Karsten Klein |
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AddressLife Science Informatics Group 78457 Konstanz, Germany |
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Research Topics | Teaching | Projects | Publications
Immersive / Visual Analytics
Network Visualisation and Analysis
Algorithm Engineering, in particular for network visualisation methods, and applications of Combinatorial Optimization
Life Science Informatics, in particular visual analytics of networks
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Immersive AnalyticsAt Konstanz University, I am managing the IA lab, where we investigate the use of IA approaches for a variety of application areas, in particular from the life sciences (biology, chemistry, health, medicine). We are part of the Immersive Analytics (IA) initiative, and I am one of the editors of the first book on IA. |
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Open Graph Drawing Framework (OGDF)The Open Graph Drawing Framework (OGDF) is an open source software project that provides a library of datastructures and graph layout algorithms. OGDF is the successor of AGD, the library of algorithms for graph drawing. |
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GAV-VRGAV-VR, a framework for interactive visualisation and analysis of graphs in VR. GAV-VR has a modular architecture to support easy integration of visualisation and analysis method implementations. |
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Scaffold Hunter
Scaffold Hunter is a tool for the interactive exploration of chemical space. It facilitates navigation by graphical visualization of structural relationships and provides methods for the analysis of large data sets, e.g., to correlate chemical structure and biochemical activity. Scaffold Hunter is implemented in Java and freely available under the GPL. |
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VANTED
VANTED is a free Java based extendable network visualisation and analysis tool with focus on applications in the life sciences. It allows users to create and edit networks, as well as to map experimental data onto networks. The functionality of VANTED can be extended by installing one or more of the provided Addons using the built-in Addon Manager, e.g. to add an SBGN editor. |
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RINalyzer
RINalyzer allows to analyze and visualize protein residue interaction networks (RINs). A RIN is constructed from the three-dimensional structure of a protein as stored in PDB files from the Protein Data Bank. RINalyzer allows simultaneous, interactive 2D visualization and exploration of a RIN in Cytoscape, together with the corresponding molecular 3D structure visualized in UCSF Chimera. RINalyzer is available as a Java plugin for Cytoscape, a free software platform for the analysis and visualization of molecular interaction networks. |
I am teaching both introductory and advanced courses, mainly on data visualisation and analysis, algorithms and computational systems biology, and I supervise software projects in life science informatics. I also supervise bachelor, master, and PhD students, and I am always looking for talented students!
Temporaltracks: visual analytics for exploration of 4D fMRI time-series coactivation
Michael de Ridder, Karsten Klein, Jinman Kim
Proceedings of the Computer Graphics International Conference, 13 (2017)
Immersive analytics
Tom Chandler, Maxime Cordeil, Tobias Czauderna, Tim Dwyer, Jaroslaw Glowacki, Cagatay Goncu, Matthias Klapperstueck, Karsten Klein, Kim Marriott, Falk Schreiber, Elliot Wilson
Big Data Visual Analytics (BDVA), 2015, 1-8 (2015)
Immersive Collaborative Analysis of Network Connectivity: CAVE-style or Head-Mounted Display?
Max Cordeil, Tim Dwyer, Karsten Klein, Bireswar Laha, Kim Marriott, Bruce H Thomas
IEEE Transactions on Visualization and Computer Graphics 23 (1), 441-450 (2016)
Visual Analysis of Biological Activity Data with Scaffold Hunter
Karsten Klein, Oliver Koch, Nils Kriege, Petra Mutzel, and Till Sch�fer
Molecular Informatics doi:10.1002/minf.201300087 (2013)
Shrinking the Search Space for Clustered Planarity
Markus Chimani, Karsten Klein
20th International Symposium on Graph Drawing 2012,
Redmond (GD12), LNCS 7704 doi:10.1007/978-3-642-36763-2_9 (2012)
Analyzing and visualizing residue networks of protein structures
Nadezhda T. Doncheva, Karsten Klein, Francisco S. Domingues, and Mario Albrecht
Trends in biochemical sciences doi:10.1016/j.tibs.2011.01.002 (2011)
CT-Index: Fingerprint-based Graph Indexing Combining Cycles and Trees
Karsten Klein, Nils Kriege, and Petra Mutzel
27th IEEE International Conference on Data Engineering,
Hannover (ICDE 11).