Three-dimensional visualizations from a dataset of immunohistochemical stained serial sections of human brain tissue containing tuberculosis related granulomas

Stefan Dan Zaharie, Daniel J. Franken, Martijn van der Kuip*, Sabine van Elsland, Bernadette S. de Bakker, Jaco Hagoort, Sanna L. Roest, Carmen S. van Dam, Carlie Timmers, Regan Solomons, Ronald van Toorn, Mariana Kruger, A. Marceline van Furth

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review


This data article presents datasets associated with the research article entitled “The immunological architecture of granulomatous inflammation in central nervous system tuberculosis’’ (Zaharie et al., 2020). The morphology of tuberculosis related granulomas within the central nervous system of human patients was visualized in six different three-dimensional (3D) models. Post-mortem, formalin fixed and paraffin embedded specimens from deceased tuberculous meningitis patients were immunohistochemically stained and 800 serial histologically stained sections were acquired. Images from all sections were obtained with an Olympus BX43 light microscope and structures were identified, labeled and made three-dimensional. The interactive 3D-models allows the user to directly visualize the morphology of the granulomas and to understand the localization of the granulomas. The 3D-models can be used for multiple purposes and provide both an educational source as a gold standard for further animal studies, human research and the development of in silico models on the topic of central nervous system tuberculosis.

Original languageEnglish
Article number106532
JournalData in Brief
Publication statusPublished - Dec 2020

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