A large variety of severe medical conditions involve alterations in microvascular circulation. Hence, measurements or simulation of circulation and perfusion has considerable clinical value and can be used for diagnostics, evaluation of treatment efficacy, and for surgical planning. However, the accuracy of traditional tracer kinetic one-compartment models is limited due to scale dependency. As a remedy, we propose a scale invariant mathematical framework for simulating whole brain perfusion. The suggested framework is based on a segmentation of anatomical geometry down to imaging voxel resolution. Large vessels in the arterial and venous network are identified from time-of-flight (ToF) and quantitative susceptibility mapping (QSM). Macro-scale flow in the large-vessel-network is accurately modelled using the Hagen-Poiseuille equation, whereas capillary flow is treated as two-compartment porous media flow. Macro-scale flow is coupled with micro-scale flow by a spatially distributing support function in the terminal endings. Perfusion is defined as the transition of fluid from the arterial to the venous compartment. We demonstrate a whole brain simulation of tracer propagation on a realistic geometric model of the human brain, where the model comprises distinct areas of grey and white matter, as well as large vessels in the arterial and venous vascular network. Our proposed framework is an accurate and viable alternative to traditional compartment models, with high relevance for simulation of brain perfusion and also for restoration of field parameters in clinical brain perfusion applications.

Fig. 1: Neural projections in the brain of the fruit fly visualized using the BrainGazer system. Abstract-Neurobiology investigates how anatomical and physiological relationships in the nervous system mediate behavior. Molecular genetic techniques, applied to species such as the common fruit fly Drosophila melanogaster, have proven to be an important tool in this research. Large databases of transgenic specimens are being built and need to be analyzed to establish models of neural information processing. In this paper we present an approach for the exploration and analysis of neural circuits based on such a database. We have designed and implemented BrainGazer, a system which integrates visualization techniques for volume data acquired through confocal microscopy as well as annotated anatomical structures with an intuitive approach for accessing the available information. We focus on the ability to visually query the data based on semantic as well as spatial relationships. Additionally, we present visualization techniques for the concurrent depiction of neurobiological volume data and geometric objects which aim to reduce visual clutter. The described system is the result of an ongoing interdisciplinary collaboration between neurobiologists and visualization researchers.

In this paper, we present a novel

Figure 1: Non-photorealistic shadows expressed in blue tones: (a) lungs and (b) ankles from the visible female CT dataset, and (c) 3D cardiac ultrasound. AbstractSoft shadows are effective depth and shape cues. However, traditional shadowing algorithms decrease the luminance in shadow areas. The features in shadow become dark and thus shadowing causes information hiding. For this reason, in shadowed areas, medical illustrators decrease the luminance less and compensate the lower luminance range by adding color, i.e., by introducing a chromatic component. This paper presents a novel technique which enables an interactive setup of an illustrative shadow representation for preventing overdarkening of important structures. We introduce a scalar attribute for every voxel denoted as shadowiness and propose a shadow transfer function that maps the shadowiness to a color and a blend factor. Typically, the blend factor increases linearly with the shadowiness. We then let the original object color blend with the shadow color according to the blend factor. We suggest a specific shadow transfer function, designed together with a medical illustrator which shifts the shadow color towards blue. This shadow transfer function is quantitatively evaluated with respect to relative depth and surface perception.

Preoperative MR imaging in endometrial cancer patients provides valuable information on local tumor extent, which routinely guides choice of surgical procedure and adjuvant therapy. Furthermore, whole-volume tumor analyses of MR images may provide radiomic tumor signatures potentially relevant for better individualization and optimization of treatment. We apply a convolutional neural network for automatic tumor segmentation in endometrial cancer patients, enabling automated extraction of tumor texture parameters and tumor volume. The network was trained, validated and tested on a cohort of 139 endometrial cancer patients based on preoperative pelvic imaging. The algorithm was able to retrieve tumor volumes comparable to human expert level (likelihood-ratio test, $$p = 0.06$$ p = 0.06 ). The network was also able to provide a set of segmentation masks with human agreement not different from inter-rater agreement of human experts (Wilcoxon signed rank test, $$p=0.08$$ p = 0.08 , $$p=0.60$$ p = 0.60 , and $$p=0.05$$ p = 0.05 ). An automatic tool for tumor segmentation in endometrial cancer patients enables automated extraction of tumor volume and whole-volume tumor texture features. This approach represents a promising method for automatic radiomic tumor profiling with potential relevance for better prognostication and individualization of therapeutic strategy in endometrial cancer.