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Image Search Results
Journal: Nephron
Article Title: Quantitative Large scale 3D imaging of human kidney biopsies: a bridge to precision medicine in kidney disease
doi: 10.1159/000490006
Figure Lengend Snippet: A: Design of a workflow to perform cytometry on 3D image volumes, by using the nuclei as fiduciaries for all cells present in the volumes. B: Demonstration of tissue cytometry workflow using VTEA. 1- The image volume loaded into ImageJ/FIJI. 2- Basic image preprocessing and 3D segmentation are managed through the VTEA plugin GUI. 3- Segmented 3D nuclei are quantified by clicking the Find Objects button, which generates a scatterplot GUI, in which each dot represents measured parameters for a single cell. Up to three measurement parameters can be selected for simultaneous display (x axis, y axis, and color) via a menu interface (blue arrows). 4- Rectangles can be drawn on the scatterplot to identify subpopulations of cells (gating), which are highlighted as nuclear overlays in the image volume to identify their spatial distribution (shown in red). 5- Free-hand regions-of-interests can also be drawn directly on the image volume to isolate particular structures or areas (in this case, a yellow region is drawn around a glomerulus), which generates a new scatterplot (seen in 6) displaying quantifications of cells from the demarcated region (shown here as green-outlined dots). Figure 1B is used with permission from the journal of the American Society of Nephrology (JASN July 2017 vol. 28 no. 7 p2108–2118)
Article Snippet: Overlapping image volumes are then digitally stitched to produce a
Techniques: Cytometry