TY - GEN A1 - Deuflhard, Peter A1 - Hege, Hans-Christian ED - Lepper, Verena ED - Deuflhard, Peter ED - Markschies, Christoph T1 - Raumtiefe in Malerei und Computergrafik T2 - Räume - Bilder - Kulturen N2 - Einführung: Die Tiefenwirkung dreidimensionaler Räume in einem zweidimensionalen Bild einzufangen, ist ein Faszinosum nahezu aller Kulturen der Menschheitsgeschichte. Der vorliegende Aufsatz folgt den Spuren dieses Faszinosums, vergleichend in der Malerei und der mathematisierten Computergrafik. Die Entdeckung der Zentralperspektive in der italienischen Renaissance zeigt bereits den engen Zusammenhang von Malerei und Mathematik. Auf der Suche nach Maltechniken, mit denen Raumtiefe bildnerisch dargestellt werden kann, beginnen wir in Kap. 2 mit einem chronologischen Gang durch verschiedene Epochen der europäischen Malerei. Hieraus abgeleitete Prinzipien, soweit sie im Rechner realisierbar scheinen, stellen wir in Kap. 3 am Beispiel moderner Methoden der mathematischen Visualisierung vor. Y1 - 2015 SN - 978-3-11-035993-0 SP - 33 EP - 46 PB - Walter De Gruyter ER - TY - CHAP A1 - Lamecker, Hans A1 - Zachow, Stefan T1 - Statistical Shape Modeling of Musculoskeletal Structures and Its Applications T2 - Computational Radiology for Orthopaedic Interventions N2 - Statistical shape models (SSM) describe the shape variability contained in a given population. They are able to describe large populations of complex shapes with few degrees of freedom. This makes them a useful tool for a variety of tasks that arise in computer-aided madicine. In this chapter we are going to explain the basic methodology of SSMs and present a variety of examples, where SSMs have been successfully applied. Y1 - 2016 SN - 978-3-319-23481-6 U6 - https://doi.org/10.1007/978-3-319-23482-3 VL - 23 SP - 1 EP - 23 PB - Springer ER - TY - JOUR A1 - Zachow, Stefan A1 - Heppt, Werner T1 - The Facial Profile JF - Facial Plastic Surgery N2 - Facial appearance in our societies is often associated with notions of attractiveness, juvenileness, beauty, success, and so forth. Hence, the role of facial plastic surgery is highly interrelated to a patient's desire to feature many of these positively connoted attributes, which of course, are subject of different cultural perceptions or social trends. To judge about somebody's facial appearance, appropriate quantitative measures as well as methods to obtain and compare individual facial features are required. This special issue on facial profile is intended to provide an overview on how facial characteristics are surgically managed in an interdisciplinary way based on experience, instrumentation, and modern technology to obtain an aesthetic facial appearance with harmonious facial proportions. The facial profile will be discussed within the context of facial aesthetics. Latest concepts for capturing facial morphology in high speed and impressive detail are presented for quantitative analysis of even subtle changes, aging effects, or facial expressions. In addition, the perception of facial profiles is evaluated based on eye tracking technology. Y1 - 2015 U6 - https://doi.org/10.1055/s-0035-1566132 VL - 31 IS - 5 SP - 419 EP - 420 ER - TY - JOUR A1 - Zahn, Robert A1 - Grotjohann, Sarah A1 - Ramm, Heiko A1 - Zachow, Stefan A1 - Putzier, Michael A1 - Perka, Carsten A1 - Tohtz, Stephan T1 - Pelvic tilt compensates for increased acetabular anteversion JF - International Orthopaedics N2 - Pelvic tilt determines functional orientation of the acetabulum. In this study, we investigated the interaction of pelvic tilt and functional acetabular anteversion (AA) in supine position. Y1 - 2015 U6 - https://doi.org/10.1007/s00264-015-2949-6 VL - 40 IS - 8 SP - 1571 EP - 1575 ER - TY - GEN 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 N2 - Many scientific applications deal with data from a multitude of different sources, e.g., measurements, imaging and simulations. Each source provides an additional perspective on the phenomenon of interest, but also comes with specific limitations, e.g. regarding accuracy, spatial and temporal availability. Effectively combining and analyzing such multimodal and partially incomplete data of limited accuracy in an integrated way is challenging. In this work, we outline an approach for an integrated analysis and visualization