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The digitalized sections were automatically aligned with regard to each other using the software package TrakEM2 [ 41] for the open source image processing software Fiji [ 42], and the alignment was subsequently corrected manually where necessary.
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Protein expression was quantified on digitalized PARP1-stained sections using at least ten fields of view per section.
Some programs take advantage of the National Library of Medicine's Visible Human Project, which provides radiologic scans and actual digitalized photographs of cross sections of a male and female cadaver.
Entire skin sections were digitalized.
For this reason we used optical density analysis of digitalized images from brain sections that were processed for DAB immunocytochemistry [34], [36].
Microphotographs of sections were digitalized in dark field light microscopy (Olympus BX51, and 4× objective) by using a CCD camera (Leica).
Histomorphometric quantitative analysis was done blindly using digitalized pictures of the sections.
H&E scanned sections were digitalized using a Nanozoomer 2.0-HT C9600 slide scanning instrument (Hamamatsu Photonics, Hamamatsu City, Japan).
Stained sections were digitalized using a slide scanner (Nanozoomer 2.0-HT, Hamamatsu, Japan), and measurements of the cerebellar vermis and hemisphere thickness relative to whole thickness were performed using the NDPview software of the digital scanner.
Cross-sections were digitalized and analyzed by an experienced pathologist (R. M. B .. Statistical analysis was performed using JMP 6.0 (SAS Institute, Cary, NC, USA).
To perform morphometric analysis, digitalized images of fibre cross sections were obtained from corresponding levels of the sciatic nerves with a ×100objective and digital camera Leica DFC300F.
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