ModelGeneration: Staircase Detection… [more]
Benjamin Köhler won the third price for the Hugo Junkers Preis in the category “Foundational Research”. He presented his research tool for quantitative and qualitative analysis of 4D PC-MRI flow data.
Fotos: © Andreas Lander
Excellent Phd thesis defended: Benjamin Köhler completed his Phd-thesis „Guided Qualitative and Quantitative Analysis of Cardiac 4D PC-MRI data“. After winning the MedVis Award, the EG Medical Price, the BVM award and two Honorable mentions at VCBM, Ben also delivered an optimal performance at his oral defense leading to a „Summa Cum Laude“ result. The group prepared an extraordinary hat with a pumping heart and illuminated streamlines.
The paper from Sylvia Glaßer and colleagues “How to Evaluate Medical Visualizations on the Example of 3D Aneurysm Surfaces” was distinguished with the Honorable Mention Award at this years VCBM workshop in Bergen. Sylvia will be invited to submit an extended version of the paper to the Computer Graphics Forum journal.
We are glad that Dr. Gabriel Mistelbauer, TU Vienna joins our team. Gabriel brings a lot of experience in all parts of medical visualization, in particular in visualization of vasculature for diagnosis.
100th defense of a Master thesis in the Visualization group: Jean Michel Pape successfully defended his thesis on “Ein Klassifikationssystem zur quantitativen Analyse von Krankheitssymptomen im Kontext der Hochdurchsatz-Phänotypisierung von Pflanzen”. The work was carried out at the Leibniz Institute for Plant Genetics in Gatersleben; a nice piece of interdisciplinary work, typical for the Computational Visualistics degree programme that requires substantial understanding of plant biology and imaging in that area. Advanced cameras that also acquire near infrared light were employed to assess pathologies of plants.
“Visualization and Extraction of Carvings for Heritage Conservation” Kai Lawonn, Erik Trostmann, Bernhard Preim, Klaus Hildebrandt.
“Combined Visualization of Vessel Deformation and Hemodynamics in Cerebral Aneurysms” Monique Meuschke, Samuel Voss, Oliver Beuing, Bernhard Preim, Kai Lawonn.
We are looking forward to it!
Steffen Oeltze-Jafra defended his Postdoctoral lecture qualification on “Visual Analytics of Medical and Biological Data”. Steffen did a whole bunch of work on analyzing blood flow data, biological data and supervised also work on epidemiology data. With Jarke van Wijk and Thomas Ertl we had great reviewers to discuss all contributions carefully.
Paul Klemm successfully defended his Phd thesis on “Interactive Visual Analysis of Population Study Data”. Paul developed a couple of methods to enhance the hypothesis-driven workflow of epidemiologists adding data mining and visual analytics to their statistics-driven pipeline. We had a lively discussion with Silvia Miksch (Vienna Institute of Technology) and Daniel Weiskopf (University of Stuttgart) on many issues, including appropriate evaluation methods.
04/29/2016 Vis-Group at EuroVis
We are happy to announce that we will present two papers at this year's Eurographics Conference on Visualization (EuroVis) in Groningen, Netherlands.
“A Survey of Perceptually Motivated 3D Visualization of Medical Image Data” Bernhard Preim, Alexandra Baer, Timo Ropinski, Tobias Isenberg und Douglas Cunningham.
“Semi-automatic Vortex Flow Classification in 4D PC-MRI Data of the Aorta” Monique Meuschke, Benjamin Köhler, Uta Preim, Bernhard Preim, Kai Lawonn.
We are looking forward to it!
Benjamin Köhler has submitted his Phd thesis on the visual exploration and analysis of cardicac blood flow. In his thesis, Ben developed BloodLine, a comprehensive tool to preprocess and visualize 4D PC-MRI data with vortex detection, robust quantification of flow features, such as flow rate. BloodLine was developed in close cooperation with the Heart center Leipzig and is regularly used there. Ben's work is truly application-oriented and resulted in several prices including the MedVis-Award and the Eurographics Medical Price. Ben will stay with us and continue in the recently approved DFG project; extending BloodLine such that larger studies can be more efficiently analyzed.
