2023
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| Nicolas Klenert, Verena Lepper, Daniel Baum |
A Local Iterative Approach for the Extraction of 2D Manifolds from Strongly Curved and Folded Thin-Layer Structures
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IEEE Transactions on Visualization and Computer Graphics, 2023 (accepted for publication) |
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| Sumit Kumar Vohra, Philipp Harth, Yasuko Isoe, Armin Bahl, Haleh Fotowat, Florian Engert, Hans-Christian Hege, Daniel Baum |
A Visual Interface for Exploring Hypotheses about Neural Circuits
|
IEEE Transactions on Visualization and Computer Graphics, 2023 (accepted for publication, preprint available as ZIB-Report 23-07) |
PDF (ZIB-Report)
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DOI
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| Evropi Toulkeridou, Carlos Enrique Gutierrez, Daniel Baum, Kenji Doya, Evan P. Economo |
Automated segmentation of insect anatomy from micro-CT images using deep learning
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Natural Sciences, 2023 (accepted for publication) |
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| Michael Brecht, Luke L. Longren, Lennart Eigen, Ani Shubitidze, Oliver Lieschnegg, Daniel Baum, John A. Nyakatura, Thomas Hildebrandt |
Dense Reconstruction of Elephant Trunk Musculature
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Current Biology, 2023 (accepted for publication) |
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| Anna Sterzik, Nils Lichtenberg, Michael Krone, Daniel Baum, Douglas W. Cunningham, Kai Lawonn |
Enhancing molecular visualization: Perceptual evaluation of line variables with application to uncertainty visualization
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Computers & Graphics, Vol.114, pp. 401-413, 2023 |
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DOI
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| Berit Zemann, Mai-Lee Van Le, Rob E. Sherlock, Daniel Baum, Kakani Katija, Thomas Stach |
Evolutionary traces of miniaturization in a giant – Comparative anatomy of brain and brain nerves in Bathochordaeus stygius (Tunicata, Appendicularia)
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Journal of Morphology, 284(7), 2023 |
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DOI
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| Lara Tomholt, Daniel Baum, Robert J. Wood, James C. Weaver |
High-throughput segmentation, data visualization, and analysis of sea star skeletal networks
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Journal of Structural Biology, 215(2), p. 107955, 2023 |
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DOI
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| Philipp Harth, Arco Bast, Jakob Troidl, Bjorge Meulemeester, Hanspeter Pfister, Johanna Beyer, Marcel Oberlaender, Hans-Christian Hege, Daniel Baum |
Rapid Prototyping for Coordinated Views of Multi-scale Spatial and Abstract Data: A Grammar-based Approach
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Eurographics Workshop on Visual Computing for Biology and Medicine (VCBM), 2023 |
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DOI
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| Giovani Bressan Fogalli, Sérgio Roberto Peres Line, Daniel Baum |
Segmentation of tooth enamel microstructure images using classical image processing and U-Net approaches
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Frontiers in Imaging, Vol.2, 2023 |
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DOI
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| Robert Kiewisz, Daniel Baum, Thomas Müller-Reichert, Gunar Fabig |
Serial-section electron tomography and quantitative analysis of the microtubule organization in 3D-reconstructed mitotic spindles
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Bio-protocol, 2023 (accepted for publication) |
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| Jan Boelts, Philipp Harth, Richard Gao, Daniel Udvary, Felipe Yanez, Daniel Baum, Hans-Christian Hege, Marcel Oberlaender, Jakob H. Macke |
Simulation-based inference for efficient identification of generative models in computational connectomics
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PLOS Computational Biology, 2023 (preprint available as ) |
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DOI
|
2022
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| Fidji Berio, Yann Bayle, Sylvie Agret, Daniel Baum, Nicolas Goudemand, Mélanie Debiais-Thibaud |
3D models related to the publication: Hide and seek shark teeth in Random Forests: Machine learning applied to Scyliorhinus canicula
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MorphoMuseuM, 2022 |
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DOI
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| Martha Paskin, Mason Dean, Daniel Baum, Christoph von Tycowicz |
A Kendall Shape Space Approach to 3D Shape Estimation from 2D Landmarks
|
Computer Vision -- ECCV 2022, pp. 363-379, 2022 |
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arXiv
DOI
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| Martha Paskin, Daniel Baum, Mason N. Dean, Christoph von Tycowicz |
A Kendall Shape Space Approach to 3D Shape Estimation from 2D Landmarks -- Source Code and Data
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2022 |
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DOI
