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Stacks of 0.5 µm confocal sections were acquired from 30 randomly-selected nuclei and their areas in successive sections were summed.
Serial 4 μm sections were acquired from each paraffin block and stained with HE and PAS.
Paraffin-embedded sections were acquired from all 127 patients (112 males and 15 females).
Five-micron sagittal sections were acquired from the middle of the knee joint.
For Fig. 7E, confocal optical sections were acquired from fields with less than 50% GFP+ pixels (estimated using Huang thresholding and ImageJ particle analysis).
Paraffin-embedded spleen, liver and BM sections were acquired from the pathology department of the University of Freiburg and stained for hematoxylin/eosin, periodic acid Schiff stain and reticulin following standard procedures.
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Fluorescence images from spheroid sections were acquired using a DM5000 (Leica) epifluorescence microscope, fitted with a Roper COOLsnap ES CCD camera coupled using a C-mount 0.63X adapter.
From every synovium (8 per group), two sections were acquired at different depths and eight microscopic fields from each section were photographed and analyzed.
Single images of the IML from spinal cord sections were acquired using the same microscope equipped with an Apo-25X objective.
Spectra from 29 consecutive sections were acquired using a Bruker Daltonics Autoflex speed™ mass spectrometer in linear positive mode in the mass range 1,600-15,000 m/z.
Z-stacks from 1 μm thick optical sections were acquired.
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