TY - GEN A1 - Stalling, Detlev A1 - Westerhoff, Malte A1 - Hege, Hans-Christian ED - Hansen, Charles ED - Johnson, Christopher T1 - Amira: A highly interactive system for visual data analysis T2 - The Visualization Handbook Y1 - 2005 U6 - https://doi.org/10.1016/B978-012387582-2/50040-X SP - 749 EP - 767 PB - Elsevier ER - TY - CHAP A1 - Lamecker, Hans A1 - Zöckler, Maja A1 - Haberl, Hannes A1 - Zachow, Stefan A1 - Hege, Hans-Christian T1 - Statistical shape modeling for craniosynostosis planning T2 - 2nd International Conference Advanced Digital Technology in Head and Neck Reconstruction 2005, Abstract Volume Y1 - 2005 SP - 64 CY - Banff, Alberta ER - TY - JOUR A1 - Theisel, Holger A1 - Weinkauf, Tino A1 - Hege, Hans-Christian A1 - Seidel, Hans-Peter T1 - Topological methods for 2D time-dependent vector fields based on stream lines and path lines JF - IEEE Transactions on Visualization and Computer Graphics Y1 - 2005 U6 - https://doi.org/10.1109/TVCG.2005.68 VL - 11 IS - 4 ER - TY - JOUR A1 - Zachow, Stefan A1 - Hege, Hans-Christian A1 - Deuflhard, Peter T1 - Maxillofacial surgery planning with 3D soft tissue prediction - modeling, planning, simulation JF - 2. Int. Conf. on Advanced Digital Technology in Head and Neck Reconstruction, Abstract 33 Y1 - 2005 SP - 64 CY - Banff, Alberta, CA ER - TY - JOUR A1 - Goubergrits, Leonid A1 - Timmel, Tobias A1 - Affeld, Klaus A1 - Petz, Christoph A1 - Stalling, Detlev A1 - Hege, Hans-Christian T1 - Characterization of an artificial valve flow using the numerical dye washout visualization technique JF - Artificial Organs Y1 - 2006 VL - 30(8) SP - 642 EP - 650 ER - TY - CHAP A1 - Baum, Daniel A1 - Hege, Hans-Christian T1 - A Point-matching based algorithm for 3D surface alignment of drug-sized molecules T2 - Computational Life Sciences II, Second International Symposium, CompLife 2006, Cambridge (UK), Sept. 2006 Y1 - 2006 U6 - https://doi.org/10.1007/11875741_18 VL - 4216 SP - 183 EP - 193 PB - Springer ER - TY - CHAP A1 - Lamecker, Hans A1 - Wenckebach, Thomas A1 - Hege, Hans-Christian T1 - Atlas-based 3D-shape reconstruction from x-ray images T2 - Proc. Int. Conf. of Pattern Recognition (ICPR2006) Y1 - 2006 U6 - https://doi.org/10.1109/ICPR.2006.279 VL - Volume I SP - 371 EP - 374 PB - IEEE Computer Society ER - TY - CHAP A1 - Clasen, Malte A1 - Hege, Hans-Christian T1 - Terrain rendering using spherical clipmaps T2 - EuroVis 2006 - Eurographics / IEEE VGTC Symposium on Visualization Y1 - 2006 SP - 91 EP - 98 ER - TY - CHAP A1 - Lamecker, Hans A1 - Wenckebach, Thomas A1 - Hege, Hans-Christian A1 - N. Duda, Georg A1 - Heller, Markus T1 - Atlas-basierte 3D-Rekonstruktion des Beckens aus 2D-Projektionsbildern T2 - Bildverarbeitung für die Medizin 2006: Algorithmen - Systeme - Anwendungen Y1 - 2006 U6 - https://doi.org/10.1007/3-540-32137-3_6 SP - 26 EP - 30 PB - Springer Berlin Heidelberg ER - TY - CHAP A1 - Shi, Kuangyu A1 - Theisel, Holger A1 - Weinkauf, Tino A1 - Hauser, Helwig A1 - Hege, Hans-Christian A1 - Seidel, Hans-Peter T1 - Path line oriented topology for periodic 2D time-dependent vector fields T2 - Proc. Eurographics / IEEE VGTC Symposium on Visualization Y1 - 2006 SP - 139 EP - 146 CY - Lisbon, Portugal ER - TY - JOUR A1 - Weinkauf, Tino A1 - Theisel, Holger A1 - Hege, Hans-Christian A1 - Seidel, Hans-Peter T1 - Topological structures in two-parameter-dependent 2D vector fields JF - Computer Graphics Forum Y1 - 2006 U6 - https://doi.org/10.1111/j.1467-8659.2006.00980.x VL - 25 (3) SP - 607 EP - 616 ER - TY - CHAP A1 - Coconu, Liviu A1 - Deussen, Oliver A1 - Hege, Hans-Christian T1 - Real-time pen-and-ink illustration of landscapes T2 - NPAR '06: Proceedings of the 3rd International Symposium on Non-photorealistic Animation and Rendering Y1 - 2006 U6 - https://doi.org/10.1145/1124728.1124734 SP - 27 EP - 35 PB - ACM press CY - New York, NY, USA ER - TY - CHAP A1 - Schmidt-Ehrenberg, Johannes A1 - Hege, Hans-Christian T1 - Visual analysis of molecular conformations by means of a dynamic density mixture model T2 - Computational Life Sciences: First International Symposium, CompLife 2005 Y1 - 2005 VL - 3695 SP - 229 EP - 240 PB - Springer CY - Konstanz, Germany ER - TY - CHAP A1 - Kähler, Ralf A1 - Prohaska, Steffen A1 - Hutanu, Andrei A1 - Hege, Hans-Christian T1 - Visualization of time-dependent remote adaptive mesh refinement data T2 - Proc. IEEE Visualization 2005 Y1 - 2005 U6 - https://doi.org/10.1109/VISUAL.2005.1532793 SP - 175 EP - 182 CY - Minneapolis, USA ER - TY - CHAP A1 - Weinkauf, Tino A1 - Theisel, Holger A1 - Shi, Kuangyu A1 - Hege, Hans-Christian A1 - Seidel, Hans-Peter T1 - Topological simplification of 3D vector fields and extracting higher order critical points T2 - Proc. IEEE Visualization 2005 Y1 - 2005 