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| Julius Mayer, Daniel Baum, Felix Ambellan, Christoph von Tycowicz |
A Soft-Correspondence Approach to Shape-based Disease Grading with Graph Convolutional Networks
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Proceedings of Machine Learning Research, pp. 85-95, Vol.194, 2022 |
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| Philipp Harth, Sumit Vohra, Daniel Udvary, Marcel Oberlaender, Hans-Christian Hege, Daniel Baum |
A Stratification Matrix Viewer for Analysis of Neural Network Data
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Eurographics Workshop on Visual Computing for Biology and Medicine (VCBM), 2022 |
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DOI
|
| Kaitlyn P Becker, Clark Teeple, Nicholas Charles, Yeonsu Jung, Daniel Baum, James C Weaver, L. Mahadevan, Robert J Wood |
Active entanglement enables stochastic, topological grasping
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PNAS, 119(42), p. e2209819119, 2022 |
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DOI
|
| Natalia Mikula, Tom Dörffel, Daniel Baum, Hans-Christian Hege |
An Interactive Approach for Identifying Structure Definitions
|
Computer Graphics Forum, 41(3), pp. 321-332, 2022 |
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arXiv
DOI
|
| Fidji Berio, Yann Bayle, Daniel Baum, Nicolas Goudemand, Mélanie Debiais-Thibaud |
Hide and seek shark teeth in Random Forests: Machine learning applied to Scyliorhinus canicula populations
|
PeerJ - Aquatic Biology, p. 10:e13575, 2022 |
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DOI
|
| Sarah Ehlers, Daniel Baum, Roland Mühlethaler, Hannelore Hoch, Peter Bräunig |
Large abdominal mechanoreceptive sense organs in small plant-dwelling insects
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Biology Letters, 18(4), 2022 |
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DOI
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| Alejandra Laguillo-Diego, Robert Kiewisz, Carlos Martí-Gómez, Daniel Baum, Thomas Müller-Reichert, Isabelle Vernos |
MCRS1 modulates the heterogeneity of microtubule minus-end morphologies in mitotic spindles
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Molecular Biology of the Cell, 34(1), 2022 |
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DOI
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| Lennart Eigen, Daniel Baum, Mason N. Dean, Daniel Werner, Jan Wölfer, John A. Nyakatura |
Ontogeny of a tessellated surface: carapace growth of the longhorn cowfish Lactoria cornuta
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Journal of Anatomy, 241(3), pp. 565-580, 2022 |
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DOI
|
| Benedikt Schmitt, Jürgen Titschack, Daniel Baum |
Polyp-Cavity Segmentation of Cold-Water Corals guided by Ambient Occlusion and Ambient Curvature
|
Eurographics Workshop on Visual Computing for Biology and Medicine (VCBM), 2022 |
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DOI
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| Robert Kiewisz, Gunar Fabig, William Conway, Daniel Baum, Daniel Needleman, Thomas Müller-Reichert |
Three-dimensional structure of kinetochore-fibers in human mitotic spindles
|
eLife, Vol.11, p. e75459, 2022 |
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DOI
|
| Noushin Hajarolasvadi, Vikram Sunkara, Sagar Khavnekar, Florian Beck, Robert Brandt, Daniel Baum |
Volumetric macromolecule identification in cryo-electron tomograms using capsule networks
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BMC Bioinformatics, 23(360), 2022 |
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DOI
|
2021
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| Evropi Toulkeridou, Carlos Enrique Gutierrez, Daniel Baum, Kenji Doya, Evan P. Economo |
Automated segmentation of insect anatomy from micro-CT images using deep learning
|
bioRxiv, 2021 |
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DOI
|
| Daniel Baum, Felix Herter, John Møller Larsen, Achim Lichtenberger, Rubina Raja |
Revisiting the Jerash Silver Scroll: a new visual data analysis approach
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Digital Applications in Archaeology and Cultural Heritage, Vol.21, p. e00186, 2021 |
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DOI
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| Sarah Ehlers, Andreas Wessel, Daniel Baum |
Segmentation of abdominal chordotonal organs based on semithin serial sections in the Rhododendron leafhopper Graphocephala fennahi (Cicadomorpha: Cicadellidae)
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2021 |
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DOI
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| Norbert Lindow, Florian Brünig, Vincent J. Dercksen, Gunar Fabig, Robert Kiewisz, Stefanie Redemann, Thomas Müller-Reichert, Steffen Prohaska, Daniel Baum |
Semi-automatic stitching of filamentous structures in image stacks from serial-section electron tomography
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Journal of Microscopy, 284(1), pp. 25-44, 2021 |
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DOI
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| Felix Herter, Hans-Christian Hege, Markus Hadwiger, Verena Lepper, Daniel Baum |
Thin-Volume Visualization on Curved Domains
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Computer Graphics Forum, 40(3), pp. 147-157, 2021 |
