2018
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	Computers and Geosciences, Vol.115, pp. 75-87, 2018 (epub ahead of print, 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	ZIB-Report 18-18	PDF BibTeX URN
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) BibTeX DOI
2017
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	Biomedical Physics & Engineering Express, 3(3), 2017 (preprint available as ZIB-Report 17-26)	PDF (ZIB-Report) BibTeX 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) BibTeX DOI
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)	2017	BibTeX DOI
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) BibTeX DOI
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	Applied Physics A, 123(3), p. 171, 2017 (preprint available as ZIB-Report 17-02)	PDF (ZIB-Report) BibTeX 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	BibTeX
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) BibTeX DOI
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	Biogeosciences, 13(11), pp. 3461-3474, 2016	BibTeX DOI
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	BibTeX DOI
M. N. Dean, R. Seidel, D. Knötel, K. Lyons, D. Baum, J. C. Weaver, P. Fratzl	To build a shark: 3D tiling laws of tessellated cartilage	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	BibTeX
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	Poster, Euro Bio-inspired Materials 2016, Potsdam, Germany, February 22 - 25, 2016, 2016	BibTeX
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) BibTeX DOI
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	BibTeX DOI
2015
Olaf Paetsch, Daniel Baum, Steffen Prohaska, Karsten Ehrig, Dietmar Meinel, Gino Ebell	3D Corrosion Detection in Time-dependent CT Images of Concrete	DIR-2015 Proceedings, 2015	BibTeX
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	Computer Graphics Forum, 34(3), pp. 401-410, 2015 (preprint available as ZIB-Report 15-20)	PDF (ZIB-Report) BibTeX DOI
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	Sedimentology, 62(7), pp. 1873-1898, 2015	BibTeX DOI
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
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	2015	BibTeX arXiv
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	Journal of Membrane Biology, 248(4), pp. 611-640, 2015	BibTeX DOI
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	Connective Tissue Research, 56(2), pp. 133-143, 2015 (preprint available as ZIB-Report 15-01)	PDF (ZIB-Report) BibTeX DOI
David Knötel, Ronald Seidel, James C. Weaver, Daniel Baum, Mason N. Dean	Segmentation of the Tessellated Mineralized Endoskeleton of Sharks and Rays	Poster, Tomography for Scientific Advancement symposium (ToScA), Manchester, UK, September 3 - 4, 2015, 2015	BibTeX
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	Zootaxa, 4020(1), pp. 81-100, 2015	BibTeX DOI
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) BibTeX DOI
2014
Jürgen Titschack, Daniel Baum	Advanced computed tomography analyses of cold-water coral mound cores: new insights into mound formation processes	Poster, 19th International Sedimentological Congress, Geneva, Switzerland, 2014, August 18 - 22, 2014	BibTeX
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) BibTeX 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) BibTeX DOI
Olaf Paetsch, Daniel Baum, Steffen Prohaska, Karsten Ehrig, Gino Ebell, Dietmar Meinel, Andreas Heyn	Korrosionsverfolgung in 3D-computertomographischen Aufnahmen von Stahlbetonproben	DGZfP-Jahrestagung 2014 Konferenzband, 2014 (preprint available as ZIB-Report 14-24)	PDF PDF (ZIB-Report) BibTeX
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) BibTeX 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	BibTeX
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	Current Biology, 24(1), pp. R16-R17, 2014	BibTeX DOI
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)	Abstract in DigitalSpecimen 2014, 2014	BibTeX
Stefanie Redemann, Britta Weber, Marit Möller, Jean-Marc Verbavatz, Anthony A. Hyman, Daniel Baum, Steffen Prohaska, Thomas Müller-Reichert	The Segmentation of Microtubules in Electron Tomograms Using Amira	Mitosis: Methods and Protocols, pp. 261-278, Springer, 2014	BibTeX DOI
2013
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	Tagungsband der DGZfP Jahrestagung 2013, 2013	PDF BibTeX
Andrea Kratz, Daniel Baum, Ingrid Hotz	Anisotropic Sampling of Planar and Two-Manifold Domains for Texture Generation and Glyph Distribution	Transactions on Visualization and Computer Graphics (TVCG), Vol.19, pp. 1782-1794, 2013	BibTeX DOI