SP - 631 EP - 638 CY - Minneapolis, USA ER - TY - CHAP A1 - Sahner, Jan A1 - Weinkauf, Tino A1 - Hege, Hans-Christian ED - Brodlie, K. ED - Duke, D. ED - Joy, K. T1 - Galilean invariant extraction and iconic representation of vortex core lines T2 - Proc. Eurographics / IEEE VGTC Symposium on Visualization (EuroVis ’05) Y1 - 2005 U6 - https://doi.org/10.2312/VisSym/EuroVis05/151-160 SP - 151 EP - 160 CY - Leeds, UK ER - TY - CHAP A1 - Theisel, Holger A1 - Sahner, Jan A1 - Weinkauf, Tino A1 - Hege, Hans-Christian A1 - Seidel, Hans-Peter T1 - Extraction of parallel vector surfaces in 3D time-dependent fields and application to vortex core line tracking T2 - Proc. IEEE Visualization 2005 Y1 - 2005 SP - 559 EP - 566 CY - Minneapolis, USA ER - TY - GEN A1 - Petz, Christoph A1 - Weinkauf, Tino A1 - Streckwall, Heinrich A1 - Salvatore, Franceso A1 - Noack, Bernd R. A1 - Hege, Hans-Christian T1 - Vortex Structures at a Rotating Ship Propeller Y1 - 2006 PB - Presented at the 24th Annual Gallery of Fluid Motion exhibit, held at the 59th Annual Meeting of the American Physical Society, Division of Fluid Dynamics, Tampa Bay ER - TY - JOUR A1 - Ziegler, Günter M. A1 - Hege, Hans-Christian A1 - Duda, Georg T1 - Neue Bilder für die Medizin? JF - DFN-Mitteilungen Y1 - 2005 VL - 13(3) SP - 163 EP - 167 ER - TY - GEN A1 - Hege, Hans-Christian T1 - Hintergrundinformationen zum Artikel ‘Neue Bilder für die Medizin?’ Y1 - 2005 PB - DFG-Research Center Matheon, Report, 19 pages ER - TY - CHAP A1 - Deussen, Oliver A1 - Colditz, Carsten A1 - Coconu, Liviu A1 - Hege, Hans-Christian ED - Bishop, Ian ED - Lange, Eckart T1 - Efficient modelling and rendering of landscapes T2 - Visualization in Landscape and Environmental Planning Y1 - 2005 SP - 56 EP - 61 PB - Spon Press CY - London ER - TY - CHAP A1 - Colditz, Carsten A1 - Coconu, Liviu A1 - Deussen, Oliver A1 - Hege, Hans-Christian ED - Buhmann, Erich ED - Paar, Philip ED - Bishop, Ian ED - Lange, Eckart T1 - Real-time rendering of complex photorealistic landscapes using hybrid level-of-detail approaches T2 - Trends in Real-Time Landscape Visualization and Participation Y1 - 2005 SP - 97 EP - 106 PB - Wichmann Verlag ER - TY - CHAP A1 - Coconu, Liviu A1 - Colditz, Carsten A1 - Hege, Hans-Christian A1 - Deussen, Oliver ED - Buhmann, Erich ED - Paar, Philip ED - Bishop, Ian ED - Lange, Eckart T1 - Seamless integration of stylized renditions in computer-generated landscape visualization T2 - Trends in Real-Time Landscape Visualization and Participation Y1 - 2005 SP - 88 EP - 96 PB - Wichmann Verlag CY - Heidelberg ER - TY - CHAP A1 - Clasen, Malte A1 - Hege, Hans-Christian ED - Buhmann, Erich ED - Paar, Philip ED - Bishop, Ian ED - Lange, Eckart T1 - Realistic illumination of vegetation in real-time environments T2 - Trends in Real-Time Landscape Visualization and Participation Y1 - 2005 SP - 107 EP - 114 PB - Wichmann Verlag ER - TY - JOUR A1 - Werner, Armin A1 - Deussen, Oliver A1 - Döllner, Jürgen A1 - Hege, Hans-Christian A1 - Paar, Philip A1 - Rekittke, Jörg ED - Buhmann, Erich ED - Paar, Philip ED - Bishop, Ian ED - Lange, Eckart T1 - Lenné 3D walking through landscape plan JF - Trends in Real-Time Landscape Visualization and Participation Y1 - 2005 SP - 48 EP - 59 PB - Wichmann Verlag ER - TY - CHAP A1 - Krämer, Martin A1 - Herrmann, Karl-Heinz A1 - Boeth, Heide A1 - Tycowicz, Christoph von A1 - König, Christian A1 - Zachow, Stefan A1 - Ehrig, Rainald A1 - Hege, Hans-Christian A1 - Duda, Georg A1 - Reichenbach, Jürgen T1 - Measuring 3D knee dynamics using center out radial ultra-short echo time trajectories with a low cost experimental setup T2 - ISMRM (International Society for Magnetic Resonance in Medicine), 23rd Annual Meeting 2015, Toronto, Canada Y1 - 2015 ER - TY - JOUR A1 - Egger, Robert A1 - Dercksen, Vincent J. A1 - Udvary, Daniel A1 - Hege, Hans-Christian A1 - Oberlaender, Marcel T1 - Generation of dense statistical connectomes from sparse morphological data JF - Frontiers in Neuroanatomy Y1 - 2014 U6 - https://doi.org/10.3389/fnana.2014.00129 VL - 8 IS - 129 ER - TY - GEN A1 - Lindow, Norbert A1 - Baum, Daniel A1 - Hege, Hans-Christian T1 - Ligand Excluded Surface: A New Type of Molecular Surface N2 - The most popular molecular surface in molecular visualization is the solvent excluded surface (SES). It provides information about the accessibility of a biomolecule for a solvent molecule that is geometrically approximated by a sphere. During a period of almost four decades, the SES has served for many purposes – including visualization, analysis of molecular interactions and the study of cavities in molecular structures. However, if one is interested in the surface that is accessible to a molecule whose shape differs significantly