We are very glad to announce that the German Research Foundation approved funding for our joint proposal with the Heart Center in Leipzig (Prof. Gutberlet, PD. Grothoff) and the Biometry department in Magdeburg (Prof. Kropf). The 2-year project serves as extension of our research on the visualization and analysis of cardiac blood flow measured with 4D phase-contrast MRI.
In a larger collective of patients and healthy volunteers we want to
obtain an improved understanding where the boundary between
physiological blood flow variations and pathologies is. The project also
comprises the acquisition of patient follow-ups. Their evaluation shall
help to better comprehend the evolution of the examined
diseases: Bicuspid aortic valves, with a prevalence of 1-2% the most
common aortic valve malformation, and tetralogy of Fallot, the most
common inherited cyanotic heart disease.
Kai Lawonn will be awarded with the Eurographics Phd Award at this year's Eurographics main conference in May for his thesis “Illustrative Visualization of Medical Datasets”. This prestigeous price is awarded to only two researchers.
11/03/2016: Virtual Anatomy – Explorative Study
We conducted our first explorative study for our BMWi funded project Virtual Anatomy together with our project partners Dornheim Medical Images GmbH and the Institute of Anatomy.
On February 16th and 18th, we invited ca. 20 medical students each day. After an assessment of their spatial ability, the students were split in two groups. Each group had to elaborate a medical scenario, one with an established approach, i.e., anatomy atlases, and the other with the application Dornheim Segmenter, respectively. After that, the students were tested on their abilities to label different structures on a body donor as well as recreate a medical region in a puzzle.
We thank all medical students for participation. This kind of a well planned and executed study with end users, was the first in our group. Now we are excited to analyze and interpret the results!
Steffen Oeltze-Jafra submitted his postdoctoral lecture thesis (“Habilitation”) on “Visual Analytics of Medical and Biological Data” summarizing his work on exploring blood flow data, toponome data and data from neuro science studies. It will be the first habilitation in our group.
Ivo Rössling, external Phd candidate of our group and staff member of Dornheim Medical Images successfully defended his Phd thesis “Vermessung von medizinischen Segmentierungen für die chirurgische Interventionsplanung und Dokumentation”. Ivo was actively involved in our long term cooperation with the University hospital Leipzig, being core developer of the TumorTherapyManager that is regularly used for Tumorboard meetings.
We are very happy that Pere-Pau Vazquez (associate professor from Barcelona) visits us. Pere-Pau is an expert in viewpoint selection, volume rendering and in particular perceptual enhancements of existing techniques. We are looking forward to his talk on “Instant Visualization of Molecular Simulation”.
Noeska Smit from Delft University of Technology is with us for a 10 day stay. Noeska is a specialist in medical visualization in general and in anatomy education in particular. She gave a talk on “The Virtual Surgical Pelvis”.
Welcome to Kai Nie, our new staff member from China. Kai will work on the visual analysis of perfusion data taking into account contrast agent dynamics, morphology and texture of suspicious tumors.
Paul Klemm has submitted his Phd thesis “Interactive Visual Analysis of Population Study Data”, an essential result from our DFG project together with Klaus Toennies and Henry Völzke from the University of Greifswald. This work was part of the DFG priority programme “Scaleable Visual Analytics”.
Our new staff member Monique Meuschke got a prestigeous award last Saturday. Having the best possible grades in all subjects, Monique was selected as the best graduate of all our six master programmes.
We welcome Nico Merten as new staff member working in the Research Campus SIMULATE. Before joining the Vis group Nico studied Computational Visualistics at Koblenz-Landau University.
15/10/2015: Invited talk
We are glad that Dr. Gabriel Mistelbauer, TU Wien accepted the invitation to give a talk in the Medical Technology colloquium. He will talk about “Advanced Vessel Visualization”
09/10/2015: Phd Thesis defended
Alexandra Baer defended here Phd thesis on “Perception-Guided Evaluation of 3D Medical Visualizations” successfully. Alexandra conducted a series of controlled perceptual studies related to emphasis techniques in medical visualization, depth perception with stereo and autostereoscopic devices and related to visualizations of vascular structures and internal flow. The thesis was reviewed by Timo Ropinski (Ulm University) and Douglas Cunningham (BTU Cottbus) and was graded with a Magna Cum Laude from all three reviewers.
