VCBM 2023: Eurographics Workshop on Visual Computing for Biology and Medicine
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Browsing VCBM 2023: Eurographics Workshop on Visual Computing for Biology and Medicine by Author "Höllt, Thomas"
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Item Cytosplore Simian Viewer: Visual Exploration for Multi-Species Single-Cell RNA Sequencing Data(The Eurographics Association, 2023) Basu, Soumyadeep; Eggermont, Jeroen; Kroes, Thomas; Jorstad, Nikolas; Bakken, Trygve; Lein, Ed; Lelieveldt, Boudewijn; Höllt, Thomas; Hansen, Christian; Procter, James; Renata G. Raidou; Jönsson, Daniel; Höllt, ThomasWith the rapid advances in single-cell sequencing technologies, novel types of studies into the cell-type makeup of the brain have become possible. Biologists often analyze large and complex single-cell transcriptomic datasets to enhance knowledge of the intricate features of cellular and molecular tissue organization. A particular area of interest is the study of whether cell types and their gene regulation are conserved across species during evolution. However, in-depth comparisons across species of such high-dimensional, multi-modal single-cell data pose considerable visualization challenges. This paper introduces Cytosplore Simian Viewer, a visualization system that combines various views and linked interaction methods for comparative analysis of single-cell transcriptomic datasets across multiple species. Cytosplore Simian Viewer enables biologists to help gain insights into the cell type and gene expression differences and similarities among different species, particularly focusing on comparing human data to other species. The system validation in discovery research on real-world datasets demonstrates its utility in visualizing valuable results related to the evolutionary development of the middle temporal gyrus.Item Eurographics Workshop on Visual Computing for Biology and Medicine: Frontmatter(The Eurographics Association, 2023) Hansen, Christian; Procter, James; Renata G. Raidou; Jönsson, Daniel; Höllt, Thomas; Hansen, Christian; Procter, James; Renata G. Raidou; Jönsson, Daniel; Höllt, ThomasItem Interactive Visual Exploration of Region-based Sensitivities in Fiber Tracking(The Eurographics Association, 2023) Siddiqui, Faizan; Höllt, Thomas; Vilanova, Anna; Hansen, Christian; Procter, James; Renata G. Raidou; Jönsson, Daniel; Höllt, ThomasFiber tracking is a powerful technique that provides valuable insights into the complex white matter structure of the human brain. However, the processing pipeline involves many sources of uncertainty, with one notable factor being the user-defined parameters that significantly influence the resulting outputs. Among these parameters, the definition of seed-points is a crucial aspect in most fiber tracking algorithms. These seed-points are determined through regions of interest (ROI) and serve as the initial points for fiber tract generation. In this work, we present an interactive technique that utilizes seed-point sensitivities to guide the definition of regions of interest (ROI). We examine various scenarios where sensitivity information can enhance the ROI definition process and provide user guidelines and recommended actions for each scenario. Building upon this analysis, we have developed a visualization strategy that enables users to explore seed-point sensitivities effectively and facilitate the definition of optimal ROIs. We present results highlighting the benefits of the proposed visual design in the clinical pipelines.