Extended Data Fig. 6: Stained human kidney tissues imaged with MediSCAPE.

Fresh human kidney tissues showing features of arterionephrosclerosis were stained with nuclear dye, either b, 1% methylene blue (exc. 637 nm, em. >685 nm) or d-k, 0.01% proflavine (exc. 488 nm, em. 525/50 nm). imaged by MediSCAPE, then processed for histology where the same tissue block faces were stained with PAS and/or H&E. a-c, demonstrate how the 4 main renal histologic components which must be routinely evaluated with both PAS and H&E histology appear in a, PAS histology, b, an xy slice of a MediSCAPE volume stained with methylene blue and c, H&E histology. These components are indicated as following: glomeruli (white arrows), arteries (red arrows), tubules (black arrows), and interstitium (blue arrows). Methylene blue in the MediSCAPE image defines cellular cytoplasmic, nuclear and extracellular compartments, similar to H&E but better highlights arterial elastic lamina and tubular and interstitial compartments, similar to PAS histologic sections. A second biopsy piece from the same patient shows scarred tubulointerstitium in a focal area of fibrosis (green arrows) in both d, MediSCAPE and e, corresponding H&E histology. f, a 3D rendering (Imaris) of the larger stage-scanned volume acquired on MediSCAPE, shows the 3D structure of fibrosis (green arrow), arteries and glomeruli (white arrows). The lengthwise white dotted line indicates the origin of the xz depth section shown in g. h, A non-sclerotic glomerulus is shown in more detail across 20um in depth. See Supplementary Movie 11 for a moving 3D render and depth fly-throughs of lateral and depth cross-sections of the full 3D volume. A second region of the same tissue shows i, globally- sclerotic glomeruli (yellow arrows) and urinary casts (light blue arrow) in a xy slice and depth slice taken at the white dotted line. j, H&E histology of a deeper section of the same region and k, MediSCAPE xy cross-section of the entire stage-scanned volume also shows globally-sclerotic glomeruli (yellow arrows) and normal glomeruli (white arrows). All scale bars, 100 µm.