07/10/2015: Project “Virtual Anatomy” funded
The new project “Virtual Anatomy”, funded by the Federal Ministry for Economic Affairs and Energy starts on October 1st. During the next 2.5 years, innovative concepts shall be developed and tested to modernize the anatomy education. For example, the body donors that are used by medical students for preparation training are scanned in high resolution such that the preparation can also be simulated virtually. While the body donors can only be used for a limited time, the virtual models are basically always available. One of the practical research questions is how to directly integrate the viewing and analysis of 3D models into the curriculum of the anatomy education.
The project is headed by Dornheim Medical Images. The company brings their competencies in the segmentation of medical image data. Furthermore, the Institute of Anatomy (Prof. Rothkötter) and the Visualization Group (Prof. Preim) of the University of Magdeburg are involved in the project. The developed solutions are tested and refined at the Institute of Anatomy. The Visualization Group supports the project with their experience in medical training systems and realizes innovative visualization techniques for the resulting complex data.
16/09/2015: Best Paper and Honorable Mention award at VCBM 2015!
We are delighted that our submission “A Survey of Cardiac 4D PC-MRI Data Processing” received the Honorable Mention award at the VCBM 2015 workshop. The survey paper was authored by Benjamin Köhler and was developed in cooperation with Silvia Born, University of Zürich, Roy van Pelt, Philips Heathcare, Eindhoven, as well as Uta Preim of the Municipal Hospital Magdeburg. Furthermore, our submission “Histology-Based Evaluation of Optical Coherence Tomographic Characteristics of the Cerebral Artery Wall via Virtual Inflating” won the best paper award! Sylvia Glaßer's work is the result of a novel cooperation between the visualization group, the Institute of Neuroradiology and the Institute of Pathology from the University hospital of Magdeburg and the Departments of Medical Engineering and Fluid Dynamics and Technical Flows from the University of Magdeburg. Both papers are invited to be extended as journal publication for the Computer Graphics Forum.
14/09/2015: We will present four papers at this year's VCBM!
We are happy to announce that we will present four papers at this year's Eurographics Workshop on Visual Computing for Biology and Medicine (EG VCBM) in Chester, UK.
“Histology-Based Evaluation of Optical Coherence Tomographic Characteristics of the Cerebral Artery Wall via Virtual Inflating” Glaßer, Sylvia; Hoffmann, Thomas; Boese, Axel; Voß, Samuel; Kalinski, Thomas ; Skalej, Martin; Preim, Bernhard.
“Exploration of 3D Medical Image Data for Interventional Radiology using Myoelectric Gesture Control” Hettig, Julian; Mewes, André; Riabikin, Oleksandr; Skalej, Martin; Preim, Bernhard; Hansen, Christian.
“A Survey of Cardiac 4D PC-MRI Data Processing” Köhler, Benjamin; Born, Silvia; van Pelt, Roy; Preim, Uta; Preim, Bernhard.
“Illustrative Multi-volume Rendering for PET/CT Scans” Lawonn, Kai; Smit, Noeska; Preim, Bernhard; Vilanova, Anna.
We are looking forward to it!
04/09/2015: Visiting Scientist in Norrköping and Linköping, Sweden
Steffen Oeltze-Jafra spends the entire September with the SciVis group headed by Anders Ynnerman at Linköping University. Steffen stays with the group in Norrköping but will also visit the Center for Medical Image Science and Visualization (CMIV) and Claes Lundström in Linköping.
We are happy to announce that we could spearhead and contribute to five papers being presented at this years IEEE VIS.
“3D Regression Heat Map Analysis of Population Study Data” Paul Klemm, Kai Lawonn, Sylvia Glaßer, Uli Niemann, Katrin Hegenscheid, Henry Völzke, Bernhard Preim.
“Occlusion-free Blood Flow Animation with Wall Thickness Visualization” Kai Lawonn, Sylvia Glaßer, Anna Vilanova, Bernhard Preim, Tobias Isenberg.
“Cluster Analysis of Vortical Flow in Simulations of Cerebral Aneurysm Hemodynamics” Steffen Oeltze-Jafra, Juan R. Cebral, Gábor Janiga, Bernhard Preim.
“Glyph-based Comparative Visualization for Diffusion Tensor Fields” Changgong Zhang, Thomas Schultz, Kai Lawonn, Elmar Eisemann, Anna Vilanova.
