See tissue biology in its full 3D context.

This dataset presents high-resolution 3D fluorescence imaging of a hair follicle within an intact hidradenitis suppurativa (HS) skin biopsy, revealing follicular architecture, surrounding nerve networks, and individual cells throughout the imaged tissue volume.

The visualization begins with a 3D reconstruction of the complete hair follicle, showing its morphology and the intricate distribution of nerve fibers and mast cells in the surrounding tissue. Virtual 2D sectioning enables detailed examination of cellular structures at different depths without physically sectioning or destroying the specimen. The dataset is then visualized again in 3D to reveal the spatial organization of these structures.

Fluorescence markers:

- TO-PRO-3 (blue): Cell nuclei

- PGP9.5 (white): Nerve fibers

- Tryptase (green): Mast cells

The combination of high spatial resolution and volumetric imaging enables quantitative assessment of follicular morphology, cell counts and densities, nerve architecture, and distances between cells and nerve fibers.

This approach supports the investigation of follicular structures and neuroimmune interactions in HS while preserving their spatial relationships within the intact tissue.

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Hidradenitis suppurativa (HS) is a chronic inflammatory skin disease characterized by recurrent inflammatory lesions, tissue remodeling, and the formation of epithelialized tunnels. Understanding the three-dimensional organization of these structures and their surrounding microenvironment is important for investigating disease pathology.

This video presents a volumetric visualization of an HS skin biopsy acquired using 3D light-sheet fluorescence microscopy. Three fluorescent markers highlight distinct tissue components:

- Blue: Cell nuclei

- White: PGP9.5-positive nerve fibers

- Green: Tryptase-positive mast cells

The visualization follows hair follicles through the tissue volume, revealing their architecture and spatial relationships with surrounding nerve fibers and mast cells. In conventional two-dimensional histological sections, follicular structures may be only partially represented, depending on the orientation and position of the section.

As the visualization progresses through the biopsy, an HS tunnel becomes visible. Three-dimensional imaging allows its morphology and continuity to be examined alongside the distribution of nearby follicles, nerves, and mast cells.

By preserving the spatial relationships between these structures, volumetric imaging provides a framework for investigating tissue organization, neuroimmune interactions, and inflammatory remodeling in HS.

Such analyses may contribute to a better understanding of the tissue microenvironment associated with tunnel formation and disease progression.

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This video presents a volumetric visualization of human duodenum tissue stained with eosin and the nuclear marker TO-PRO-3, then pseudocolored to create an H&E-like appearance.

3D tissue imaging reveals intestinal villi as continuous structures across the imaged volume, preserving information about their morphology, orientation, spacing, density, and regional organization. Viewing villi across depth also reduces the influence of sectioning angle and sampling location that can affect measurements from individual 2D sections.

With appropriate segmentation, the dataset can support quantitative analysis of villus number, height, width, volume, elongation, spacing, density, and variation across tissue regions.

These measurements are relevant to gastrointestinal research, including studies of celiac disease, where villous architecture may become shortened, flattened, fused, or otherwise disrupted. Quantifying these changes across a tissue volume could help characterize the distribution and heterogeneity of structural alterations.

The tissue was imaged on the Aurora 3D™ platform using the 3Di™ Hybrid Open-Top Light-Sheet (HOTLS) microscope.

This video presents a volumetric view of human placental tissue, with PD-L1 signal shown in cyan across the imaged tissue architecture.

PD-L1 is an immune-regulatory protein expressed in placental tissue and is relevant to research on trophoblast biology and the maternal-fetal interface. Viewing the signal in 3D preserves its distribution across depth and provides spatial context that cannot be captured from a single tissue section.

The volumetric dataset can support analysis of PD-L1-positive regions, signal distribution, tissue coverage, and spatial relationships with additional cellular or structural markers when included in a multiplex panel.

The tissue was imaged using the Aurora 3D™ Spatial Biology Solution, including the 3Di™ Hybrid Open-Top Light-Sheet microscope.

This dataset presents mouse skin tissue imaged in 3D using fluorescence labeling. PGP9.5 highlights the broader nerve network, YO-PRO-1 labels nuclei, and Nav1.8-associated signal identifies a subset of sensory neurons.

The volumetric view preserves the continuity of nerve fibers across the imaged tissue depth, revealing large nerve bundles, finer branches, crossings, and terminal structures within dermal and epidermal regions.

With appropriate segmentation, the dataset can support measurement of nerve density, fiber length, branching, orientation, and spatial relationships with surrounding cells and tissue structures. These features are relevant to research on cutaneous innervation, sensory biology, pain, itch, inflammation, and treatment-associated changes in nerve architecture.

The tissue was imaged using the Aurora 3D™ Spatial Biology Solution, including the 3Di™ Hybrid Open-Top Light-Sheet microscope.

This video presents expanded 3D imaging of mouse kidney tissue, revealing glomerular, basement membrane, and extracellular matrix architecture across an intact tissue volume.

Nuclei are shown in white. Collagen IV, shown in blue, highlights basement membrane structures. WGA lectin, shown in magenta, labels glycoprotein-rich tissue features, while podocalyxin, shown in green, highlights podocyte-associated structures within the glomeruli.

Expansion microscopy physically enlarges the specimen, increasing the separation between fluorescently labeled structures while preserving their relative spatial organization. Traversing the expanded volume reveals the three-dimensional relationships among glomeruli, basement membranes, and surrounding renal tissue that can appear fragmented in individual 2D sections.

The dataset can support analysis of glomerular morphology, basement membrane organization, spatial distribution, and structural variation across the imaged kidney volume.

This work was performed in collaboration with Joshua Vaughan and the University of Washington Department of Chemistry.

The tissue was imaged using the Aurora 3D™ Spatial Biology Solution, including the 3Di™ Hybrid Open-Top Light-Sheet microscope.