Ulm University View Institution's Website 14 articles published in JoVE Engineering Evaluating Usability Aspects of a Mixed Reality Solution for Immersive Analytics in Industry 4.0 Scenarios Burkhard Hoppenstedt1, Thomas Probst2, Manfred Reichert1, Winfried Schlee3, Klaus Kammerer1, Myra Spiliopoulou4, Johannes Schobel1, Michael Winter1, Anna Felnhofer5, Oswald D. Kothgassner6, Rüdiger Pryss7 1Institute of Databases and Information Systems, Ulm University, 2Department for Psychotherapy and Biopsychosocial Health, Danube University Krems, 3Department of Psychiatry and Psychotherapy, University of Regensburg, 4Faculty of Computer Science, Otto von Guericke University Magdeburg, 5Department of Pediatrics and Adolescent Medicine, Medical University of Vienna, 6Department of Child and Adolescent Psychiatry, Medical University of Vienna, 7Institute of Clinical Epidemiology and Biometry, University of Würzburg This protocol delineates the technical setting of a developed mixed reality application that is used for immersive analytics. Based on this, measures are presented, which were used in a study to gain insights into usability aspects of the developed technical solution. Behavior Multi-Modal Signals for Analyzing Pain Responses to Thermal and Electrical Stimuli Sascha Gruss1, Mattis Geiger2, Philipp Werner3, Oliver Wilhelm2, Harald C. Traue1, Ayoub Al-Hamadi3, Steffen Walter1 1Department of Medical Psychology, Ulm University, 2Department of Individual Differences and Psychological Assessment, Ulm University, 3Department of Neuro-Information Technology, University of Magdeburg This article focuses on the experimental elicitation of pain through heat (thermal) and electrical stimulation while recording physiological, visual, and paralinguistic responses. It aims at collecting valid multimodal data for analyzing pain based on its intensity, quality, and duration. Bioengineering Correlative Light Electron Microscopy (CLEM) for Tracking and Imaging Viral Protein Associated Structures in Cryo-immobilized Cells Rachel Santarella-Mellwig1, Uta Haselmann2, Nicole L. Schieber1, Paul Walther3, Yannick Schwab1, Claude Antony1, Ralf Bartenschlager2,4, Inés Romero-Brey2 1European Molecular Biology Laboratory, 2Department of Infectious Diseases, Molecular Virology, Heidelberg University, 3Central Facility for Electron Microscopy, Ulm University, 4Heidelberg Partner Site, German Center for Infection Research A correlative light electron microscopy (CLEM) method is applied to image virus-induced intracellular structures via electron microscopy (EM) in cells that are previously selected by light microscopy (LM). LM and EM are combined as a hybrid imaging approach to achieve an integrated view of virus-host interactions. Behavior Use of a Psychophysiological Script-driven Imagery Experiment to Study Trauma-related Dissociation in Borderline Personality Disorder Dana Maria Bichescu-Burian1, Benjamin Grieb1, Tilman Steinert1, Carmen Uhlmann1, Jürgen Steyer1 1Centre for Psychiatry Weissenau, Clinic of Psychiatry and Psychotherapy I, Ulm University We present a protocol of personalized script-driven trauma-related imagery and clinical assessments within a comparison design for investigating peritraumatic dissociation (PD), psychophysiological reactions, i.e. heart rate (HR) and skin conductance (SC), and psychological features of often severely traumatized individuals with borderline personality disorder (BPD). Biochemistry Easy Manipulation of Architectures in Protein-based Hydrogels for Cell Culture Applications Nicholas Bodenberger1, Dennis Kubiczek1, Frank Rosenau1 1Center for Peptide Pharmaceuticals, Faculty of Natural Science, Ulm University Different methods to manipulate three-dimensional architecture in protein-based hydrogels are evaluated here with respect to material properties. The macroporous networks are functionalized with a cell-adhesive peptide, and their feasibility in cell culture is evaluated using two different model cell lines. Neuroscience Time-lapse Confocal Imaging of Migrating Neurons in Organotypic Slice Culture of Embryonic Mouse Brain Using In Utero Electroporation Christoph Wiegreffe1, Svenja Feldmann1, Simeon Gaessler1, Stefan Britsch1 1Institute of Molecular and Cellular Anatomy, Ulm University This protocol provides instructions for direct observation of radially migrating cortical neurons. In utero electroporation, organotypic slice culture, and time-lapse confocal imaging are combined to directly and dynamically study the effects of overexpression or downregulation of genes of interest in