The following workshops take place in the pre-conference program on Wednesday, July 4, 9:00 - 12:00. You can register for the workshops during conference registration. Note that places are limited to 20 per workshop. Workshops are available at a rate of EUR 50,00 per person.
From medical images to therapy planning - An introduction to medical image computing
Sabrina Haase, Fraunhofer MEVIS
In this workshop, we focus on the two most common imaging modalities from clinical practice: computed tomography (CT) and magnetic resonance imaging (MRI). The participants learn about the differences and how those images are visualized in the computer. The purpose of acquiring these images can be different. The range varies from diagnosis to therapy planning and its assessment. Aiming for the best possible diagnosis or treatment, several algorithms from medical image computing have to be applied to the patient-specific images which will be presented during this workshop and tested by the participants. This workshop introduces the basics of various areas of medical image computing and the participants can interactively learn how physicians would use the presented methods in clinical practice.
Participants need to bring their own laptop (Windows, Mac or Linux).
Teach the computer to see
André Homeyer, Fraunhofer MEVIS
Systems biology models often depend on quantitative parameters extracted from microscope images for model initialization or validation. Machine learning has revolutionized the automated analysis of microscope images. Despite the challenges caused by the huge diversity and variability of cells, new automated analysis methods are not only much faster but also often more accurate than manual analysis. This workshop gives insights into machine learning-based image analysis and advice on how to apply it to microscope images. In a practical hands-on session, participants will be able to teach the computer how to identify cellular or tissue structures and to witness how the computer learns and improves over time.
Participants need to bring their own laptop (Windows).
LiSyM/de.NBI/ERASysAPP Tutorial: How to Share FAIR — The FAIRDOM Data and Model Management Practice
Martin Golebiewski & Wolfgang Mueller, HITS Heidelberg
Participants will learn how to structure and share complex data in a Findable, Accessible, Interoperable and Reusable (FAIR) manner. Hands-on sessions, lectures and software demonstrations will provide attendees with the necessary skills to apply components of the FAIRDOM infrastructure in their daily work for interrelating and exchanging data, models and corresponding information.
FAIRDOM is a research infrastructure offering data management support. The SEEK software is designed as registry and storage place for data, models, biological samples, processes, publications and presentations, and at the same time as yellow pages for projects, people and events. SEEK is implemented as central data management platform in research networks such as LiSyM (https://seek.lisym.org), but also as cross-project platform FAIRDOMhub (https://www.fairdomhub.org) used e.g. by the European ERASysAPP initiative. The tutorial is jointly organized by LiSyM, ERASysAPP and the the German Network for Bioinformatics Infrastructure (de.NBI).
Participants need to bring their own laptop.
Cardiovascular modeling and simulation
Tammo Delhaas, Chair of Biomedical Engineering at Maastricht University
CircAdapt is a mathematical model of the human heart and circulation. It enables real-time simulation of cardiovascular system dynamics in a wide variety of physiological and pathophysiological situations. The entire cardiovascular system is modelled as a concatenation of modules representing cardiac chambers, valves, blood vessels, and peripheral vascular beds. A unique feature of the CircAdapt model is that it includes structural adaptation of the vascular and myocardial tissues to the mechanical load generated by the model itself.
CircAdapt is being developed and disseminated as freeware by the CircAdapt Research Team based at the Department of Biomedical Engineering, CARIM School for Cardiovascular Diseases, Maastricht University Medical Center. CircAdapt source code (Matlab) as well as the CircAdapt Simulator, a user-friendly stand-alone simulation tool that can be used to educate cardiovascular physiology and pathophysiology, are available under http://www.circadapt.org/.
In the hands-on workshop an introduction into the general setup and functionality of CircAdapt will be provided. The application to the exploration of effects of pathological changes will be explained along typical cardiovascular problems such as valve insufficiency, cardiac shunts as well as pulmonary hypertension.
Participants need to bring their own laptop (Windows or Mac).