CG&A paper: “Interactive Visual Analysis of Heterogeneous Cohort Study Data” Paolo Angelelli, Steffen Oeltze, Judit Haász, Cagatay Turkay, Erlend Hodneland, Arvid Lundervold, Astri J. Lundervold, Bernhard Preim, Helwig Hauser
We look forward to the presentations!
30/07/2015: Excellent Master Thesis and Phd Thesis defended
Monique Meuschke provided an extraordinary Master thesis analyzing aortic blood flow data. Monique developed techniques to automatically classify vortices with respect to the stage in cardiac cycle (systolic, diastolic), to their extent (major and minor flow), flow direction, helical or vertical flow and the aortic section where the vortex occurs. All criteria are defined manually so far according to many clinical publications. Monique could develop methods that are quite robust and precise according to evaluations with real (pathologic patient data). The excellently written and presented thesis was judged with the highest possible grade by both reviewers. We are happy that Monique now joins the STIMULATE team, in particular the hemodynamics group.
Juliane Dinse external Phd student of the Vis group and staff member at MPI Leipzig defended her thesis. She dealt with neuroanatomical modelling looking for both the myeloarchitecture and the cytoarchitecture of human brains. She processed and analyzed histological images of human brains and 7 Tesla MR images using various theories and models to correlate them with each other. For this work, Juliane was awarded with a MICCAI Young Investigators award in 2013. This year she could publish a comprehensive paper in NeuroImage. Due to the excellent feedback from the external reviewers, both specialized in neurological image processing, Dorit Merhof (RWTH Aachen) and Guido Gerig who recently moved to New York the thesis was judged as “Summa Cum Laude”.
18/06/2015: MICCAI Accepted
Kai Lawonn lead a team that prepared for the MICCAI Conference “Illustrative Visualization of Vascular Models for Static 2D Representations” that was conditionally accepted. It is the first MICCAI paper since 2006 and the strongest paper together with Christian Hansen who recently joined as Faculty member for “Computer-Assisted Surgery”. This research extends the previous work of both groups on illustrative visualization and perception-based studies.”
20/05/2015: IEEE VIS-Tutorial “Rejuvenated Medical Visualization – Large-scale, whole-body visualization, visualizing physiology, non-standard imaging and simulations, and cohort studies” Accepted
We were notified and are delighted that our tutorial submission (lead by Steffen Oeltze-Jafra) for a half-day tutorial at this year's IEEE Visualization conference was accepted. Speakers are Anders Ynnerman, Stefan Bruckner and Helwig Hauser.
The book ” Interaktive Systeme Band 2: User Interface Engineering, 3D-Interaktion, Natural User Interfaces” authored by Bernhard Preim and Raimund Dachselt” appeared at Springer.
Juliane Dinse, external Phd student of the Vis group has submitted her Phd thesis entitled “A Model-based Cortical Parcellation Scheme for High-Resolution 7 Tesla MRI Data”. Juliane is a staff member of Max-Planck Institute for Human Cognitive and Brain Sciences in Leipzig. She works in the Neurobiology department. In her work, Juliane dealt with histological slices and ultra high resolution MRI data to come up with a method to model laminar myelin patterns in the human cortex based on the known cytoarchictecture. She was locally supervised by Robert Turner and Pierre-Louis Bezan.
Benjamin Köhler received the price for the best talk (among 46) at this year's German workshop on medical image processing for presenting the paper “Two-Dimensional Plot Visualization of Aortic Vortex Flow in Cardiac 4D PC-MRI Data”. This is joint work with Monique Meuschke from our group and physicians from three hospitals (M. Gutberlet, M. Grothof, Heart Center Leipzig), (K. Fischbach, University Hospital Magdeburg) and U. Preim (Hospital Magdeburg, Olvenstedt). The award is handed over to Ben by Prof. Thomas Tolxdorff, Free University Berlin”.
02/03/2015: Extended Internship in Delft
Kai Lawonn started an extended internship at Delft University of Technology and is now a temporary member of Anna Vilanova's group. Kai continues the cooperation that we started during Anna's time in Eindhoven when Rocco Gasteiger joint her team and Roy van Pelt, in exchange came to Magdeburg.