migrating neurons and to analyze their differentiation during development. Biochemistry Structural Information from Single-molecule FRET Experiments Using the Fast Nano-positioning System Thilo Dörfler*1, Tobias Eilert*1, Carlheinz Röcker1, Julia Nagy1, Jens Michaelis1 1Institute of Biophysics, Ulm University We present the setup and experimental procedure to obtain smFRET data from large donor-acceptor networks with a TIRF microscope. The step-by-step analysis of these measurements with the Bayesian inference software Fast-NPS yields high-resolved structural information via the application of adapted dye models. Behavior Eye-Tracking Control to Assess Cognitive Functions in Patients with Amyotrophic Lateral Sclerosis Jürgen Keller1, Martin Gorges1, Helena E. A. Aho-Özhan1, Ingo Uttner1, Erich Schneider2, Jan Kassubek1, Elmar H. Pinkhardt1, Albert C. Ludolph1, Dorothée Lulé1 1Department of Neurology, Ulm University, 2Institute of Medical Technology, Brandenburg University of Technology Cottbus-Senftenberg Cognitive deficits are common in about one third of patients with amyotrophic lateral sclerosis, a neurological condition leading to progressive impairments in speech and movement abilities. To conduct cognitive tests in patients unable to speak or write a reliable and easy to administer eye-tracking paradigm was developed. Immunology and Infection Development of an Antigen-driven Colitis Model to Study Presentation of Antigens by Antigen Presenting Cells to T Cells Valerio Rossini1, Katarina Radulovic2, Christian U. Riedel3, Jan Hendrik Niess2 1APC Microbiome Institute, University College Cork, 2Division of Gastroenterology and Hepatology, University Hospital Basel, 3Institute of Microbiology and Biotechnology, University of Ulm In this antigen-driven colitis model, OT-II CD4+ T cells expressing a red fluorescent protein were adoptively transferred into RAG-/- mice that express a green fluorescent protein in mononuclear phagocytes (MPs). The hosts were challenged with Escherichia coli (E.coli) expressing the ovalbumin protein (OVA) fused to a cyan fluorescent protein (CFP). Developmental Biology Use of the TetON System to Study Molecular Mechanisms of Zebrafish Regeneration Daniel Wehner*1, Christopher Jahn*1, Gilbert Weidinger1 1Institute for Biochemistry and Molecular Biology, Ulm University Here we outline the workflow for using the TetON system to achieve tissue-specific gene expression in the adult regenerating zebrafish tail fin. Developmental Biology Ex Utero Electroporation and Organotypic Slice Culture of Mouse Hippocampal Tissue Sathish Venkataramanappa1, Ruth Simon1, Stefan Britsch1 1Institute of Molecular and Cellular Anatomy, University of Ulm Here we present a protocol providing a tool to examine regulatory mechanisms of specific genes during hippocampal development. Employing ex utero electroporation and organotypic slice culture allows the up- and down-regulation of the expression of genes of interest in single cells and follow their fate during development. Biology Isolating Intestinal Stem Cells from Adult Drosophila Midguts by FACS to Study Stem Cell Behavior During Aging Helen M. Tauc*1, Alpaslan Tasdogan*2, Petra Pandur1 1Institut für Biochemie und Molekulare Biologie, Universität Ulm, 2Institut für Immunologie, Universitätsklinikum Ulm Understanding the endogenous molecular changes in adult stem cells during aging requires isolating the cells of interest. The method described here presents a simple and robust approach to enrich for and isolate Drosophila intestinal stem cells and the enteroblast progenitor cells by FACS at any time point during aging. Medicine Diffusion Tensor Magnetic Resonance Imaging in the Analysis of Neurodegenerative Diseases Hans-Peter Müller1, Jan Kassubek1 1Department of Neurology, University of Ulm Diffusion tensor imaging (DTI) basically serves as an MRI-based tool to identify in vivo the microstructure of the brain and pathological processes due to neurological disorders within the cerebral white matter. DTI-based analyses allow for application to brain diseases both at the group level and in single subject data. Neuroscience Optical Imaging of Neurons in the Crab Stomatogastric Ganglion with Voltage-sensitive Dyes Wolfgang Stein1, Carola Städele1, Peter Andras2 1Institute of Neurobiology, Ulm University, 2School of Computing Science & Institute of Neuroscience, Newcastle University Here we present the methodology for fast and high resolution fluorescent voltage-sensitive dye imaging of detailed activity of neurons in the crab stomatogastric ganglion.