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Slidepath

Manufactured by Leica
Sourced in United Kingdom

Slidepath is a high-precision digital slide scanning system designed for clinical and research applications. It captures high-resolution digital images of microscope slides for analysis and archiving purposes. The core function of Slidepath is to digitize glass slides and convert them into a digital format that can be easily shared, stored, and analyzed using compatible software.

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11 protocols using slidepath

1

Immunohistochemical Detection of Abnormal PrP

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Brains were fixed in 10% buffered formalin for at least 48 hours and then immersed in 98% formic acid for 1 hour, postfixed in formalin, and then processed for paraffin wax embedding. Serial sections of 4-μm thickness were pretreated by boiling for 10 minutes in a low ionic strength buffer (2.1 mM Tris, 1.3 mM EDTA, 1.1 mM sodium citrate [pH 7.8]) before exposure to 98% formic acid for 5 minutes. Abnormal PrP accumulation was examined using anti-PrP monoclonal antibodies 3F4 [86 (link)] or ICSM 35 (D-Gen Ltd, London) on a Ventana benchmark XT automated immunohistochemical staining machine using proprietary secondary detection reagents (Roche, Burgess Hill, UK) before development with 3'3 diaminobenzedine tetrachloride as the chromogen [62 (link)]. Harris haematoxylin and eosin staining was done by conventional methods. Astrogliosis was determined by glial fibrillary acidic protein immunostaining following standard protocol. Appropriate controls were used throughout. Histological slides were digitised on a LEICA SCN400F scanner (LEICA Milton Keynes, UK) at 40× magnification with 65% image compression setting during export. Slides were archived and managed on LEICA Slidepath (LEICA Milton Keynes, UK). For the preparation of light microscopy images, image captures were taken and composed in Adobe Photoshop.
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2

Digital Slide Scanning and Archiving

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Histological slides were digitized on a LEICA SCN400F scanner (LEICA Milton Keynes, UK) at ×40 magnification and 65% image-compression setting during export. Slides were archived and managed on LEICA Slidepath (LEICA Milton Keynes, UK).
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3

Quantifying Perivascular Edema in Lungs

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At the end of EVLP, the degree of perivascular edema in the right lung (n = 6/group) was determined in 5-µm sections stained with hematoxylin and eosin, digitalized (Hamamatsu NanoZoomer HT Digital slide scanner, Hamatsu Photonics, Japan) and analyzed using Slidepath (Leica Biosystems). Perivascular edema was quantified by determining the ratio of perivascular edema thickness to the inner vessel diameter, averaged from 20 cross-sectioned vessels per lung (arteries and veins), as described previously.11 (link)
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4

Digital Morphology Proficiency Development

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The Digital Morphology CPD scheme has been described in earlier publications [14 (link)]. In brief, more than 50 continuous microscopic fields were captured using Zeiss Axio Imager.M1 with a Zeiss Plan-Apochromat 63×/1.4 oil lens, then stitched using the photomerge function of Adobe Photoshop CS4 (version 11.02; Adobe Inc) and optimized for sharpness (unsharp mask function, 1 pixel up to 100%), lighting, and color balance (curves function). The final image was reviewed to ensure accurate and sufficient representation of the diagnostic features for each case, then uploaded to either Digital Slidebox (SlidePath, Leica Biosystems) or EQATE UK NEQAS Haematology Online (Certus Technology Associates Ltd). Each system provided equivalent functionality for image viewing and data submission (representative images from the EQATE system are shown in Multimedia Appendix 1). Users of the UK NEQAS DM scheme viewed the images via web browser, submitting their morphological selections and preferred diagnosis. Feedback was made using online forms with free-text responses or user grading (1-5; Google Forms, Google). The 5 cases that were rereleased used identical films. The cases were given new narratives and feedback available after case completion, and participants had no direct access to the previous release of these cases.
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5

Quantifying Interstitial Fibrosis in EMB

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The quantification of interstitial fibrosis in the individual study patient was based on Van Gieson's staining [14] (link) of 3 separate EMB specimens. Slides were scanned with a NanoZoomer S60 (Hamamatsu Photonics, Hamamatsu, Japan) with a spatial resolution of 2.2 pixels/µm (i.e. 454 nm). The percentage of fibrosis was then automatically quantified by colour segmentation with SlidePath (Leica Biosystems, Wetzlar, Germany). Samples that included scar tissues from previous biopsy sites were excluded to avoid confounding the quantification of pathological interstitial fibrosis with scar fibrosis.
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6