from a sphere, a different concept is necessary. To address this problem, we generalize the definition of the SES by replacing the probe sphere with the full geometry of the ligand defined by the arrangement of its van der Waals spheres. We call the new surface ligand excluded surface (LES) and present an efficient, grid-based algorithm for its computation. Furthermore, we show that this algorithm can also be used to compute molecular cavities that could host the ligand molecule. We provide a detailed description of its implementation on CPU and GPU. Furthermore, we present a performance and convergence analysis and compare the LES for several molecules, using as ligands either water or small organic molecules. T3 - ZIB-Report - 14-27 Y1 - 2014 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-51194 SN - 1438-0064 ER - TY - CHAP A1 - Pfister, Hanspeter A1 - Kaynig, Verena A1 - Botha, Charl P. A1 - Bruckner, Stefan A1 - Dercksen, Vincent J. A1 - Hege, Hans-Christian A1 - Roerdink, Jos B.T.M. ED - Hansen, Charles D. ED - Chen, Min ED - Johnson, Christopher R. ED - Kaufman, Arie E. ED - Hagen, Hans T1 - Visualization in Connectomics T2 - Scientific Visualization - Uncertainty, Multifield, Biomedical, and Scalable Visualization N2 - Connectomics is a branch of neuroscience that attempts to create a connectome, i.e., a complete map of the neuronal system and all connections between neuronal structures. This representation can be used to understand how functional brain states emerge from their underlying anatomical structures and how dysfunction and neuronal diseases arise. We review the current state-of-the-art of visualization and image processing techniques in the field of connectomics and describe a number of challenges. After a brief summary of the biological background and an overview of relevant imaging modalities, we review current techniques to extract connectivity information from image data at macro-, meso- and microscales. We also discuss data integration and neural network modeling, as well as the visualization, analysis and comparison of brain networks. Y1 - 2014 SN - 978-1-4471-6496-8 U6 - https://doi.org/10.1007/978-1-4471-6497-5_21 SP - 221 EP - 245 PB - Springer ER - TY - CHAP A1 - Bonneau, Georges-Pierre A1 - Hege, Hans-Christian A1 - Johnson, Chris R. A1 - Oliveira, Manuel M. A1 - Potter, Kristin A1 - Rheingans, Penny A1 - Schultz, Thomas T1 - Overview and State-of-the-Art of Uncertainty Visualization T2 - Scientific Visualization - Uncertainty, Multifield, Biomedical, and Scalable Visualization N2 - The goal of visualization is to effectively and accurately communicate data. Visualization research has often overlooked the errors and uncertainty which accompany the scientific process and describe key characteristics used to fully understand the data. The lack of these representations can be attributed, in part, to the inherent difficulty in defining, characterizing, and controlling this uncertainty, and in part, to the difficulty in including additional visual metaphors in a well designed, potent display. However, the exclusion of this information cripples the use of visualization as a decision making tool due to the fact that the display is no longer a true representation of the data. This systematic omission of uncertainty commands fundamental research within the visualization community to address, integrate, and expect uncertainty information. In this chapter, we outline sources and models of uncertainty, give an overview of the state-of-the-art, provide general guidelines, outline small exemplary applications, and finally, discuss open problems in uncertainty visualization. Y1 - 2014 SN - 978-1-4471-6496-8 U6 - https://doi.org/10.1007/978-1-4471-6497-5_1 SP - 3 EP - 27 PB - Springer ER - TY - JOUR A1 - Goubergrits, Leonid A1 - Spuler, Andreas A1 - Schaller, Jens A1 - Wiegmann, Nils A1 - Berthe, Andre A1 - Hege, Hans-Christian A1 - Affeld, Klaus A1 - Kertzscher, Ulrich T1 - In vitro study of hemodynamic treatment improvement: Hunterian ligation of a fenestrated basilar artery aneurysm after coiling JF - The International Journal of Artificial Organs N2 - Hunterian ligation affecting hemodynamics in vessels was proposed to avoid rebleeding in a case of a fenestrated basilar artery aneurysm after incomplete coil occlusion. We studied the hemodynamics in vitro to predict the hemodynamic changes near the aneurysm remnant caused by Hunterian ligation. A transparent model was fabricated based on three-dimensional rotational angiography imaging. Arteries were segmented and reconstructed. Pulsatile flow in the artery segments near the partially occluded (coiled) aneurysm was investigated by means of particle image velocimetry. The hemodynamic situation was