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2020
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| Ralf F. Ziesche, Tobias Arlt, Donal P. Finegan, Thomas M.M. Heenan, Alessandro Tengattini, Daniel Baum, Nikolay Kardjilov, Henning Markötter, Ingo Manke, Winfried Kockelmann, Dan J.L. Brett, Paul R. Shearing |
4D imaging of lithium-batteries using correlative neutron and X-ray tomography with a virtual unrolling technique
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Nature Communications, Vol.11, p. 777, 2020 |
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DOI
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| Maraike Willsch, Frank Friedrich, Daniel Baum, Ivo Jurisch, Michael Ohl |
A comparative description of the mesosomal musculature in Sphecidae and Ampulicidae (Hymenoptera, Apoidea) using 3D techniques
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Deutsche Entomologische Zeitschrift, 67(1), pp. 51-67, 2020 |
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DOI
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| Júlia Chaumel, Merlind Schotte, Joseph J. Bizzarro, Paul Zaslansky, Peter Fratzl, Daniel Baum, Mason N. Dean |
Co-aligned chondrocytes: Zonal morphological variation and structured arrangement of cell lacunae in tessellated cartilage
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Bone, Vol.134, p. 115264, 2020 (preprint available as ZIB-Report 20-04) |
PDF (ZIB-Report)
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DOI
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| Gerhard Scholtz, David Knötel, Daniel Baum |
D’Arcy W. Thompson’s Cartesian transformations: a critical evaluation
|
Zoomorphology, Vol.139, pp. 293-308, 2020 |
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DOI
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| Merlind Schotte, Júlia Chaumel, Mason N. Dean, Daniel Baum |
Image analysis pipeline for segmentation of a biological porosity network, the lacuno-canalicular system in stingray tesserae
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MethodsX, Vol.7, p. 100905, 2020 (preprint available as ZIB-Report 20-12) |
PDF (ZIB-Report)
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DOI
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| Gunther Mohr, Simon J. Altenburg, Alexander Ulbricht, Philipp Heinrich, Daniel Baum, Christiane Maierhofer, Kai Hilgenberg |
In-situ defect detection in laser powder bed fusion by using thermography and optical tomography – comparison to computed tomography
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Metals, 10(1), p. 103, 2020 |
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DOI
|
| Daniel Baum, Felix Herter, Verena Lepper |
Jerash Silver Scroll: Virtually Unfolded Volume
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figshare, 2020 |
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DOI
|
| Yannic Ege, Christian Foth, Daniel Baum, Christian S. Wirkner, Stefan Richter |
Making spherical-harmonics-based Geometric Morphometrics (SPHARM) approachable for 3D images containing large cavity openings using Ambient Occlusion - a study using hermit crab claw shape variability
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Zoomorphology, Vol.139, pp. 421-432, 2020 (preprint available as ZIB-Report 20-09) |
PDF (ZIB-Report)
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DOI
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| Ana Prates Soares, Daniel Baum, Bernhard Hesse, Andreas Kupsch, Bernd Müller, Paul Zaslansky |
Scattering and phase-contrast X-ray methods reveal damage to glass fibers in endodontic posts following dental bur trimming
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Dental Materials, 37(2), pp. 201-211, 2020 |
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DOI
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| Norbert Lindow, Florian Brünig, Vincent J. Dercksen, Gunar Fabig, Robert Kiewisz, Stefanie Redemann, Thomas Müller-Reichert, Steffen Prohaska, Daniel Baum |
Semi-automatic stitching of filamentous structures in image stacks from serial-section electron tomography
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bioRxiv, 2020 |
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DOI
|
| Heinz-Eberhard Mahnke, Tobias Arlt, Daniel Baum, Hans-Christian Hege, Felix Herter, Norbert Lindow, Ingo Manke, Tzulia Siopi, Eve Menei, Marc Etienne, Verena Lepper |
Virtual unfolding of folded papyri
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Journal of Cultural Heritage, Vol.41, pp. 264-269, 2020 (preprint available as ZIB-Report 19-44) |
PDF (ZIB-Report)
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DOI
|
2019
|
|
Daniel Baum
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An Evaluation of Color Maps for Visual Data Exploration
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Science in Color: Visualizing Achromatic Knowledge, Bettina Bock von Wülfingen (Ed.), De Gruyter: Berlin, pp. 147-161, 2019 (preprint available as ZIB-Report 19-42) |
PDF (ZIB-Report)
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| Daniel Baum, James C. Weaver, Igor Zlotnikov, David Knötel, Lara Tomholt, Mason N. Dean |
High-Throughput Segmentation of Tiled Biological Structures using Random-Walk Distance Transforms
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Integrative And Comparative Biology, 2019 (preprint available as ZIB-Report 19-33) |
PDF (ZIB-Report)
