Figure 2 | Scientific Reports

Figure 2

From: A topical rectal douche product containing Q-Griffithsin does not disrupt the epithelial border or alter CD4+ cell distribution in the human rectal mucosa

Figure 2

Digital image analysis workflow of the raw image processing and structure identification. (a) Representative raw image of human rectal tissue stained for E-cadherin (red) and CD4 (green) and counterstained for 4′,6-diamidino-2-phenylindole (DAPI; blue)(left). Raw image split into six equal-sized images in Matlab (right). (b) Example image of one section (left) and probability maps (right) generated from Ilastik to identify different compartments within the image: (i) black background (tissue detection), (ii) tissue background, (iii) green autofluorescence, (iv) epithelial (EP) cells, (v) lamina propria (LP) cells, (vi) epithelial junction protein. (c) Raw image of DAPI staining used for cell identification (left) and digitalized image (right) of all identified cells, EP cells, and LP cells, respectively. Representative images were selected based on median expression for each individual marker. Cell identification was performed in CellProfiler. (d) Magnified images of the outlines highlighted in (c). All scale bars represent 100 µm.

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