investigated before and after Hunterian ligation of either the left or the right vertebral artery (LVA/RVA). Since post-ligation flow rate in the basilar artery was unknown, reduced and retained flow rates were simulated for both ligation options. Flow in the RVA and in the corresponding fenestra vessel is characterized by a vortex at the vertebrobasilar junction, whereas the LVA exhibits undisturbed laminar flow. Both options (RVA or LVA ligation) cause a significant flow reduction near the aneurysm remnant with a retained flow rate. The impact of RVA ligation is, however, significantly higher. This in vitro case study shows that flow reduction near the aneurysm remnant can be achieved by Hunterian ligation and that this effect depends largely on the selection of the ligated vessel. Thus the ability of the proposed in vitro pipe-line to improve hemodynamic impact of the proposed therapy was successfully proved. Y1 - 2014 U6 - https://doi.org/10.5301/ijao.5000314 VL - 37 IS - 4 SP - 325 EP - 335 ER - TY - CHAP A1 - Stoppel, Sergej A1 - Hege, Hans-Christian A1 - Wiebel, Alexander T1 - Visibility-driven depth determination of surface patches in direct volume rendering T2 - EuroVis - Short Papers 2014 N2 - This paper presents an algorithm called surfseek for selecting surfaces on the most visible features in direct volume rendering (DVR). The algorithm is based on a previously published technique (WYSIWYP) for picking 3D locations in DVR. The new algorithm projects a surface patch on the DVR image, consisting of multiple rays. For each ray the algorithm uses WYSIWYP or a variant of it to find the candidates for the most visible locations along the ray. Using these candidates the algorithm constructs a graph and computes a minimum cut on this graph. The minimum cut represents a visible and typically rather smooth surface. In the last step the selected surface is displayed. We provide examples for results using artificially generated and real-world data sets. Y1 - 2014 U6 - https://doi.org/10.2312/eurovisshort.20141164 SP - 97 EP - 101 ER - TY - JOUR A1 - Lindow, Norbert A1 - Baum, Daniel A1 - Hege, Hans-Christian T1 - Ligand Excluded Surface: A New Type of Molecular Surface JF - IEEE Transactions on Visualization and Computer Graphics N2 - The most popular molecular surface in molecular visualization is the solvent excluded surface (SES). It provides information about the accessibility of a biomolecule for a solvent molecule that is geometrically approximated by a sphere. During a period of almost four decades, the SES has served for many purposes – including visualization, analysis of molecular interactions and the study of cavities in molecular structures. However, if one is interested in the surface that is accessible to a molecule whose shape differs significantly from a sphere, a different concept is necessary. To address this problem, we generalize the definition of the SES by replacing the probe sphere with the full geometry of the ligand defined by the arrangement of its van der Waals spheres. We call the new surface ligand excluded surface (LES) and present an efficient, grid-based algorithm for its computation. Furthermore, we show that this algorithm can also be used to compute molecular cavities that could host the ligand molecule. We provide a detailed description of its implementation on CPU and GPU. Furthermore, we present a performance and convergence analysis and compare the LES for several molecules, using as ligands either water or small organic molecules. Y1 - 2014 U6 - https://doi.org/10.1109/TVCG.2014.2346404 VL - 20 IS - 12 SP - 2486 EP - 2495 ER - TY - JOUR A1 - Goubergrits, Leonid A1 - Schaller, Jens A1 - Kertzscher, Ulrich A1 - Petz, Christoph A1 - Hege, Hans-Christian A1 - Spuler, Andreas T1 - Reproducibility of Image-Based Analysis of Cerebral Aneurysm Geometry and Hemodynamics: An In-Vitro Study of Magnetic Resonance Imaging, Computed Tomography, and Three-Dimensional Rotational Angiography JF - Journal of Neurological Surgery, Part A: Central European Neurosurgery Y1 - 2013 U6 - https://doi.org/10.1055/s-0033-1342937 VL - 74 IS - 5 SP - 294 EP - 302 ER - TY - JOUR A1 - Sips, Mike A1 - Kothur, Patrick A1 - Unger, Andrea A1 - Hege, Hans-Christian A1 - Dransch, Doris T1 - A Visual Analytics Approach to Multiscale Exploration of Environmental Time Series JF - IEEE Transactions on Visualization and Computer Graphics N2 - We present a Visual Analytics approach that addresses the detection of interesting patterns in numerical time series, specifically from environmental sciences. Crucial for the detection of interesting temporal patterns are the time scale and the starting points one is looking at. Our approach makes no assumption about time scale