Norbert Lindow, Daniel Baum, Ana-Nicoleta Bondar, Hans-Christian Hege	Exploring cavity dynamics in biomolecular systems	BMC Bioinformatics, Vol.14, 2013	BibTeX DOI
2012
Olaf Paetsch, Daniel Baum, Karsten Ehrig, Dietmar Meinel, Steffen Prohaska	Automated 3D Crack Detection for Analyzing Damage Processes in Concrete with Computed Tomography	Proceedings of Conference on Industrial Computed Tomography, pp. 321-330, 2012	BibTeX
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	Journal of Structural Biology, Vol.177, pp. 135-144, 2012	BibTeX DOI
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	Journal of Structural Biology, 178(2), pp. 129-138, 2012	BibTeX DOI
Ulrike Homberg, Daniel Baum, Steffen Prohaska, Ute Kalbe, Karl Witt	Automatic Extraction and Analysis of Realistic Pore Structures from µCT Data for Pore Space Characterization of Graded Soil	Proceedings of the 6th International Conference on Scour and Erosion (ICSE-6), pp. 345-352, 2012	BibTeX
Marco Klindt, Steffen Prohaska, Daniel Baum, Hans-Christian Hege	Conveying Archaeological Contexts to Museum Visitors: Case Study Pergamon Exhibition	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	BibTeX DOI
Norbert Lindow, Daniel Baum, Ana-Nicoleta Bondar, Hans-Christian Hege	Dynamic Channels in Biomolecular Systems: Path Analysis and Visualization	Proceedings of IEEE Symposium on Biological Data Visualization (biovis’12), pp. 99-106, 2012	BibTeX DOI
Norbert Lindow, Daniel Baum, Hans-Christian Hege	Interactive Rendering of Materials and Biological Structures on Atomic and Nanoscopic Scale	Computer Graphics Forum, 31(3), pp. 1325-1334, 2012	BibTeX DOI
Norbert Lindow, Daniel Baum, Hans-Christian Hege	Perceptually Linear Parameter Variations	Computer Graphics Forum, 31(2), pp. 535-544, 2012	BibTeX DOI
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	Tagungsband der DACH Jahrestagung 2012, 2012	PDF BibTeX
Marco Klindt, Daniel Baum, Steffen Prohaska, Hans-Christian Hege	iCon.text – a customizable iPad app for kiosk applications in museum exhibitions	EVA 2012 Berlin, pp. 150-155, 2012 (preprint available as ZIB-Report 13-07)	PDF (ZIB-Report) BibTeX
2011
Ulrike Homberg, Daniel Baum, Steffen Prohaska	Describing and Analyzing the Dual Structures of Porous Media	Proc. 3D-Microstructure Meeting, Frank Mücklich, Philipp Slussallek, Katja Schladitz (Eds.), pp. 24-25, 2011	BibTeX
Britta Weber, Marit Möller, Jean-Marc Verbavatz, Daniel Baum, Hans-Christian Hege, Steffen Prohaska	Fast Tracing of Microtubule Centerlines in Electron Tomograms	BioVis 2011 Abstracts, 1st IEEE Symposium on Biological Data Visualization, 2011	BibTeX
Norbert Lindow, Daniel Baum, Hans-Christian Hege	Voronoi-Based Extraction and Visualization of Molecular Paths	IEEE Transactions on Visualization and Computer Graphics, 17(12), pp. 2025-2034, 2011	BibTeX DOI
2010
Norbert Lindow, Daniel Baum, Steffen Prohaska, Hans-Christian Hege	Accelerated Visualization of Dynamic Molecular Surfaces	Comput. Graph. Forum, Vol.29, pp. 943-952, 2010	BibTeX DOI
2007
Daniel Baum	A Point-Based Algorithm for Multiple 3D Surface Alignment of Drug-Sized Molecules	Doctoral thesis, Freie Universität Berlin, Peter Deuflhard, Joachim Selbig (Advisors), 2007	PDF BibTeX URN
2006
Daniel Baum, Hans-Christian Hege	A Point-matching based algorithm for 3D surface alignment of drug-sized molecules	Computational Life Sciences II, Second International Symposium, CompLife 2006, Cambridge (UK), Sept. 2006, pp. 183-193, Vol.4216, Lecture Notes in Bioinformatics, 2006	BibTeX DOI
2005
Daniel Baum	Multiple semi-flexible 3D superposition of drug-sized molecules	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)	PDF (ZIB-Report) BibTeX DOI
2004
Daniel Baum	Finding All Maximal Cliques of a Family of Induced Subgraphs	ZIB-Report 03-53	PDF BibTeX URN
2002
Johannes Schmidt-Ehrenberg, Daniel Baum, Hans-Christian Hege	Visualizing Dynamic Molecular Conformations	Proceedings of IEEE Visualization 2002, Robert J. Moorhead, Markus Gross, Kenneth I. Joy (Eds.), pp. 235-242, 2002	BibTeX DOI
2001
Johannes Schmidt-Ehrenberg, Daniel Baum, Hans-Christian Hege	Visually stunning - Molecular conformations	The Biochemist, 23(5), pp. 22-26, 2001	BibTeX
1999
Daniel Runge	Algorithms and Methods for the Visualization of Molecular Surfaces and Interfaces	Masters thesis, Humboldt-Universität zu Berlin, Fachbereich für Informatik (W. Reisig) and ZIB (H.-C. Hege), 1999	BibTeX