ArticleJournal of neuroscience methods2019
Evaluating cellularity and structural connectivity on whole brain slides using a custom-made digital pathology pipeline.
Article in Journal of neuroscience methods, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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10 citing papers in PubMed, 14 citations in OpenAlex.
- Association between the Anatomical Location of Glioblastoma and Its Evaluation with Clinical Considerations: A Systematic Review and Meta-Analysis.Journal of clinical medicine · 2024Review
- Non-destructive characterization of adult zebrafish models using Jones matrix optical coherence tomography.Biomedical optics express · 2022Article
- The Digital Brain Tumour Atlas, an open histopathology resource.Scientific data · 2022Article
- Multicontrast investigation of in vivo wildtype zebrafish in three development stages using polarization-sensitive optical coherence tomography.Journal of biomedical optics · 2022Article
- Estimating Local Cellular Density in Glioma Using MR Imaging Data.AJNR. American journal of neuroradiology · 2021Article
- Improved Diagnostic Imaging of Brain Tumors by Multimodal Microscopy and Deep Learning.Cancers · 2020Article
- Article
- Sex-Specific Differences in Primary CNS Lymphoma.Cancers · 2020Article
- Imaging the Neuroimmune Dynamics Across Space and Time.Frontiers in neuroscience · 2020Review
- Revealing brain pathologies with multimodal visible light optical coherence microscopy and fluorescence imaging.Journal of biomedical optics · 2019Article
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Authors and funding
11 authors at 2 institutions in 1 country.
Funding
Abstract
aimsIn brain research, the histopathological examination of coronar whole-brain slides provides important insights into spatial disease characteristics. Regarding brain tumor research, this enables visualization of tumor heterogeneity, infiltration patterns and the relationship with the surrounding brain parenchyma. The precise correlation between radiological imaging and post-mortem brains is of special interest. NEW
methodWe developed a wide-field slide scanner, comprising a microscope, a high-precision remotely controllable x-y-stage, a camera and a computer workstation, for automatically scanning uncommonly large formats. We analyzed whole brain slides of three patients and constructed cellularity heatmaps and fiber tract maps using a custom-made image processing pipeline.
resultsThe obtained cellularity heatmaps allow for distinguishing compact tumor (5714 ± 1786 cells/mm², mean ± standard deviation) from white matter (3581 ± 828 cells/mm²) and grey matter (2473 ± 716 cells/mm²). Compared to magnetic resonance imaging, the proposed histopathological work-up (i) reveals a larger zone of tumor infiltration around the compact tumor areas and (ii) shows how pre-existing tracts are displaced by the tumor bulk. Moreover, we highlight differences in the histological tumor growth pattern of two different radiological progression subtypes. COMPARISON WITH EXISTING METHOD(S): Compared to existing (commercial) solutions, our slide scanning solution is adaptable and cost-efficient. Moreover, we showcase potential clinical applications by mapping whole brain histology to magnetic resonance imaging.
conclusionsWe herein provide instructions on how to (i) construct a custom-built slide scanner capable of scanning arbitrary slide formats, (ii) automatically evaluate the cell density and (iii) perform fiber tracking on whole brain slides.
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