and starting position of temporal patterns and consists of three main steps: an algorithm to compute statistical values for all possible time scales and starting positions of intervals, visual identification of potentially interesting patterns in a matrix visualization, and interactive exploration of detected patterns. We demonstrate the utility of this approach in two scientific scenarios and explain how it allowed scientists to gain new insight into the dynamics of environmental systems. Y1 - 2012 U6 - https://doi.org/10.1109/TVCG.2012.191 VL - 18 IS - 12 SP - 2899 EP - 2907 ER - TY - JOUR A1 - Weinkauf, Tino A1 - Hege, Hans-Christian A1 - Theisel, Holger T1 - Advected Tangent Curves: A General Scheme for Characteristic Curves of Flow Fields JF - Computer Graphics Forum N2 - We present the first general scheme to describe all four types of characteristic curves of flow fields – stream, path, streak, and time lines – as tangent curves of a derived vector field. Thus, all these lines can be obtained by a simple integration of an autonomous ODE system. Our approach draws on the principal ideas of the recently introduced tangent curve description of streak lines. We provide the first description of time lines as tangent curves of a derived vector field, which could previously only be constructed in a geometric manner. Furthermore, our scheme gives rise to new types of curves. In particular, we introduce advected stream lines as a parameter-free variant of the time line metaphor. With our novel mathematical description of characteristic curves, a large number of feature extraction and analysis tools becomes available for all types of characteristic curves, which were previously only available for stream and path lines. We will highlight some of these possible applications including the computation of time line curvature fields and the extraction of cores of swirling advected stream lines. Y1 - 2012 U6 - https://doi.org/10.1111/j.1467-8659.2012.03063.x VL - 31 IS - 2pt4 SP - 825 EP - 834 ER - TY - CHAP A1 - Heller, Markus O. A1 - Wurl, Alexander A1 - Perka, Carsten A1 - Hege, Hans-Christian T1 - In vivo gluteus medius volume and shape variations across gender and disease status BT - Proceedings of ESB2012 - 18th Congress of the European Society of Biomechanics, Lisbon, Portugal, 1–4 July 2012 T2 - Journal of Biomechanics Y1 - 2012 U6 - https://doi.org/10.1016/S0021-9290(12)70359-7 VL - 45, Suppl. 1 SP - S358 ER - TY - GEN A1 - Hoerth, Rebecca M. A1 - Baum, Daniel A1 - Knötel, David A1 - Prohaska, Steffen A1 - Willie, Bettina M. A1 - Duda, Georg A1 - Hege, Hans-Christian A1 - Fratzl, Peter A1 - Wagermaier, Wolfgang T1 - Registering 2D and 3D Imaging Data of Bone during Healing N2 - Purpose/Aims of the Study: Bone’s hierarchical structure can be visualized using a variety of methods. Many techniques, such as light and electron microscopy generate two-dimensional (2D) images, while micro computed tomography (μCT) allows a direct representation of the three-dimensional (3D) structure. In addition, different methods provide complementary structural information, such as the arrangement of organic or inorganic compounds. The overall aim of the present study is to answer bone research questions by linking information of different 2D and 3D imaging techniques. A great challenge in combining different methods arises from the fact that they usually reflect different characteristics of the real structure. Materials and Methods: We investigated bone during healing by means of μCT and a couple of 2D methods. Backscattered electron images were used to qualitatively evaluate the tissue’s calcium content and served as a position map for other experimental data. Nanoindentation and X-ray scattering experiments were performed to visualize mechanical and structural properties. Results: We present an approach for the registration of 2D data in a 3D μCT reference frame, where scanning electron microscopies serve as a methodic link. Backscattered electron images are perfectly suited for registration into μCT reference frames, since both show structures based on the same physical principles. We introduce specific registration tools that have been developed to perform the registration process in a semi-automatic way. Conclusions: By applying this routine, we were able to exactly locate structural information (e.g. mineral particle properties) in the 3D bone volume. In bone healing studies this will help to better understand basic formation, remodeling and mineralization processes. T3 - ZIB-Report - 15-01 Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-53426 SN - 1438-0064 ER - TY - GEN A1 - Egger, Robert A1 - Dercksen, Vincent J. A1 - Udvary, Daniel A1 - Hege, Hans-Christian A1 - Oberlaender, Marcel