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DOI
|
| Norbert Lindow, Daniel Baum, Morgan Leborgne, Hans-Christian Hege |
Interactive Visualization of RNA and DNA Structures
|
IEEE Transactions on Visualization and Computer Graphics, 25(1), pp. 967-976, 2019 (preprint available as ZIB-Report 18-33) |
PDF (ZIB-Report)
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DOI
|
| John Nyakatura, Roxane Baumgarten, Daniel Baum, Heiko Stark, Dionisios Youlatos |
Muscle internal structure revealed by contrast-enhanced μCT and fibre recognition: The hindlimb extensors of an arboreal and a fossorial squirrel
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Mammalian Biology, Vol.99, pp. 71-80, 2019 |
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2018
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| Jürgen Titschack, Daniel Baum, Kei Matsuyama, Karin Boos, Claudia Färber, Wolf-Achim Kahl, Karsten Ehrig, Dietmar Meinel, Carmen Soriano, Stuart R. Stock |
Ambient occlusion – a powerful algorithm to segment shell and skeletal intrapores in computed tomography data
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Computers and Geosciences, Vol.115, pp. 75-87, 2018 (preprint available as ZIB-Report 18-14) |
PDF (ZIB-Report)
BibTeX
DOI
|
| Norbert Lindow, Daniel Baum, Hans-Christian Hege |
Atomic Accessibility Radii for Molecular Dynamics Analysis
|
Workshop on Molecular Graphics and Visual Analysis of Molecular Data, 2018, ISBN: 978-3-03868-061-1 (preprint available as ZIB-Report 18-18) |
PDF (ZIB-Report)
BibTeX
DOI
|
| Tobias Kramer, Matthias Noack, Daniel Baum, Hans-Christian Hege, Eric J. Heller |
Dust and gas emission from cometary nuclei: the case of comet 67P/Churyumov-Gerasimenko
|
Advances in Physics: X, 3(1), p. 1404436, 2018 (preprint available as ZIB-Report 17-78) |
PDF (ZIB-Report)
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DOI
|
| David Knötel, Carola Becker, Gerhard Scholtz, Daniel Baum |
Global and Local Mesh Morphing for Complex Biological Objects from microCT Data
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Eurographics Workshop on Visual Computing for Biology and Medicine (VCBM), pp. 179-183, 2018 (preprint available as ZIB-Report 18-53) |
PDF (ZIB-Report)
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DOI
|
2017
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| Ulrike Homberg, Daniel Baum, Steffen Prohaska, Jens Günster, Stefanie Krauß-Schüler |
Adapting trabecular structures for 3D printing: an image processing approach based on µCT data
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Biomedical Physics & Engineering Express, 3(3), 2017 (preprint available as ZIB-Report 17-26) |
PDF (ZIB-Report)
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DOI
|
| David Knötel, Ronald Seidel, Steffen Prohaska, Mason N. Dean, Daniel Baum |
Automated Segmentation of Complex Patterns in Biological Tissues: Lessons from Stingray Tessellated Cartilage
|
PLOS ONE, 2017 (preprint available as ZIB-Report 17-62) |
PDF (ZIB-Report)
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DOI
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| David Knötel, Ronald Seidel, Paul Zaslansky, Steffen Prohaska, Mason N. Dean, Daniel Baum |
Automated Segmentation of Complex Patterns in Biological Tissues: Lessons from Stingray Tessellated Cartilage (Supplementary Material)
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2017 |
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DOI
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| Amal Aboulhassan, Ronell Sicat, Daniel Baum, Olga Wodo, Markus Hadwiger |
Comparative Visual Analysis of Structure-Performance Relations in Complex Bulk-Heterojunction Morphologies
|
Computer Graphics Forum, 36(3), pp. 329-339, 2017 (preprint available as ZIB-Report 17-16) |
PDF (ZIB-Report)
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DOI
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| Daniel Baum, Norbert Lindow, Hans-Christian Hege, Verena Lepper, Tzulia Siopi, Frank Kutz, Kristin Mahlow, Heinz-Eberhard Mahnke |
Revealing hidden text in rolled and folded papyri
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Applied Physics A, 123(3), p. 171, 2017 (preprint available as ZIB-Report 17-02) |
PDF (ZIB-Report)
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DOI
|
2016
|
| Mason N. Dean, Ahmed Hosny, Ronald Seidel, Daniel Baum |
Biological strategies for fatique and wear avoidance: lessons from stingray skeletons and teeth
|
Poster, Tomography for Scientific Advancement symposium (ToScA), 2016 |
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| Daniel Baum, Jürgen Titschack |
Cavity and Pore Segmentation in 3D Images with Ambient Occlusion
|
EuroVis 2016 - Short Papers, 2016 (preprint available as ZIB-Report 16-17) |
PDF (ZIB-Report)
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DOI
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| Claudia Färber, Jürgen Titschack, Christine H. L. Schönberg, Karsten Ehrig, Karin Boos, Daniel Baum, Bernd Illerhaus, Ulla Asgaard, Richard G. Bromley, André Freiwald, Max Wisshak |
Long-term macrobioerosion in the Mediterranean Sea assessed by micro-computed tomography
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Biogeosciences, 13(11), pp. 3461-3474, 2016 |
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| Jürgen Titschack, Hiske G. Fink, Daniel Baum, Claudia Wienberg, Dierk Hebbeln, André Freiwald |
Mediterranean cold-water corals - an important regional carbonate factory?