Murine Tissue Preparation and Histological Analysis

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Murine tissues were OCT embedded and frozen in chilled isopentane using liquid nitrogen. Cryopreserved tissues were then sectioned at 10 μm on a cryostat (model CM1850, Leica Biosystems). The PAS/D-PAS, H&E, and staining on frozen tissues followed the methods published in Dubowitz et al.69 One whole forelimb and hindlimb per mouse were instead fixed in formalin, skinned, and inked to identify the dorsal/ventral orientation, decalcified, and paraffin embedded. Sections at 4 μm were cut through the limb, proximal to distal (shoulder to paw) and stained for H&E. All stained slides were scanned and captured by Leica SCN400, while images were viewed and captured by using the Leica Slidepath digital image hub application.
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7

Histological Tissue Processing and Analysis

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Tissue were fixed in situ with 4% paraformaldehyde (Sigma), stored in 70% ethanol (4 °C) and were then processed through a series of graded ethanol, from 70% to 100%, Xylene, and paraffin (Leica Peloris). Heart and vessels (n = 6/group) were sectioned at 5 µm onto charged slides using a rotary microtome as previously described18 (link),45 (link). Sections were stained with hematoxylin/eosin for primary assessment of structural architecture and Gomori Trichrome for assessment of collagen deposition. The stained slides were then digitally scanned (Slidepath, Leica). Investigators were blinded to experimental condition during selection and measurement of all fields16 (link),18 (link),45 (link). Immunohistochemistry (Nikon Eclipse fluorescence upright microscope and processed with NIS Elements Basic Research Microscope Imaging Software) of 5-µm sections of mouse heart and lung was performed using 1°-antibodies, anti-α-SMA (1:200), corresponding 2°-antibodies (1:250) and DAPI (1:10,000) (SantaCruz) performed (Olympus-BX51/NikonD5100).
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8

Nerve Biopsy Processing and Analysis

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Nerve biopsies were processed according to local standard operating procedures. In brief, fresh biopsies, immediately after removal, were divided in half, with one portion fixed in 10% buffered formalin, followed by tissue processing and embedding in paraffin and the other portion fixed in 3% glutaraldehyde, followed by processing into epoxy resin. The paraffin embedded tissues were cut at 5-µm thin sections and stained with a battery of histochemical and immunohistochemical stains (including immunostaining for neurofilaments with SMI31 antibody (1:5000; Sternberger, shown in Fig. 3) and the resin-embedded tissues were cut into 1-µm semi-thin sections and stained with methylene blue azure-basic fuchsin. All slides were viewed under light microscope. Histology images shown in the Fig. 3 were digitized on a LEICA SCN400F scanner at ×40 magnification and 65% image compression setting during export. For the preparation of light microscopy images, image captures were taken in LEICA SlidePath (LEICA Milton Keynes, UK). Publication figures were assembled in Adobe® Photoshop.
For the analysis of myelinated fibre density in sural nerve biopsies, four randomly selected fascicles from each case were assessed. Both large and small myelinated fibres were counted.
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9

Immunohistochemical Profiling of Tissue Sections

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Tissue paraffin sections (2μm) were stained with hematoxylin/eosin or the following antibodies: F4/80 (Serotec), Ly6G (BD), CD31 (Abcam), CD3 (NeoMarkers), B220 (BD), Ki67 (NeoMarkers), cleaved-caspase-3 (BD). Staining was performed on a NEXES immune-histochemistry robot (Ventana instruments) using an IVIEW DAB Detection Kit (Ventana) or on a Bond MAX (Leica). Images were digitized with a SCN400 slide scanner (Leica) and analyzed using Tissue IA image analysis software in a double-blind manner (Slidepath, Leica). Tissue sections were stained simultaneously for each antigen and the signal to noise cut-off was manually adjusted for each antibody staining. This cut-off was applied to all samples within one staining group and positive signal (above the cut-off) is displayed in % of the total area analyzed.
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10

Digitalization of Esophageal Tissue Samples

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We selected all formalin-fixed, paraffin-embedded tissue blocks and/or slides of
60 BE endoscopy procedures. The case set was enriched for dysplastic cases.
Thirty-nine cases with an original diagnosis of LGD (n = 20) or
HGD (n = 19) had been sent to our centre for consultation
between 2012 and 2014. These 39 dysplastic cases were supplemented with 21
consecutive NDBE cases from a community hospital in the Amsterdam region. All
cases were anonymized. Every case contained at least an Hematoxylin & Eosin
(HE) and corresponding p53 immunohistochemically stained slide (clone
DO-7+BP53-12, #MS-738-P, Thermo Fisher Scientific, Waltham, MA, USA). For each
case, all slides were fully digitalized, using a scanner with a ×20 microscope
objective (Slide, Olympus, Tokyo, Japan). They were checked for focus and acuity
by the study coordinator and re-scanned if necessary. Subsequently, the slides
were anonymized, randomized, renamed and stored on a secure server. The viewing
software used to view the digital slides during the study was the virtual slide
system ‘Digital Slidebox 4.5’ (http://dsb.amc.nl/dsb/login.php, Slidepath, Leica Microsystems,
Dublin, Ireland).
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