Cytosplore Simian Viewer
Visual Exploration for Multi-Species Single-Cell RNA Sequencing Data
Soumyadeep Basu (TU Delft - Computer Graphics and Visualisation, Leiden University Medical Center)
Jeroen Eggermont (Leiden University Medical Center)
Thomas Kroes (Leiden University Medical Center)
Nikolas L. Jorstad (Allen Institute)
Trygve E. Bakken (Allen Institute)
Ed Lein (Allen Institute)
Boudewijn P.F. Lelieveldy (Leiden University Medical Center)
T. Höllt (TU Delft - Computer Graphics and Visualisation)
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Abstract
With 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.
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