|
The Depositional Record, 2(1), pp. 74-96, 2016 |
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DOI
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| Mason N. Dean, R. Seidel, David Knötel, K. Lyons, Daniel Baum, James C. Weaver, Peter Fratzl |
To build a shark: 3D tiling laws of tessellated cartilage
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Abstract in Integrative and Comparative Biology; conference Society of Integrative and Comparative Biology annual meeting, January 3-7, 2016, Portland, USA, Vol.56 (suppl 1), 2016 |
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| David Knötel, Ronald Seidel, Ahmed Hosny, Paul Zaslansky, James C. Weaver, Daniel Baum, Mason N. Dean |
Understanding the Tiling Rules of the Tessellated Mineralized Endoskeleton of Sharks and Rays
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Poster, Euro Bio-inspired Materials 2016, Potsdam, Germany, February 22 - 25, 2016, 2016 |
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| Tobias Arlt, Norbert Lindow, Daniel Baum, Andre Hilger, Ingo Mahnke, Hans-Christian Hege, Verena Lepper, Tzulia Siopi, Heinz.Eberhard Mahnke |
Virtual Access to Hidden Texts – Study of Ancient Papyri
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Eighth Joint BER II and BESSY II User Meeting, Dec 7-9, 2016, Berlin, Germany, 2016 |
BibTeX
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| Michael Krone, Barbora Kozlíková, Norbert Lindow, Marc Baaden, Daniel Baum, Julius Parulek, Hans-Christian Hege, Ivan Viola |
Visual Analysis of Biomolecular Cavities: State of the Art
|
Computer Graphics Forum, 35(3), pp. 527-551, 2016 (preprint available as ZIB-Report 16-42) |
PDF (ZIB-Report)
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DOI
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| Barbora Kozlíková, Michael Krone, Martin Falk, Norbert Lindow, Marc Baaden, Daniel Baum, Ivan Viola, Julius Parulek, Hans-Christian Hege |
Visualization of Biomolecular Structures: State of the Art Revisited
|
Computer Graphics Forum, 36(8), pp. 178-204, 2016 |
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DOI
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2015
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| Olaf Paetsch, Daniel Baum, Steffen Prohaska, Karsten Ehrig, Dietmar Meinel, Gino Ebell |
3D Corrosion Detection in Time-dependent CT Images of Concrete
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DIR-2015 Proceedings, 2015 |
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| Amal Aboulhassan, Daniel Baum, Olga Wodo, Baskar Ganapathysubramanian, Aram Amassian, Markus Hadwiger |
A Novel Framework for Visual Detection and Exploration of Performance Bottlenecks in Organic Photovoltaic Solar Cell Materials
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Computer Graphics Forum, 34(3), pp. 401-410, 2015 (preprint available as ZIB-Report 15-20) |
PDF (ZIB-Report)
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DOI
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| Jürgen Titschack, Daniel Baum, Ricardo De Pol-Holz, Matthias López Correa, Nina Forster, Sascha Flögel, Dierk Hebbeln, André Freiwald |
Aggradation and carbonate accumulation of Holocene Norwegian cold-water coral reefs
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Sedimentology, 62(7), pp. 1873-1898, 2015 |
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DOI
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| Jürgen Titschack, Daniel Baum |
Ambient occlusion - a powerful algorithm to segment skeletal intrapores and gastral cavities in dendrophyllid cold-water corals
|
Poster, 31st IAS Meeting of Sedimentology, 2015, June 22-25, Kraków, Poland, 2015 |
BibTeX
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| Tobias Kramer, Matthias Noack, Daniel Baum, Hans-Christian Hege, Eric J. Heller |
Homogeneous dust emission and jet structure near active cometary nuclei: the case of 67P/Churyumov-Gerasimenko
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2015 |
BibTeX
arXiv
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| Zoe Cournia, Toby W. Allen, Ioan Andricioaei, Bruno Antonny, Daniel Baum, Grace Brannigan, Nicolae-Viorel Buchete, Jason T. Deckman, Lucie Delemotte, Coral del Val, Ran Friedman, Paraskevi Gkeka, Hans-Christian Hege, Jérôme Hénin, Marina A. Kasimova, Antonios Kolocouris, Michael L. Klein, Syma Khalid, Joanne Lemieux, Norbert Lindow, Mahua Roy, Jana Selent, Mounir Tarek, Florentina Tofoleanu, Stefano Vanni, Sinisa Urban, David J. Wales, Jeremy C. Smith, Ana-Nicoleta Bondar |
Membrane Protein Structure, Function and Dynamics: A Perspective from Experiments and Theory
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Journal of Membrane Biology, 248(4), pp. 611-640, 2015 |