of the atmospheric impact of volcano eruptions. The data sets comprise observation and imaging data from satellites as well as results from numerical particle simulations. To analyze the clouds from the volcano eruption in the spatiotemporal domain we apply topological methods. Extremal structures reveal structures in the data that support clustering and comparison. We further discuss the robustness of those methods with respect to different properties of the data and different parameter setups. Finally we outline open challenges for the effective integrated visualization using topological methods. T3 - ZIB-Report - 16-03 KW - multi-modal, intergrated data analysis, topology Y1 - 2016 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-57043 SN - 1438-0064 ER - TY - GEN A1 - Günther, Andreas A1 - Lamecker, Hans A1 - Weiser, Martin ED - Pennec, X. ED - Joshi, S. ED - Nielsen, M. T1 - Direct LDDMM of Discrete Currents with Adaptive Finite Elements T2 - Proceedings of the Third International Workshop on Mathematical Foundations of Computational Anatomy - Geometrical and Statistical Methods for Modelling Biological Shape Variability N2 - We consider Large Deformation Diffeomorphic Metric Mapping of general $m$-currents. After stating an optimization algorithm in the function space of admissable morph generating velocity fields, two innovative aspects in this framework are presented and numerically investigated: First, we spatially discretize the velocity field with conforming adaptive finite elements and discuss advantages of this new approach. Second, we directly compute the temporal evolution of discrete $m$-current attributes. Y1 - 2011 SP - 1 EP - 14 ER - TY - CHAP A1 - Mukhopadhyay, Anirban A1 - Oksuz, Ilkay A1 - Bevilacqua, Marco A1 - Dharmakumar, Rohan A1 - Tsaftaris, Sotirios T1 - Data-Driven Feature Learning for Myocardial Segmentation of CP-BOLD MRI T2 - Functional Imaging and Modeling of the Heart N2 - Cardiac Phase-resolved Blood Oxygen-Level-Dependent (CP- BOLD) MR is capable of diagnosing an ongoing ischemia by detecting changes in myocardial intensity patterns at rest without any contrast and stress agents. Visualizing and detecting these changes require significant post-processing, including myocardial segmentation for isolating the myocardium. But, changes in myocardial intensity pattern and myocardial shape due to the heart’s motion challenge automated standard CINE MR myocardial segmentation techniques resulting in a significant drop of segmentation accuracy. We hypothesize that the main reason behind this phenomenon is the lack of discernible features. In this paper, a multi scale discriminative dictionary learning approach is proposed for supervised learning and sparse representation of the myocardium, to improve the myocardial feature selection. The technique is validated on a challenging dataset of CP-BOLD MR and standard CINE MR acquired in baseline and ischemic condition across 10 canine subjects. The proposed method significantly outperforms standard cardiac segmentation techniques, including segmentation via registration, level sets and supervised methods for myocardial segmentation. Y1 - 2015 U6 - https://doi.org/10.1007/978-3-319-20309-6_22 VL - 9126 SP - 189 EP - 197 PB - Springer ER - TY - CHAP A1 - Mukhopadhyay, Anirban A1 - Oksuz, Ilkay A1 - Bevilacqua, Marco A1 - Dharmakumar, Rohan A1 - Tsaftaris, Sotirios T1 - Unsupervised myocardial segmentation for cardiac MRI T2 - Medical Image Computing and Computer-Assisted Intervention -- MICCAI 2015 N2 - Though unsupervised segmentation was a de-facto standard for cardiac MRI segmentation early on, recently cardiac MRI segmentation literature has favored fully supervised techniques such as Dictionary Learning and Atlas-based techniques. But, the benefits of unsupervised techniques e.g., no need for large amount of training data and better potential of handling variability in anatomy and image contrast, is more evident with emerging cardiac MR modalities. For example, CP-BOLD is a new MRI technique that has been shown to detect ischemia without any contrast at stress but also at rest conditions. Although CP-BOLD looks similar to standard CINE, changes in myocardial intensity patterns and shape across cardiac phases, due to the heart’s motion, BOLD effect and artifacts