22/02/2015: Dirk Bartz Price for Visual Computing in Medicine
We were notified that one of our submissions for the Dirk Bartz Price was selected to be awarded at this year's Eurographics conference in May. The succesful team is lead by Benjamin Köhler and includes physicians from the Heart Center Leipzig (Matthias Gutberlet, Matthias Grothoff), from the University Hospital Magdeburg (Katharina Fischbach) and the Klinikum Olvenstedt (Uta Preim). Together they delevoped and tested new methods to analyze and visualize cardiac blood flow to support the diagnosis of cardiac diseases.
09/02/2015: MICCAI-Tutorial “Highlights in Medical Visualization” Accepted
We were notified that our tutorial submission (lead by Anna Vilanova and Bernhard Preim) for a Full Day tutorial at this year's MICCAI conference was accepted. Speakers include Anders Ynnerman, Eduard Gröller, Stefan Bruckner and Timo Ropinski.
01/02/2015: New funding period for the research campus STIMULATE
A new 5-year period of funding for interventional radiology and related technical developments starts today in the framework of the research campus SIMULATE. Our group is involved in two subprojects: “image analysis and visualization” (for planning interventions) where we take the lead as well as hemodynamics/tools, where stents and related devices are developed for improving treatment of vascular diseases.
31/01/2015: Full-Day tutorial “Highlights in Medical Visualization” at MICCAI
We initiated a tutorial submission together with Anna Vilanova, TU Delft for a full day tutorial including a panel discussion at MICCAI. Tutorial speakers include Stefan Bruckner (Bergen), Katja Bühler (Vienna), Eduard Gröller (Vienna), Markus Hadwiger (KAUST), Bernhard Kainz (London) Thomas Schultz (Bonn), Rüdiger Westermann (Munich), Anders Ynnerman (Linköping).
19/01/2015: We present new surveys!
We submitted two surveys to the electronic archive arXiv. The first survey Feature Lines for Illustrating Medical Surface Models: Mathematical Background and Survey written by Kai Lawonn and Bernhard Preim is about feature lines. Here, several feature line methods are presented and analyzed. Furthermore, this survey provides also the discrete differential geometry background, which is necessary for understanding the feature line concepts.
The second survey by Bernhard Preim et al. was a joint work with the visualization group of Bergen headed by Helwig Hauser, the image processing group headed by Klaus Tönnies, and Henry Völzke the head of the study of health in Pomerania. The survey Visual Analytics of Image-Centric Cohort Studies in Epidemiology discusses cohort studies and how they can be evaluated with visual analytics.
18/12/2014: TVCG article on clustering blood flow receives attention at NeuroNews!
We are proud that our article "Blood Flow Clustering and Applications in Virtual Stenting of Intracranial Aneurysms", which appeared this year in IEEE Transactions on Visualization and Computer Graphics and was authored by Steffen Oeltze, Dirk J. Lehmann, Alexander Kuhn, Gabor Janiga, Holger Theisel, and Bernhard Preim, has been recognized by NeuroNews. The accompanying video of our article was embedded in their web page.
Kai Lawonn was selected as best Phd student of the university (joint first price with a student from mechanical engineering). The award ceremony took place at Johannes church.”
01/10/2014: Release of the Dornheim Segmenter
After many years of development the Dornheim Segmenter (http://www.segmenter.de/) is now released as a product by our Spin-Off Company Dornheim Medical Images. It is based on research in our group primarily in computer-assisted ENT surgery. Former members of the group, such as Jana Dornheim, Kerstin Kellermann and Tobias Mönch contributed a lot.
01/10/2014: Best Phd Thesis Award
The Phd thesis of Kai Lawonn was selected the best Phd thesis of the Faculty in the academic year (1. 10. 2013 - 30. 9. 2014).
22/09/2014: Outstanding Phd Thesis Defended
Kai Lawonn has successfully defended his Phd thesis on “Illustrative Visualization of Medical Datasets” September, 15. Kai made a number of contributions related to feature lines applied to medical surface meshes. A systematic comparison of existing techniques, the development of new techniques, bridging between feature lines and hatchings, new applications in virtual endoscopy and molecular dynamics. Also for visualizing vascular surfaces along with internal blood flow Kai could strongly improve over existing methods. All this was accomplished in only 2.5 years. The Phd committee rated his performance as “Summa cum laude”.
20/08/2014: We will present four papers at this year's VCBM!
