Cytosplore: Interactive Immune Cell Phenotyping for Large Single-Cell Datasets

• Published in: Computer graphics forum Vol. 35; no. 3; pp. 171 - 180
• Main Authors: Höllt, T., Pezzotti, N., van Unen, V., Koning, F., Eisemann, E., Lelieveldt, B., Vilanova, A.
• Format: Journal Article
• Language: English
• Published: Oxford Blackwell Publishing Ltd 01.06.2016
• Subjects: Analysis; Categories and Subject Descriptors (according to ACM CCS); Cellular; Cellular biology; Computer graphics; Cytometry; Data points; Differentiation; Handles; I.3.8 [Computer Graphics]: Applications; Immune system; Immune systems; Interactive; Studies; Visualization; Workflow
• ISSN: 0167-7055; 1467-8659
• DOI: 10.1111/cgf.12893

To understand how the immune system works, one needs to have a clear picture of its cellular compositon and the cells' corresponding properties and functionality. Mass cytometry is a novel technique to determine the properties of single‐cells with unprecedented detail. This amount of detail allows for much finer differentiation but also comes at the cost of more complex analysis. In this work, we present Cytosplore, implementing an interactive workflow to analyze mass cytometry data in an integrated system, providing multiple linked views, showing different levels of detail and enabling the rapid definition of known and unknown cell types. Cytosplore handles millions of cells, each represented as a high‐dimensional data point, facilitates hypothesis generation and confirmation, and provides a significant speed up of the current workflow. We show the effectiveness of Cytosplore in a case study evaluation.