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DOI
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| Rebecca M. Hoerth, Daniel Baum, David Knötel, Steffen Prohaska, Bettina M. Willie, Georg N. Duda, Hans-Christian Hege, Peter Fratzl, Wolfgang Wagermaier |
Registering 2D and 3D Imaging Data of Bone during Healing
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Connective Tissue Research, 56(2), pp. 133-143, 2015 (preprint available as ZIB-Report 15-01) |
PDF (ZIB-Report)
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DOI
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| David Knötel, Ronald Seidel, James C. Weaver, Daniel Baum, Mason N. Dean |
Segmentation of the Tessellated Mineralized Endoskeleton of Sharks and Rays
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Poster, Tomography for Scientific Advancement symposium (ToScA), Manchester, UK, September 3 - 4, 2015, 2015 |
BibTeX
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| Kei Matsuyama, Jürgen Titschack, Daniel Baum, André Freiwald |
Two new species of erect Bryozoa (Gymnolaemata: Cheilostomata) and the application of non-destructive imaging methods for quantitative taxonomy
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Zootaxa, 4020(1), pp. 81-100, 2015 |
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DOI
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| Barbora Kozlikova, Michael Krone, Norbert Lindow, Martin Falk, Marc Baaden, Daniel Baum, Ivan Viola, Julius Parulek, Hans-Christian Hege |
Visualization of Biomolecular Structures: State of the Art
|
EuroVis 2015 STARS Proceedings, pp. 61-81, 2015 (preprint available as ZIB-Report 15-63) |
PDF (ZIB-Report)
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DOI
|
2014
|
| Jürgen Titschack, Daniel Baum |
Advanced computed tomography analyses of cold-water coral mound cores: new insights into mound formation processes
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Poster, 19th International Sedimentological Congress, Geneva, Switzerland, 2014, August 18 - 22, 2014 |
BibTeX
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| Britta Weber, Erin M. Tranfield, Johanna L. Höög, Daniel Baum, Claude Antony, Tony Hyman, Jean-Marc Verbavatz, Steffen Prohaska |
Automated stitching of microtubule centerlines across serial electron tomograms
|
PLoS ONE, p. e113222, 2014 (preprint available as ZIB-Report 14-41) |
PDF (ZIB-Report)
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DOI
|
| Ulrike Homberg, Daniel Baum, Alexander Wiebel, Steffen Prohaska, Hans-Christian Hege |
Definition, Extraction, and Validation of Pore Structures in Porous Materials
|
Topological Methods in Data Analysis and Visualization III, pp. 235-248, Peer-Timo Bremer, Ingrid Hotz, Valerio Pascucci, Ronald Peikert (Eds.), Springer, 2014 (preprint available as ZIB-Report 13-56) |
PDF (ZIB-Report)
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DOI
|
| Olaf Paetsch, Daniel Baum, Steffen Prohaska, Karsten Ehrig, Gino Ebell, Dietmar Meinel, Andreas Heyn |
Korrosionsverfolgung in 3D-computertomographischen Aufnahmen von Stahlbetonproben
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DGZfP-Jahrestagung 2014 Konferenzband, 2014 (preprint available as ZIB-Report 14-24) |
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PDF (ZIB-Report)
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| Norbert Lindow, Daniel Baum, Hans-Christian Hege |
Ligand Excluded Surface: A New Type of Molecular Surface
|
IEEE Transactions on Visualization and Computer Graphics, 20(12), pp. 2486-2495, 2014 (preprint available as ZIB-Report 14-27) |
PDF (ZIB-Report)
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DOI
|
| Ronald Seidel, David Knötel, Daniel Baum, James C. Weaver, Mason N. Dean |
Material and structural characterization of mineralized elasmobranch cartilage – lessons in repeated tiling patterns in mechanically loaded 3D objects
|
Poster, Tomography for Scientific Advancement symposium (ToScA), London, UK, September 1 - 3, 2014, 2014 |
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| Hannelore Hoch, Andreas Wessel, Manfred Asche, Daniel Baum, Felix Beckmann, Peter Bräunig, Karsten Ehrig, Roland Mühlethaler, Heinrich Riesemeier, Andreas Staude, Björn Stelbrink, Ekkehard Wachmann, Phyllis Weintraub, Benjamin Wipfler, Carsten Wolff, Mathias Zilch |
Non-Sexual Abdominal Appendages in Adult Insects Challenge a 300 Million Year Old Bauplan
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Current Biology, 24(1), pp. R16-R17, 2014 |
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DOI
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| Daniel Baum, Kristin Mahlow, Hans Lamecker, Stefan Zachow, Johannes Müller, Hans-Christian Hege |