We are happy to announce that we will present four papers at this year's Eurographics Workshop on Visual Computing for Biology and Medicine (EG VCBM) in Vienna, Austria.
“A Comparative User Study of a 2D and an Autostereoscopic 3D Display for a Tympanoplastic Surgery” Alexandra Baer, Antje Huebler, Patrick Saalfeld, Douglas Cunningham, Bernhard Preim.
“Robust Cardiac Function Assessment in 4D PC-MRI Data” Benjamin Köhler, Uta Preim, Matthias Gutberlet, Katharina Fischbach, Bernhard Preim.
“Survey of Labeling Techniques in Medical Visualizations” Steffen Oeltze-Jafra, Bernhard Preim.
“Interactive Labeling of Toponome Data” Steffen Oeltze-Jafra, Franz Pieper, Reyk Hillert, Bernhard Preim, Walter Schubert.
We are looking forward to it!
15/03/2013: 10 Jahre AG Visualisierung
09/18/2010: “Karl-Heinz-Höhne MedVis-Award”
“Nachwuchswissenschaftler für ihre Arbeit geehrt - Computerunterstützung für die klinische Anwendung”
Die Fachgruppe “Visual Computing in der Medizin” der Gesellschaft für Informatik vergibt am 18. November 2010 zum vierten Mal den Karl-Heinz-Höhne MedVis-Award, für den das Münchener Medizintechnikunternehmen BrainLAB AG das Preisgeld stiftete.
Ausgezeichnet wurden Nachwuchswissenschaftler, die mit ihren Arbeiten einen wichtigen Beitrag für die Nutzung bildgebender Verfahren in der Diagnostik und Therapie geleistet haben. Eine Jury aus 15 Experten, geleitet von Bernhard Preim (Universität Magdeburg) und Stefan Zachow (Zuse-Institut Berlin) hat die 18 eingereichten Arbeiten sorgfältig bewertet und verglichen.
Mit dem 1. Preis wird Christian Dick, Technische Universität München geehrt. Ihm ist es gelungen, biomechanische Simulationen mit der interaktiven Darstellung von CT-Daten zu kombinieren, um damit orthopädische Operationen, speziell an der Hüfte besser planen zu können. Seine Simulationsmethode nutzt dabei die programmierbare Grafikhardware und ist dadurch um Größenordnungen schneller als bisherige Verfahren - so dass die Simulationen erstmals direkt im Rahmen einer interaktiven Planung eingesetzt werden können.
Mit dem 2. Preis wurde Christian Rieder, Fraunhofer MEVIS Bremen, geehrt. Seine Arbeit dient vor allem der Planung von Tumoroperationen im Gehirn und an der Leber. Er kombiniert dabei verschiedene Darstellungstechniken geschickt und ermöglicht so, die Integration aller relevanten Informationen in aussagekräftigen 3D-Visualisierungen. So sehen die Mediziner z.B. besser, wie sie eine Applikatornadel platzieren können, die den Tumor durch Wärmewirkung bei Anwendung der Radiofrequenztherapie zerstören soll.
Aufgrund der besonders hohen Qualität der eingereichten Beiträge wurden zwei 3. Preise vergeben.
Dagmar Kainmüller vom Zuse-Institut Berlin wird für ihre Arbeit zur automatischen Segmentierung von anatomischen Strukturen ausgezeichnet. Vereinfacht gesagt, gelingt es ihr durch eine komplizierte mathematische Modellierung von anatomischen Formen und Bildinformationen, eine Struktur, z.B. ein Organ in einem Datensatz automatisch korrekt abzugrenzen. Solche Segmentierungsmethoden sind meist die Voraussetzung für die Generierung aussagekräftiger Visualisierungen der 3D-Anatomie.
Konrad Mühler, Universität Magdeburg, hat eine Vielzahl von Algorithmen, z.B. zur automatischen Beschriftung von medizinischen 3D-Modellen entwickelt und in eine frei verfügbare Software-bibliothek zur Implementierung medizinischer Visualisierungskomponenten integriert. Andere Entwickler müssen somit “das Rad nicht immer wieder neu erfinden.” Die Preisverleihung findet auf der Jahrestagung der “Deutschen Gesellschaft für Computer- und Roboterassistierte Chirurgie” (CURAC) in Düsseldorf statt.”