affect the underlying mechanisms of fully supervised segmentation techniques resulting in a significant drop in segmentation accuracy. In this paper, we present a fully unsupervised technique for segmenting myocardium from the background in both standard CINE MR and CP-BOLD MR. We combine appearance with motion information (obtained via Optical Flow) in a dictionary learning framework to sparsely represent important features in a low dimensional space and separate myocardium from background accordingly. Our fully automated method learns background-only models and one class classifier provides myocardial segmentation. The advantages of the proposed technique are demonstrated on a dataset containing CP-BOLD MR and standard CINE MR image sequences acquired in baseline and ischemic condition across 10 canine subjects, where our method outperforms state-of-the-art supervised segmentation techniques in CP-BOLD MR and performs at-par for standard CINE MR. Y1 - 2015 U6 - https://doi.org/10.1007/978-3-319-24574-4_2 VL - LNCS 9351 SP - 12 EP - 20 ER - TY - CHAP A1 - Oksuz, Ilkay A1 - Mukhopadhyay, Anirban A1 - Bevilacqua, Marco A1 - Dharmakumar, Rohan A1 - Tsaftaris, Sotirios T1 - Dictionary Learning Based Image Descriptor for Myocardial Registration of CP-BOLD MR T2 - Medical Image Computing and Computer-Assisted Intervention -- MICCAI 2015 N2 - Cardiac Phase-resolved Blood Oxygen-Level-Dependent (CP- BOLD) MRI is a new contrast agent- and stress-free imaging technique for the assessment of myocardial ischemia at rest. The precise registration among the cardiac phases in this cine type acquisition is essential for automating the analysis of images of this technique, since it can potentially lead to better specificity of ischemia detection. However, inconsistency in myocardial intensity patterns and the changes in myocardial shape due to the heart’s motion lead to low registration performance for state- of-the-art methods. This low accuracy can be explained by the lack of distinguishable features in CP-BOLD and inappropriate metric defini- tions in current intensity-based registration frameworks. In this paper, the sparse representations, which are defined by a discriminative dictionary learning approach for source and target images, are used to improve myocardial registration. This method combines appearance with Gabor and HOG features in a dictionary learning framework to sparsely represent features in a low dimensional space. The sum of squared differences of these distinctive sparse representations are used to define a similarity term in the registration framework. The proposed descriptor is validated on a challenging dataset of CP-BOLD MR and standard CINE MR acquired in baseline and ischemic condition across 10 canines. Y1 - 2015 U6 - https://doi.org/10.1007/978-3-319-24571-3_25 VL - 9350 SP - 205 EP - 213 PB - Springer ER - TY - CHAP A1 - Saleh, Salah A1 - Sahu, Manish A1 - Zafar, Zuhair A1 - Berns, Karsten T1 - A Multimodal Nonverbal Human-robot Communication System T2 - VI International Conference on Computational Bioengineering N2 - Socially interactive robot needs the same behaviors and capabilities of human to be accepted as a member in human society. The environment, in which this robot should operate, is the human daily life. The interaction capabilities of current robots are still limited due to complex inter-human interaction system. Humans usually use different types of verbal and nonverbal cues in their communication. Facial expression and head movement are good examples of nonverbal cues used in feedback. This paper presents a biological inspired system for Human-Robot Interaction (HRI). This system is based on the interactive model of inter-human communication proposed by Schramm. In this model, the robot and its interaction partner can be send and receive information at the same time. For example, if the robot is talking, it also perceive the feedback of the human via his/her nonverbal cues. In this work, we are focusing on recognizing the facial expression of human. The proposed facial expression recognition technique is based on machine learning. Multi SVMs have been used to recognize the six basic emotions in addition to the neutral expression. This technique uses only the depth information, acquired by Kinect, of human face. Y1 - 2015 ER - TY - GEN A1 - Tack, Alexander A1 - Kobayashi, Yuske A1 - Gauer, Tobias A1 - Schlaefer, Alexander A1 - Werner, René T1 - Bewegungsfeldschätzung in artefaktbehafteten 4D-CT-Bilddaten: Vergleich von paar- und gruppenweiser Registrierung T2 - 21st Annual Meeting of the German-Society-for-Radiation-Oncology N2 - In der Strahlentherapie von Lungentumoren kann mittels Dosisakkumulation der Einfluss von Atembewegungen auf statisch geplante Dosisverteilungen abgeschätzt werden. Grundlage sind 4D-CT-Daten des Patienten, aus denen mittels nicht-linearer Bildregistrierung eine Sequenz von Bewegungsfeldern berechnet wird. Typischerweise werden Methoden der paarweisen Bildregistrierung eingesetzt, d.h. konsekutiv zwei Atemphasen aufeinander registriert. Hierbei erfolgt i.d.R. eine physiologisch nicht plausible Anpassung der Felder an CT-Bewegungsartefakte. Gruppenweise Registrierungsansätze berücksichtigen hingegen gleichzeitig sämtliche Bilddaten des 4D-CT-Scans und ermöglichen die Integration von zeitlichen Konsistenzbetrachtungen. In diesem Beitrag wird der potentielle Vorteil der gruppen- im Vergleich zur paarweisen Registrierung in artefaktbehafteten 4D-CT-Daten untersucht. Y1 - 2015 U6 - https://doi.org/10.1007/s00066-015-0847-x VL - Supplement 1 SP - 65 EP - 65 PB - Springer CY - Strahlentherapie und Onkologie ET - 191 ER - TY - GEN A1 - Titschack, Jürgen A1 - Baum, Daniel T1 - Advanced computed tomography analyses of cold-water coral mound cores: new insights into mound formation processes T2 - Poster, 19th International Sedimentological Congress, Geneva, Switzerland, 2014, August 18 - 22 Y1 - 2014 ER - TY - GEN A1 - Titschack, Jürgen A1 - Baum, Daniel T1 - Ambient occlusion - a powerful algorithm to segment skeletal intrapores and gastral cavities in dendrophyllid cold-water corals T2 - Poster, 31st IAS Meeting of Sedimentology, 2015, June 22-25, Kraków, Poland Y1 - 2015 ER - TY - JOUR A1 - Kasten, Jens A1 - Reininghaus, Jan A1 - Hotz, Ingrid A1 - Hege, Hans-Christian A1 - Noack, Bernd A1 - Daviller, Guillaume A1 - Morzyński, Marek T1 - Acceleration feature points of unsteady shear flows JF - Archives of Mechanics N2 - A framework is proposed for extracting features in 2D transient flows, based on the acceleration field to ensure Galilean invariance. The minima of the acceleration magnitude, i.e. a superset of the acceleration zeros, are extracted and discriminated into vortices and saddle points --- based on the spectral properties of the velocity Jacobian. The extraction of topological features is performed with purely combinatorial algorithms from discrete computational topology. The feature points are prioritized with persistence, as a physically meaningful importance measure. These features are tracked in time with a robust algorithm for tracking features. Thus a space-time hierarchy of the minima is built and vortex merging events are detected. The acceleration feature extraction strategy is applied to three two-dimensional shear flows: (1) an incompressible periodic cylinder wake, (2) an incompressible planar mixing layer and (3) a weakly compressible planar jet. The vortex-like acceleration feature points are shown to be well aligned with acceleration zeros, maxima of the vorticity magnitude, minima of pressure field and minima of λ2. Y1 - 2016 VL - 68 IS - 1 SP - 55 EP - 80 ER - TY - GEN A1 - Kasten, Jens A1 - Reininghaus, Jan A1 - Hotz, Ingrid A1 - Hege, Hans-Christian A1 - Noack, Bernd A1 - Daviller, Guillaume A1 - Morzyński, Marek T1 - Acceleration feature points of unsteady shear flows N2 - A framework is proposed for extracting features in 2D transient flows, based on the acceleration field to ensure Galilean invariance. The minima of the acceleration magnitude, i.e. a superset of the acceleration zeros, are extracted and discriminated into vortices and saddle points --- based on the spectral properties of the velocity Jacobian. The extraction of topological features is performed with purely combinatorial algorithms from discrete computational topology. The feature points are prioritized with persistence, as a physically meaningful importance measure. These features are tracked in time with a robust algorithm for tracking features. Thus a space-time hierarchy of the minima is built and vortex merging events are detected. The