The Potential of Surface-based Geometric Morphometrics for Evolutionary Studies: An Example using Dwarf Snakes (Eirenis)
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Abstract in DigitalSpecimen 2014, 2014 |
BibTeX
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| Stefanie Redemann, Britta Weber, Marit Möller, Jean-Marc Verbavatz, Anthony Hyman, Daniel Baum, Steffen Prohaska, Thomas Müller-Reichert |
The Segmentation of Microtubules in Electron Tomograms Using Amira
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Mitosis: Methods and Protocols, pp. 261-278, Springer, 2014 |
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DOI
|
2013
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| Olaf Paetsch, Daniel Baum, David Breßler, Karsten Ehrig, Dietmar Meinel, Steffen Prohaska |
3-D-Visualisierung und statistische Analyse von Rissen in mit Computer-Tomographie untersuchten Betonproben
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Tagungsband der DGZfP Jahrestagung 2013, 2013 |
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| Andrea Kratz, Daniel Baum, Ingrid Hotz |
Anisotropic Sampling of Planar and Two-Manifold Domains for Texture Generation and Glyph Distribution
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Transactions on Visualization and Computer Graphics (TVCG), Vol.19, pp. 1782-1794, 2013 |
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DOI
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| Norbert Lindow, Daniel Baum, Ana-Nicoleta Bondar, Hans-Christian Hege |
Exploring cavity dynamics in biomolecular systems
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BMC Bioinformatics, Vol.14, 2013 |
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2012
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| Olaf Paetsch, Daniel Baum, Karsten Ehrig, Dietmar Meinel, Steffen Prohaska |
Automated 3D Crack Detection for Analyzing Damage Processes in Concrete with Computed Tomography
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Proceedings of Conference on Industrial Computed Tomography, pp. 321-330, 2012 |
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| Alexander Rigort, David Günther, Reiner Hegerl, Daniel Baum, Britta Weber, Steffen Prohaska, Ohad Medalia, Wolfgang Baumeister, Hans-Christian Hege |
Automated segmentation of electron tomograms for a quantitative description of actin filament networks
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Journal of Structural Biology, Vol.177, pp. 135-144, 2012 |
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| Britta Weber, Garrett Greenan, Steffen Prohaska, Daniel Baum, Hans-Christian Hege, Thomas Müller-Reichert, Anthony Hyman, Jean-Marc Verbavatz |
Automated tracing of microtubules in electron tomograms of plastic embedded samples of Caenorhabditis elegans embryos
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Journal of Structural Biology, 178(2), pp. 129-138, 2012 |
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| Ulrike Homberg, Daniel Baum, Steffen Prohaska, Ute Kalbe, Karl Josef Witt |
Automatic Extraction and Analysis of Realistic Pore Structures from µCT Data for Pore Space Characterization of Graded Soil
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Proceedings of the 6th International Conference on Scour and Erosion (ICSE-6), pp. 345-352, 2012 |
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| Marco Klindt, Steffen Prohaska, Daniel Baum, Hans-Christian Hege |
Conveying Archaeological Contexts to Museum Visitors: Case Study Pergamon Exhibition
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VAST12: The 13th International Symposium on Virtual Reality, Archaeology and Intelligent Cultural Heritage - Short Papers, David Arnold, Jaime Kaminski, Franco Niccolucci, Andre Stork (Eds.), pp. 25-28, 2012 |
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| Norbert Lindow, Daniel Baum, Ana-Nicoleta Bondar, Hans-Christian Hege |
Dynamic Channels in Biomolecular Systems: Path Analysis and Visualization
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Proceedings of IEEE Symposium on Biological Data Visualization (biovis’12), pp. 99-106, 2012 |
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| Norbert Lindow, Daniel Baum, Hans-Christian Hege |
Interactive Rendering of Materials and Biological Structures on Atomic and Nanoscopic Scale
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Computer Graphics Forum, 31(3), pp. 1325-1334, 2012 |
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| Norbert Lindow, Daniel Baum, Hans-Christian Hege |
Perceptually Linear Parameter Variations
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Computer Graphics Forum, 31(2), pp. 535-544, 2012 |
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| Olaf Paetsch, Daniel Baum, Karsten Ehrig, Dietmar Meinel, Steffen Prohaska |
