Orthogonal Slices
Orthogonal Slices - Related Videos
01:26
Orthogonal Trajectories
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2026
Orthogonal trajectories describe the geometric relationship between two families of curves that intersect each other at right angles. One illustrative case involves a family of parabolas that open sideways along the x-axis. These curves share a common shape but differ by a scaling parameter, resulting in a set of curves that all pass through the origin and widen at different rates.Determining Orthogonal TrajectoriesTo identify the orthogonal trajectories for these parabolas, the first step...
10:32
Orthogonal Protein Purification Facilitated by a Small Bispecific Affinity Tag
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Cited by 7 •
2012
A novel and highly efficient two-step affinity chromatography protocol has been developed and is described in detail. The method is based on a small purification tag with two inherent affinities and is applicable to a wide range of target proteins with different properties.
08:43
Calibration Procedures for Orthogonal Superposition Rheology
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Cited by 4 •
2020
We present a detailed calibration protocol for a commercial orthogonal superposition rheology technique using Newtonian fluids including end-effect correction factor determination methods and recommendations for best practices to reduce experimental error.
05:02
Cerebellum Dissection and Slice Preparation: A Method to Generate Tissue Slices from Mouse Cerebellum
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2025
This video describes a method to generate tissue slices from the mouse cerebellum. The cerebellar slices can be used for organotypic culturing that provides insights into neurodevelopmental mechanisms, including myelination dynamics.
08:20
Organotypic Hippocampal Slice Cultures
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Cited by 52 •
2011
We describe a method to prepare organotypic hippocampal slices that can be easily adapted to other brain regions. Brain slices are laid on porous membranes and culture media is allowed to form an interface. This method preserves the gross architecture of the hippocampus for up to 2 weeks in culture.
FAQs
The x-z and y-z views expose relationships along the imaging depth that may be difficult to judge in the original x-y plane. Because these planes intersect the same image stack, researchers can compare a structure’s position across orientations rather than relying on a single projection. This supports more reliable interpretation of cell arrangement and tissue organization in three dimensions.
Intersecting planes help distinguish structures that overlap when viewed from one direction. In tumor models, this perspective can clarify whether cells, invasive features, or vascular structures occupy similar or different depths. Examining the corresponding planes together therefore provides stronger evidence about spatial organization than interpreting an isolated optical section.
Marker localization can appear clear in one optical section yet remain ambiguous if neighboring structures overlap along the imaging direction. Orthogonal Slices let researchers follow the marker across perpendicular planes and assess where the signal occurs within the three-dimensional specimen. This is particularly useful for determining whether localization is associated with particular cellular or tissue regions.
Sequential optical sections provide the depth-resolved information needed for software to reconstruct perpendicular views. Each section contributes observations from a different position along the z-axis, allowing the resulting planes to represent internal structure rather than only surface appearance. The quality of the reconstructed spatial interpretation therefore depends on having an image stack that captures the specimen through depth.
Researchers first collect sequential optical sections through the specimen along the z-axis, creating a three-dimensional image stack. Imaging software then reconstructs intersecting x-y, x-z, and y-z planes from those data. The resulting views can be examined together to evaluate internal organization, marker distribution, and spatial relationships within the imaged model.
This approach is useful when cancer models have meaningful three-dimensional organization, including tumor spheroids, organoids, and tissue sections. It enables researchers to examine how cells are distributed through the model, where invasion patterns occur, and how vascular organization is arranged. These observations support more detailed analysis of disease models than a single image plane can provide.
Perpendicular views allow researchers to examine treatment-related changes throughout the depth of a tumor spheroid, organoid, or tissue section. They can assess whether altered cell distribution, invasion patterns, vascular organization, or marker localization occurs in particular regions. This spatial information strengthens interpretation of treatment responses by connecting observed changes with the model’s three-dimensional architecture.