graphics 1 & 2 (Lab) Computer Graphics 2 (Lab) Distributed Systems (Lab) Accompanying Lectures for Project Students: Introduction to Scientific Work, Presentation Techniques (Lecture & lab) Real-time Graphics (Lab) Virtual Reality (Lab) Student Supervision Since 03/2014 Master s Project by Reem Hourieh Enhanced Edge Bundling Since 01/2014 Master s Thesis by Stefan Luger Visualization of Large and Complex Provenance Graphs at All Stages Since 11/2013 PhD Thesis by Holger Stitz Visual Analysis of Large, Heterogeneous, Multi-Scale IT-Infrastructure Data Since 11/2012 PhD Thesis by Samuel Gratzl Guided Visual Analysis of Heterogeneous Data Since 06/2012 PhD Thesis by Christian Partl Visual Integration of Heterogeneous Data and Its Representations 07/ /2014 Master s Project by Stefan Luger Workflow Visualization for the Refinery Platform 11/ /2013 Bachelor s Thesis by Michael Gillhofer Bi-Cluster Visualization 10/ /2013 Master s Thesis by Thomas Geymayer Context Preserving Visual Links Across Applications 03/ /2012 Master s Thesis by Christian Partl Multiform Visualization of Heterogeneous Data 10/ /2011 Bachelor s Thesis by Thomas Geymayer Filter Pipeline Visualization 02/ /2011 Bachelor s Thesis by Michael Kerber Eye-Controlled Game 02/ /2010 Bachelor s Thesis by Hannes Plank Eye-Controlled View Management 04/ /2010 Bachelor s Thesis by Michael Lafer Cluster Visualization using Treemaps 10/ /2010 Master s Thesis by Jürgen Pillhofer Caleydo: Integrating a Scatter Plot Visualization 04/ /2009 Bachelor s Thesis by Oliver Pimas Visual Links in a 2D/3D Information Visualization System 10/ /2010 Master s Project by Christian Partl Comparative Analysis 06/ /2010 Bachelor s Thesis by Stefan Sauer Visualization of Patient Data using Glyphs 03/ /2010 Bachelor s Thesis by Helmut Pichlhöfer Visualizing Dependencies between Pathway Graphs 02/ /2010 Master s Thesis by Bernhard Schlegl Visual Analytics for Gene Expression Data 7

8 02/ /2009 Master s Thesis by Werner Puff Collaborative Information Visualization in a Multi-Desktop Environment 03/ /2009 Bachelor s Thesis by Christian Partl Visualizing a Cluster Hierarchy using a Radial Layout 10/ /2009 Master s Project by Bernhard Schlegl Multi-Level Information Visualization for Large Data Sets with Heat Maps Linz, August,