Vergleich automatischer 3D-Risserkennungsmethoden für die quantitative Analyse der Schadensentwicklung in Betonproben mit Computer-Tomographie
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Tagungsband der DACH Jahrestagung 2012, 2012 |
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| Marco Klindt, Daniel Baum, Steffen Prohaska, Hans-Christian Hege |
iCon.text – a customizable iPad app for kiosk applications in museum exhibitions
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EVA 2012 Berlin, pp. 150-155, 2012 (preprint available as ZIB-Report 13-07) |
PDF (ZIB-Report)
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2011
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| Ulrike Homberg, Daniel Baum, Steffen Prohaska |
Describing and Analyzing the Dual Structures of Porous Media
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Proc. 3D-Microstructure Meeting, Frank Mücklich, Philipp Slussallek, Katja Schladitz (Eds.), pp. 24-25, 2011 |
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| Britta Weber, Marit Möller, Jean-Marc Verbavatz, Daniel Baum, Hans-Christian Hege, Steffen Prohaska |
Fast Tracing of Microtubule Centerlines in Electron Tomograms
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BioVis 2011 Abstracts, 1st IEEE Symposium on Biological Data Visualization, 2011 |
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| Norbert Lindow, Daniel Baum, Hans-Christian Hege |
Voronoi-Based Extraction and Visualization of Molecular Paths
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IEEE Transactions on Visualization and Computer Graphics, 17(12), pp. 2025-2034, 2011 |
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2010
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| Norbert Lindow, Daniel Baum, Steffen Prohaska, Hans-Christian Hege |
Accelerated Visualization of Dynamic Molecular Surfaces
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Comput. Graph. Forum, Vol.29, pp. 943-952, 2010 |
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2007
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Daniel Baum
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A Point-Based Algorithm for Multiple 3D Surface Alignment of Drug-Sized Molecules
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Doctoral thesis, Freie Universität Berlin, Peter Deuflhard, Joachim Selbig (Advisors), 2007 |
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2006
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| Daniel Baum, Hans-Christian Hege |
A Point-matching based algorithm for 3D surface alignment of drug-sized molecules
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Computational Life Sciences II, Second International Symposium, CompLife 2006, Cambridge (UK), Sept. 2006, pp. 183-193, Vol.4216, Lecture Notes in Bioinformatics, 2006 |
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2005
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Daniel Baum
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Multiple semi-flexible 3D superposition of drug-sized molecules
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Computational Life Sciences: First International Symposium, CompLife 2005, pp. 198-207, Vol.3695, Lecture Notes on Computer Science, 2005 (preprint available as ZIB-Report 04-52) |
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2004
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Daniel Baum
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Finding All Maximal Cliques of a Family of Induced Subgraphs
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ZIB-Report 03-53 |
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2002
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| Johannes Schmidt-Ehrenberg, Daniel Baum, Hans-Christian Hege |
Visualizing Dynamic Molecular Conformations
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Proceedings of IEEE Visualization 2002, Robert J. Moorhead, Markus Gross, Kenneth I. Joy (Eds.), pp. 235-242, 2002 |
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2001
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| Johannes Schmidt-Ehrenberg, Daniel Baum, Hans-Christian Hege |
Visually stunning - Molecular conformations
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The Biochemist, 23(5), pp. 22-26, 2001 |
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1999
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| Daniel Runge |
Algorithms and Methods for the Visualization of Molecular Surfaces and Interfaces
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Master's thesis, Humboldt-Universität zu Berlin, Fachbereich für Informatik (W. Reisig) and ZIB (H.-C. Hege), 1999 |
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zib.de