acceleration feature extraction strategy is applied to three two-dimensional shear flows: (1) an incompressible periodic cylinder wake, (2) an incompressible planar mixing layer and (3) a weakly compressible planar jet. The vortex-like acceleration feature points are shown to be well aligned with acceleration zeros, maxima of the vorticity magnitude, minima of pressure field and minima of λ2. T3 - ZIB-Report - 15-65 Y1 - 2015 U6 - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:0297-zib-58397 SN - 1438-0064 ER - TY - GEN A1 - Osterland, Marc A1 - Benn, Andreas A1 - Prohaska, Steffen A1 - Schütte, Christof T1 - Single Cell Tracking in Phase-Contrast Microscopy T2 - EMBL Symposium 2015 - Seeing is Believing - Imaging the Processes of Life N2 - In this work, we developed an automatic algorithm to analyze cell migration in chemotaxis assays, based on phase-contrast time-lapse microscopy. While manual approaches are still widely used in recent publications, our algorithm is able to track hundreds of single cells per frame. The extracted paths are analysed with traditional geometrical approaches as well as diffusion-driven Markov state models (MSM). Based on these models, a detailed view on spatial and temporal effects is possible. Using our new approach on experimental data, we are able to distinguish between directed migration (e.g. towards a VEGF gradient) and random migration without favored direction. A calculation of the committor probabilities reveals that cells of the whole image area are more likely to migrate directly towards the VEGF than away from it during the first four hours. However, in absence of a chemoattractant, cells migrate more likely to their nearest image border. These conclusions are supported by the spatial mean directions. In a next step, the cell-cell interaction during migration and the migration of cell clusters will be analyzed. Furthermore, we want to observe phenotypical changes during migration based on fluorescence microscopy and machine learning. The algorithm is part of a collaborative platform which brings the experimental expertise of scientists from life sciences and the analytical knowledge of computer scientists together. This platform is built using web-based technologies with a responsive real-time user interface. All data, including raw and metadata as well as the accompanying results, will be stored in a secure and scalable compute cluster. The compute cluster provides sufficient space and computational power for modern image-based experiments and their analyses. Specific versions of data and results can be tagged to keep immutable records for archival. Y1 - 2015 ER - TY - THES A1 - Schotte, Merlind T1 - Automatische Dickenbestimmung der mineralisierten Schicht in Skelettelementen von Knorpelfischen anhand von CT- Bilddaten N2 - Diese Bachelorarbeit beschäftigt sich mit der Entwicklung eines allgemeinen Verfahrens, welches die Dicke der mineralisierten Schicht von Haikieferelementen automatisch bestimmt. Dabei soll das Verfahren die Dicke näherungsweise im zweidimensionalen (2D) Raum sowie im dreidimensionalen (3D) Raum anhand von Computertomografie-Scans berechnen (im Folgenden als zweidimensionaler bzw. dreidimensionaler Fall bezeichnet). Es werden drei mögliche Verfahren eingeführt und im Anschluss auf ihre Verwendbarkeit analysiert. Für die Implementierung zur Dickenbestimmung wird der Kern der Rayburst Sampling Methode verwendet und im Weiteren für den 2D-Raum durch kleinere Optimierungen verbessert. Die Überprüfung der Genauigkeit des für den zweidimensionalen Fall entwickelten Programms erfolgt manuell. Für einen Vergleich im 3D-Raum wird ein zweites Verfahren programmiert, das auf der Berechnung der Isoflächen basiert. Diese Arbeit ist in den Bereich der angewandten Mathematik mit dem Schwerpunkt Informatik einzuordnen. Das entwickelte Programm wird im Anschluss Anwendung im Bereich der Biologie am Max-Planck-Institut für Grenzflächen- und Kolloidforschung Potsdam-Golm finden. Y1 - 2015 ER - TY - THES A1 - Weber, Britta T1 - Reconstruction of Microtubule Centerlines from Electron Tomograms N2 - The organization of the mitotic spindle, a structure that separates the chromosomes during cell division, is an active research topic in molecular cell biology. It is composed of microtubules, elongated