T1 - Generation of dense statistical connectomes from sparse morphological data N2 - Sensory-evoked signal flow, at cellular and network levels, is primarily determined by the synaptic wiring of the underlying neuronal circuitry. Measurements of synaptic innervation, connection probabilities and sub-cellular organization of synaptic inputs are thus among the most active fields of research in contemporary neuroscience. Methods to measure these quantities range from electrophysiological recordings over reconstructions of dendrite-axon overlap at light-microscopic levels to dense circuit reconstructions of small volumes at electron-microscopic resolution. However, quantitative and complete measurements at subcellular resolution and mesoscopic scales to obtain all local and long-range synaptic in/outputs for any neuron within an entire brain region are beyond present methodological limits. Here, we present a novel concept, implemented within an interactive software environment called NeuroNet, which allows (i) integration of sparsely sampled (sub)cellular morphological data into an accurate anatomical reference frame of the brain region(s) of interest, (ii) up-scaling to generate an average dense model of the neuronal circuitry within the respective brain region(s) and (iii) statistical measurements of synaptic innervation between all neurons within the model. We illustrate our approach by generating a dense average model of the entire rat vibrissal cortex, providing the required anatomical data, and illustrate how to measure synaptic innervation statistically. Comparing our results with data from paired recordings in vitro and in vivo, as well as with reconstructions of synaptic contact sites at light- and electron-microscopic levels, we find that our in silico measurements are in line with previous results. T3 - ZIB-Report - 14-43 KW - 3D neural network KW - Dense connectome KW - Reconstruction Y1 - 2014 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-53075 SN - 1438-0064 ER - TY - JOUR A1 - Hoerth, Rebecca M. A1 - Baum, Daniel A1 - Knötel, David A1 - Prohaska, Steffen A1 - Willie, Bettina M. A1 - Duda, Georg A1 - Hege, Hans-Christian A1 - Fratzl, Peter A1 - Wagermaier, Wolfgang T1 - Registering 2D and 3D Imaging Data of Bone during Healing JF - Connective Tissue Research Y1 - 2015 U6 - https://doi.org/10.3109/03008207.2015.1005210 VL - 56 IS - 2 SP - 133 EP - 143 PB - Taylor & Francis ER - TY - JOUR A1 - Cournia, Zoe A1 - Allen, Toby W. A1 - Andricioaei, Ioan A1 - Antonny, Bruno A1 - Baum, Daniel A1 - Brannigan, Grace A1 - Buchete, Nicolae-Viorel A1 - Deckman, Jason T. A1 - Delemotte, Lucie A1 - del Val, Coral A1 - Friedman, Ran A1 - Gkeka, Paraskevi A1 - Hege, Hans-Christian A1 - Hénin, Jérôme A1 - Kasimova, Marina A. A1 - Kolocouris, Antonios A1 - Klein, Michael L. A1 - Khalid, Syma A1 - Lemieux, Joanne A1 - Lindow, Norbert A1 - Roy, Mahua A1 - Selent, Jana A1 - Tarek, Mounir A1 - Tofoleanu, Florentina A1 - Vanni, Stefano A1 - Urban, Sinisa A1 - Wales, David J. A1 - Smith, Jeremy C. A1 - Bondar, Ana-Nicoleta T1 - Membrane Protein Structure, Function and Dynamics: A Perspective from Experiments and Theory JF - Journal of Membrane Biology Y1 - 2015 U6 - https://doi.org/10.1007/s00232-015-9802-0 VL - 248 IS - 4 SP - 611 EP - 640 ER - TY - JOUR A1 - Mücklich, Frank A1 - Webel, Johannes A1 - Aboulfadl, Hisham A1 - Lindow, Norbert A1 - Hege, Hans-Christian T1 - Correlative Tomography – Extraction of Reliable Information with Adequate Resolution from mm Scale Down to Sub-nm Scale JF - Microsc. Microanal. Y1 - 2014 U6 - https://doi.org/10.1017/S1431927614005911 VL - 20 IS - Suppl 3 SP - 838 EP - 839 ER - TY - CHAP A1 - Hege, Hans-Christian T1 - Visual analysis of molecular dynamics data using geometric and topological methods T2 - Forum "Math for Industry" 2014 Y1 - 2014 VL - 57 SP - 45 EP - 46 PB - Institute of Mathematics for Industry, Kyushu University CY - Fukuoka, Japan ER - TY - JOUR A1 - Günther, Tobias A1 - Kuhn, Alexander A1 - Hege, Hans-Christian A1 - Theisel, Holger T1 - MCFTLE: Monte Carlo Rendering of Finite-Time Lyapunov Exponent Fields JF - Computer Graphics Forum Y1 - 2016 U6 - https://doi.org/10.1111/cgf.12914 N1 - By mistake the fourth author Hans-Christian Hege has been ommitted in the journal publication VL - 35 IS - 3 SP - 381 EP - 390 ER - TY - CHAP A1 - Sagnol, Guillaume A1 - Hege, Hans-Christian A1 - Weiser, Martin T1 - Using sparse kernels to design computer experiments with tunable precision T2 - 22nd Intern. Conf. on Computational Statistics - COMPSTAT 2016, Oviedo, Spain, 23-26 August 2016, Proceedings ISBN 978-90-73592-36-0 Y1 - 2016 SP - 397 EP - 408 ER - TY - CHAP A1 - Coconu, Liviu A1 - Hege, Hans-Christian T1 - devEyes: Tangible Devices on Augmented Passive Surfaces T2 - TEI '17 Proceedings of the Eleventh International Conference on Tangible, Embedded, and Embodied Interaction, Yokohama, Japan, March 20 - 23, 2017 N2 - We present a novel approach to turn smartphones/ tablets into tangible near-surface devices with augmented reality (AR) capability on virtually any passive surface, like desks, tables and wallboards. A low-cost optoelectronic add-on for the device back camera enables position tracking on an almost invisible printable fiducial marker grid. This approach is promising in terms of adoption potential because it can be used anywhere with existing devices, requires no dedicated hardware installations and is applicable to a broad range of real-world applications. Y1 - 2017 U6 - https://doi.org/10.1145/3024969.3025065 SP - 409 EP - 411 ER - TY - JOUR A1 - Heinze, Rieke A1 - Dipankar, Anurag A1 - Henken, Cintia Carbajal A1 - Moseley, Christopher A1 - Sourdeval, Odran A1 - Trömel, Silke A1 - Xie, Xinxin A1 - Adamidis, Panos A1 - Ament, Felix A1 - Baars, Holger A1 - Barthlott, Christian A1 - Behrendt, Andreas A1 - Blahak, Ulrich A1 - Bley, Sebastian A1 - Brdar, Slavko A1 - Brueck, Matthias A1 - Crewell, Susanne A1 - Deneke, Hartwig A1 - Di Girolamo, Paolo A1 - Evaristo, Raquel A1 - Fischer, Jürgen A1 - Frank, Christopher A1 - Friederichs, Petra A1 - Göcke, Tobias A1 - Gorges, Ksenia A1 - Hande, Luke A1 - Hanke, Moritz A1 - Hansen, Akio A1 - Hege, Hans-Christian A1 - Hose, Corinna A1 - Jahns, Thomas A1 - Kalthoff, Norbert A1 - Klocke, Daniel A1 - Kneifel, Stefan A1 - Knippertz, Peter A1 - Kuhn, Alexander A1 - van Laar, Thriza A1 - Macke, Andreas A1 - Maurer, Vera A1 - Mayer, Bernhard A1 - Meyer, Catrin I. A1 - Muppa, Shravan K. A1 - Neggers, Roeland A. J. A1 - Orlandi, Emiliano A1 - Pantillon, Florian A1 - Pospichal, Bernhard A1 - Röber, Niklas A1 - Scheck, Leonhard A1 - Seifert, Axel A1 - Seifert, Patric A1 - Senf, Fabian A1 - Siligam, Pavan A1 - Simmer, Clemens A1 - Steinke, Sandra A1 - Stevens, Bjorn A1 - Wapler, Kathrin A1 - Weniger, Michael A1 - Wulfmeyer, Volker A1 - Zängl, Günther A1 - Zhang, Dan A1 - Quaas, Johannes T1 - Large-eddy simulations over Germany using ICON: a comprehensive evaluation JF - Quarterly Journal of the Royal Meteorological Society N2 - Large-eddy simulations (LES) with the new ICOsahedral Non-hydrostatic atmosphere model (ICON) covering Germany are evaluated for four days in spring 2013 using observational data from various sources. Reference simulations with the established Consortium for Small-scale Modelling (COSMO) numerical weather prediction model and further standard LES codes are performed and used as a reference. This comprehensive evaluation approach covers multiple parameters and scales, focusing on boundary-layer variables, clouds and precipitation. The evaluation points to the need to work on parametrizations influencing the surface energy balance, and possibly on ice cloud microphysics. The central purpose for the development and application of ICON in the LES configuration is the use of simulation results to improve the understanding of moist processes, as well as their parametrization in climate models. The evaluation thus aims at building confidence in the model's ability to simulate small- to mesoscale variability in turbulence, clouds and precipitation. The results are encouraging: the high-resolution model matches the observed variability much better at small- to mesoscales than the coarser resolved reference model. In its highest grid resolution, the simulated turbulence profiles are realistic and column water vapour matches the observed temporal variability at short time-scales. Despite being somewhat too large and too frequent, small cumulus clouds are well represented in comparison with satellite data, as is the shape of the cloud size spectrum. Variability of cloud water matches the satellite observations much better in ICON than in the reference model. In this sense, it is concluded that the model is fit for the purpose of using its output for parametrization development, despite the potential to improve further some important aspects of processes that are also parametrized in the high-resolution model. Y1 - 2017 U6 - https://doi.org/10.1002/qj.2947 VL - 143 IS - 702 SP - 69 EP - 100 ER - TY - JOUR A1 - Kozlíková, Barbora A1 - Krone, Michael A1 - Falk, Martin A1 - Lindow, Norbert A1 - Baaden, Marc A1 - Baum, Daniel A1 - Viola, Ivan A1 - Parulek, Julius A1 - Hege, Hans-Christian T1 - Visualization of Biomolecular Structures: State of the Art Revisited JF - Computer Graphics Forum N2 - Structural properties of molecules are of primary concern in many fields. This report provides a comprehensive overview on techniques that have been developed