tubular macromolecules with a diameter of 25 nm. The only volumetric imaging technique that is available to a wide community and provides the required resolution to capture details about microtubules is electron tomography. However, the automatic detection of microtubules in electron tomograms is a difficult task due to the low contrast of the data. Furthermore, thick samples have to be cut into 300 nm thin sections before electron tomography can be applied. Software for automatically segmentation and stitching of the microtubules are not available and therefore these tasks have to be performed manually. Unfortunately, manual segmentation is time consuming for large samples and manual stitching of the tomograms is often infeasible due to the lack of prominent features for registration. Conclusions drawn from electron tomographic data is currently mostly based on either small samples containing few microtubules or single sections of complex structures. Consequently, simple properties, such as the length of microtubules in the spindle or their number, are still unknown for most model organisms. In this thesis, we present methods for 1) an automatic segmentation of microtubule centerlines in electron tomograms, and 2) an automatic stitching of the lines extracted from serial sections. For the centerline segmentation, we use 3D template matching and exploit knowledge about shape of microtubules and microscopy artifacts to design the templates. For the registration of the lines, we present a way to model the orientation of lines as a mixture of Fisher-Mises distributions where we estimate transformation parameters with the expectation maximization algorithm. The final line matching problem is formulated in terms of a probabilistic graphical model. To find the correct correspondences of line ends, we use belief propagation. We handle the poor convergence properties of this algorithm by detecting ambiguous and conflicting assignments of lines automatically. An expert can then influence the final output of the algorithm by solving conflicts manually. A detailed error analysis on true biological data and assessment of the reliability of the results is the prerequisite for analyzing the resulting line representations of the microtubules. To this end, the developed workflow for segmenting and stitching of microtubule centerlines is evaluated on plasticembedded samples of C. elegans early embryos and of spindles from X. laevis egg extracts. Our results suggest that the output of the presented algorithms together with little manual correction is of sufficient quality to allow a detailed analysis of dense microtubule networks. Finally, we exemplarily show results for the centrosome of a C. elegans mitotic spindle. KW - microtubules KW - electron tomography KW - c.elegans KW - image processing KW - graphical model KW - gaussian mixture model KW - template matching Y1 - 2015 UR - http://www.diss.fu-berlin.de/diss/receive/FUDISS_thesis_000000100915 ER - TY - THES A1 - Pöthkow, Kai T1 - Modeling, Quantification and Visualization of Probabilistic Features in Fields with Uncertainties N2 - Eine grundlegende Eigenschaft von naturwissenschaftlichen Daten ist, dass der wahre Wert einer Größe nicht beliebig genau bestimmbar ist. Es ist lediglich möglich, ihn durch Intervalle einzugrenzen oder die Unsicherheit durch eine Wahrscheinlichkeitsverteilung zu charakterisieren. Dies gilt für alle reellwertigen Daten, sowohl für Mess-, als auch für Simulationsergebnisse. Beispiele sind Messungen von grundlegenden physikalischen Größen wie Geschwindigkeit oder auch langfristige Temperaturvorhersagen, die durch Klimamodelle berechnet werden. Die Unsicherheit von Ergebnissen ist eine wichtige Information, die in Natur- und Ingenieurwissenschaften häufig durch Konfidenzintervalle in 1D-Plots und Tabellen angezeigt wird. Im Gegensatz dazu ist es bisher bei der Visualisierung von 2D- und 3D-Daten mithilfe von Standardmethoden meist unmöglich, die Datenunsicherheit zu repräsentieren. Diese Arbeit stellt wahrscheinlichkeitstheoretisch fundierte Methoden vor, die die Analyse und Visualisierung von Skalar-, Vektor- und Tensorfeldern mit Unsicherheiten ermöglichen. Der Fokus liegt dabei auf der Extraktion von raumzeitlichen geometrischen und topologischen Merkmalen aus den Feldern (z.B. Isokonturen und kritische Punkte). Wir nutzen parametrische und nichtparametrische Zufallsfelder, um Variabilität und räumliche Korrelation mathematisch zu modellieren. Die Wahrscheinlichkeitsverteilungen werden aus Ensemble-Datensätzen geschätzt, die mehrere Simulationsergebnisse (z.B. basierend auf variierenden Simulationsparametern) zusammenfassen. Wir untersuchen die Konditionszahlen von Merkmalsextraktionsmethoden, um die Sensitivität, d.h. die Verstärkung oder Abschwächung der Unsicherheit der Ergebnisse relativ zu Unsicherheiten in den Eingangsdaten abzuschätzen. Wir stellen einen allgemeiner Ansatz für die probabilistische Merkmalsextraktion vor, der die Basis für die Berechnung räumlicher Wahrscheinlichkeitsverteilungen von verschiedenen Merkmalen in Skalar-, Vektor- und Tensorfeldern bildet. In diesem Framework werden Wahrscheinlichkeiten für die Existenz von Merkmalen aus lokalen Randverteilungen und formalen Merkmalsdefinitionen berechnet. Numerisch können die Wahrscheinlichkeiten durch Monte-Carlo­-Integration bestimmt werden. Um den hohen Rechenaufwand dieses Ansatzes zu vermeiden, schlagen wir schnelle Berechnungsmethoden vor, wobei Merkmalswahrscheinlichkeiten näherungsweise mit Hilfe von Surrogatfunktionen bzw. Lookup-Tabellen geschätzt werden. Die vorgeschlagenen Methoden werden anhand von Daten aus Klima- und Biofluidmechaniksimulationen sowie aus der medizinischen Bildgebung qualitativ und quantitativ evaluiert. KW - uncertainty quantification KW - feature extraction KW - probability Y1 - 2015 UR - http://www.diss.fu-berlin.de/diss/receive/FUDISS_thesis_000000099462?lang=en ER - TY - JOUR A1 - Zahn, Robert A1 - Grotjohann, Sarah A1 - Ramm, Heiko A1 - Zachow, Stefan A1 - Pumberger, Matthias A1 - Putzier, Michael A1 - Perka, Carsten A1 - Tohtz, Stephan T1 - Influence of pelvic tilt on functional acetabular orientation JF - Technology and Health Care Y1 - 2016 U6 - https://doi.org/10.3233/THC-161281 VL - 25 IS - 3 SP - 557 EP - 565 PB - IOS Press ER - TY - JOUR A1 - Lemanis, Robert A1 - Korn, Dieter A1 - Zachow, Stefan A1 - Rybacki, Erik A1 - Hoffmann, René T1 - The Evolution and Development of Cephalopod Chambers and Their Shape JF - PLOS ONE N2 - The Ammonoidea is a group of extinct cephalopods ideal to study evolution through deep time. The evolution of the planispiral shell and complexly folded septa in ammonoids has been thought to have increased the functional surface area of the chambers permitting enhanced metabolic functions such as: chamber emptying, rate of mineralization and increased growth rates throughout ontogeny. Using nano-computed tomography and synchrotron radiation based micro-computed tomography, we present the first study of ontogenetic changes in surface area to volume ratios in the phragmocone chambers of several phylogenetically distant ammonoids and extant cephalopods. Contrary to the initial hypothesis, ammonoids do not possess a persistently high relative chamber surface area. Instead, the functional surface area of the chambers is higher in earliest ontogeny when compared to Spirula spirula. The higher the functional surface area the quicker the potential emptying rate of the chamber; quicker chamber emptying rates would theoretically permit faster growth. This is supported by the persistently higher siphuncular surface area to chamber volume ratio we collected for the ammonite Amauroceras sp. compared to either S. spirula or nautilids. We demonstrate that the curvature of the surface of the chamber increases with greater septal complexity increasing the potential refilling rates. We further show a unique relationship between ammonoid chamber shape and size that does not exist in S. spirula or nautilids. This view of chamber function also has implications for the evolution of the internal shell of coleoids, relating this event to the decoupling of soft-body growth and shell growth. Y1 - 2016 U6 - https://doi.org/10.1371/journal.pone.0151404 VL - 11 IS - 3 ER - TY - GEN A1 - Knötel, David A1 - Seidel, Ronald A1 - Weaver, James C. A1 - Baum, Daniel A1 - Dean, Mason N. T1 - Segmentation of the Tessellated Mineralized Endoskeleton of Sharks and Rays T2 - Poster, Tomography for Scientific Advancement symposium (ToScA), Manchester, UK, September 3 - 4, 2015 N2 - The cartilaginous endoskeletons