in the fields of molecular graphics and visualization with a focus on applications in structural biology. The field heavily relies on computerized geometric and visual representations of three-dimensional, complex, large and time-varying molecular structures. The report presents a taxonomy that demonstrates which areas of molecular visualization have already been extensively investigated and where the field is currently heading. It discusses visualizations for molecular structures, strategies for efficient display regarding image quality and frame rate, covers different aspects of level of detail and reviews visualizations illustrating the dynamic aspects of molecular simulation data. The survey concludes with an outlook on promising and important research topics to foster further success in the development of tools that help to reveal molecular secrets. Y1 - 2016 U6 - https://doi.org/10.1111/cgf.13072 VL - 36 IS - 8 SP - 178 EP - 204 ER - TY - GEN A1 - Günther, Tobias A1 - Kuhn, Alexander A1 - Hege, Hans-Christian A1 - Gross, Markus A1 - Theisel, Holger T1 - Progressive Monte-Carlo Rendering of Atmospheric Flow Features Across Scales T2 - 69th Annual Meeting of the APS Division of Fluid Dynamics, Gallery of Fluid Motion, Nov 20-22, 2016, Portland, OR, USA. N2 - To improve existing weather prediction and reanalysis capabilities, high-resolution and multi-modal climate data becomes an increasingly important topic. The advent of increasingly dense numerical simulation of atmospheric phenomena, provides new means to better understand dynamic processes and to visualize structural flow patterns that remain hidden otherwise. In the presented illustrations we demonstrate an advanced technique to visualize multiple scales of dense flow fields and Lagrangian patterns therein, simulated by state-of-the-art simulation models for each scale. They provide a deeper insight into the structural differences and patterns that occur on each scale and highlight the complexity of flow phenomena in our atmosphere. Y1 - 2016 U6 - https://doi.org/10.1103/APS.DFD.2016.GFM.P0030 ER - TY - CHAP A1 - Arlt, Tobias A1 - Lindow, Norbert A1 - Baum, Daniel A1 - Hilger, Andre A1 - Mahnke, Ingo A1 - Hege, Hans-Christian A1 - Lepper, Verena A1 - Siopi, Tzulia A1 - Mahnke, Heinz.Eberhard T1 - Virtual Access to Hidden Texts – Study of Ancient Papyri T2 - Eighth Joint BER II and BESSY II User Meeting, Dec 7-9, 2016, Berlin, Germany N2 - When physical unfolding/unrolling of papyri is not possible or too dangerous for preserving the precious object, tomographic approaches may be the ap- propriate alternative. Requirements are the resolution and the contrast to distinguish writing and substrate. The steps to be performed are the following: (1) Select the object of interest (archaeological arguments, cultural back- ground of the object, etc.). (2) Find the proper physical procedure, especially with respect to contrast, take the tomographic data, e.g. by absorption x-ray tomography. (3) Apply mathematical unfolding transformations to the tomographic data, in order to obtain a 2d-planar reconstruction of text. Y1 - 2016 ER - TY - CHAP A1 - Kuhn, Alexander A1 - Hege, Hans-Christian T1 - Object-based visualization and evaluation of cloud-resolving simulations T2 - Book of Abstracts, SCCS 2017 – Scaling Cascades in Complex Systems, Mar 27-29, 2017, Berlin, Germany N2 - Recent advances in high-resolution, cloud resolving simulation models pose several challenges towards respective analysis methodologies. To enable efficient comparison and validation of such models efficient, scalable, and informative diagnostic procedures are mandatory. In this talk, an object-based evaluation scheme based on the notion of scalar field topology will be presented. The presentation will cover the application of topological clustering procedures for object identification, tracking, and the retrieval of object-based statistics. The pro-posed methodology is shown to enable an advanced in-depth evaluation and visualization of high cloud-resolving models. Using a newly developed large-scale high-resolution model (i.e., HD(CP)2 ICON), it will be demonstrated that the presented procedures are applicable to assess the model performance compared to measurements (e.g., radar, satellite) and standard operational models (COSMO) at different domains and spatial scales. Y1 - 2017 ER - TY - CHAP A1 - Kuhn, Alexander A1 - Engelke, Wito A1 - Flatken, Markus A1 - Hege, Hans-Christian A1 - Hotz, Ingrid T1 - Topology-based Analysis for Multimodal Atmospheric Data of Volcano Eruptions T2 - Topological Methods in Data Analysis and Visualization IV Y1 - 2017 U6 - https://doi.org/10.1007/978-3-319-44684-4_2 SP - 35 EP - 50 PB - Springer CY - Cham, Schweiz ER -