of sharks and rays are covered by tiles of mineralized cartilage called tesserae that enclose areas of unmineralized cartilage. These tesselated layers are vital to the growth as well as the material properties of the skeleton, providing both flexibility and strength. An understanding of the principles behind the tiling of the mineralized layer requires a quantitative analysis of shark and ray skeletal tessellation. However, since a single skeletal element comprises several thousand tesserae, manual segmentation is infeasible. We developed an automated segmentation pipeline that, working from micro-CT data, allows quantification of all tesserae in a skeletal element in less than an hour. Our segmentation algorithm relies on aspects we have learned of general tesseral morphology. In micro-CT scans, tesserae usually appear as round or star-shaped plate-like tiles, wider than deep and connected by mineralized intertesseral joints. Based on these observations, we exploit the distance map of the mineralized layer to separate individual tiles using a hierarchical watershed algorithm. Utilizing a two-dimensional distance map that measures the distance in the plane of the mineralized layer only greatly improves the segmentation. We developed post-processing techniques to quickly correct segmentation errors in regions where tesseral shape differs from the assumed shape. Evaluation of our results is done qualitatively by visual comparison with raw datasets, and quantitatively by comparison to manual segmentations. Furthermore, we generate two-dimensional abstractions of the tiling network based on the neighborhood, allowing representation of complex, biological forms as simpler geometries. We apply our newly developed techniques to the analysis of the left and right hyomandibulae of four ages of stingray enabling the first quantitative analyses of the tesseral tiling structure, while clarifying how these patterns develop across ontogeny. Y1 - 2015 ER - TY - GEN A1 - Knötel, David A1 - Seidel, Ronald A1 - Hosny, Ahmed A1 - Zaslansky, Paul A1 - Weaver, James C. A1 - Baum, Daniel A1 - Dean, Mason N. T1 - Understanding the Tiling Rules of the Tessellated Mineralized Endoskeleton of Sharks and Rays T2 - Poster, Euro Bio-inspired Materials 2016, Potsdam, Germany, February 22 - 25, 2016 N2 - The endoskeletons of sharks and rays are composed of an unmineralized cartilaginous core, covered in an outer layer of mineralized tiles called tesserae. The tessellated layer is vital to the growth as well as the material properties of the skeletal element, providing both flexibility and strength. However, characterizing the relationship between tesseral size and shape, and skeletal growth and mechanics is challenging because tesserae are small (a few hundred micrometers wide), anchored to the surrounding tissue in complex three-dimensional ways, and occur in huge numbers. Using a custom-made semi-automatic segmentation algorithm, we present the first quantitative and three-dimensional description of tesserae in micro-CT scans of whole skeletal elements. Our segmentation algorithm relies on aspects we have learned of general tesseral morphology. We exploit the distance map of the mineralized layer to separate individual tiles using a hierarchical watershed algorithm. Additionally, we have developed post-processing techniques to quickly correct segmentation errors. Our data reveals that the tessellation is not regular, with tesserae showing a great range of shapes, sizes and number of neighbors. This is partly region-dependent: for example, thick, columnar tesserae are arranged in series along convex edges with small radius of curvature (RoC), whereas more brick-or disc-shaped tesserae are found in planar areas. We apply our newly developed techniques on the left and right hyomandibula (skeletal elements supporting the jaws) from four different ages of a stingray species, to clarify how tiling patterns develop across ontogeny and differ within and between individuals. We evaluate the functional consequences of tesseral morphologies using finite element analysis and 3d-printing, for a better understanding of shark skeletal mechanics, but also to extract fundamental engineering design principles of tiling arrangements on load-bearing three-dimensional objects. Y1 - 2016 ER -