Slide scanner

Manufactured by 3DHISTECH

Sourced in Hungary

The Slide Scanner is a digital imaging device used to capture high-resolution images of microscope slides. It is designed to digitize glass slides containing tissue samples or other biological specimens, enabling the creation of digital slide archives and facilitating remote access and analysis.

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Lab products found in correlation

F4 80, by Santa Cruz Biotechnology (2 mentions) 4 hne, by Abcam (1 mentions) Alcian blue, by Vector Laboratories (1 mentions) Anti calretinin, by Santa Cruz Biotechnology (1 mentions) Nuclear fast red, by Vector Laboratories (1 mentions) Dab substrate kit, by Agilent Technologies (1 mentions) Lsab kit, by Agilent Technologies (1 mentions) Novared, by Vector Laboratories (1 mentions) Rabbit anti mouse hrp, by Agilent Technologies (1 mentions) Image pro plus 4, by Media Cybernetics (1 mentions) Neutral buffered formalin, by Merck Group (1 mentions) Enthelan, by Merck Group (1 mentions) Fluorescence mounting medium, by Agilent Technologies (1 mentions) Confocal microscope, by Zeiss (1 mentions) Lipofectamine 3000, by Thermo Fisher Scientific (1 mentions) Poly l lysine (pll), by Merck Group (1 mentions) Haematoxylin, by Thermo Fisher Scientific (1 mentions) Eosin y, by Thermo Fisher Scientific (1 mentions) Dpx mountant, by Merck Group (1 mentions) Caseviewer, by 3DHISTECH (1 mentions)

24 protocols using slide scanner

Carotid Plaque Characterization Protocol

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This study was approved by Sir Charles Gairdner and Osborne Park Health Care Group Human Research Ethics Committee. Human plaques from carotid endarterectomy surgery were freshly collected after consent from 25 patients (76% male, mean age 72 ± 6 years, 52% asymptomatic) recruited by the department of Vascular and Endovascular Surgery at Sir Charles Gairdner Hospital, Crawley, Western Australia.
The endarterectomy involved excision of plaque intima through natural dissection plane within the tunica media. The excised tissues were approximately 3 cm in length, which contained plaque as well as intima and media layers extending from the common carotid artery into and along the internal and external carotid arteries tailing off to normal intima. The arteriotomy in the patients was closed with a patch sutured to the outer layer of the media and adventitia.
Tissue specimens were examined and compartmentalized according to the severity of atherosclerosis lesions using the American Heart Association classification (16 (link)). Segmented tissues were freshly embedded in O.C.T and stored at −80°C as previously described. Segmented tissue sections were stained for ORO as described above to detect lipids and the presence of elastin fibers. Tissues were scanned using 3DHISTECH slide scanner and viewed using Slide Viewer as described above.

Belhoul-Fakir H., Wu J., Yeow Y.L., Musk G.C., Kershaw H., Ingley E., Zhao B.S., Reid C.M., Lagat C., Evans B., Thompson P.L., Brown M.L., Hamzah J, & Jansen S. (2023). Injury to the tunica media initiates atherogenesis in the presence of hyperlipidemia. Frontiers in Cardiovascular Medicine, 10, 1152124.

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Histopathological Evaluation of Kidney Injury

Cited 2 times

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Kidney tissues were fixed, dehydrated, cleared, and embedded in paraffin. The paraffin blocks were sectioned, stained with hematoxylin and eosin (H&E) or periodic acid-Schiff (PAS), and viewed under a slide scanner (3DHISTECH, Budapest, Hungary). The percentage of damaged area was evaluated to assess the severity of tubular injury: 0, 0%; 1, ≤10%; 2, 11–25%; 3, 26–45%; 4, 46–75%; and 5, 76–100% [62 (link),63 (link)]. Tubular injury was examined in 5 arbitrarily chosen fields per sample. For IHC, sections were immunostained with primary antibodies against NGAL (Santa Cruz Biotechnology, Santa Cruz, CA, USA), F4/80 (Santa Cruz Biotechnology), and 4-HNE (Abcam, Cambridge, MA, USA). Then, the slides were probed with secondary antibodies. The percentage of areas stained with NGAL or 4-HNE was analyzed using the i-Solution DT software (IMT i-Solution Inc., Coquitlam, BC, Canada). Five arbitrarily chosen fields per sample were examined. The F4/80-positive cells were examined in 10 arbitrarily chosen fields per sample.

Kim J.Y., Hong H.L., Kim G.M., Leem J, & Kwon H.H. (2021). Protective Effects of Carnosic Acid on Lipopolysaccharide-Induced Acute Kidney Injury in Mice. Molecules, 26(24), 7589.

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Olfactory Damage and Recovery Histopathology

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To determine the olfactory damage and recovery following KDP20 exposure, histopathological analysis, and immunohistochemistry (n = 5 per each group) were performed according to previously reported protocols [50 (link)]. Alcian blue and nuclear fast red (Vector Laboratories. lnc, San Francisco, CA, USA) staining were used to observe the mucin layer, goblet cells, and density. The number of goblet cells per one mm² area, and cell density by number per 100 µm² were quantified in the captured images using Image J 1.52a software. To confirm the expression levels of calretinin, anti-calretinin (Santa Cruz Biotechnology, Dallas, TX, USA) was used. The prepared slides were labeled using an LSAB kit (DAKO, Carpinteria, CA, USA) and observed using a DAB substrate kit (DAKO). The slide images were prepared using a slide scanner (3DHistech, Budapest, Hungary). The optical density of calretinin staining was calculated using Image J 1.52a software.

Song S.J., Park B., Jo K, & Kim C.S. (2021). Damage to Olfactory Organs of Adult Zebrafish Induced by Diesel Particulate Matter. International Journal of Molecular Sciences, 23(1), 407.

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Quantifying Recellularized Kidney Vascularity

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All recellularized kidneys were deparaffinized and immunohistochemically stained with CD31 and Ki‐67 (BD Pharmingen) followed by rabbit anti‐mouse‐HRP (DAKO, Heverlee, Belgium) and NovaRed (Vector Labs, Burlingame, CA) and imaged in a slide scanner (3D Histech). From the recellularized rat kidneys, 1 complete slide per kidney was analyzed. From the human recellularized kidneys, slides of 4 different areas of the kidney cortex were analyzed. From the normal human kidney, control slides of 3 different areas were analyzed. For Ki‐67 quantification, all positive Ki‐67 nuclei were annotated and counted manually. Percentages are given as % of all Hoechst + cells.
For CD31 quantification, all glomeruli within the cortex slides were annotated manually and the amount of filled glomeruli per kidney is depicted in the graph column as % of all glomeruli present. The % of CD31+ area within these filled glomeruli was then calculated using HistoQuant software.
For cortex, medulla, and papilla CD31+ area analysis, the entire subsequent area was annotated and % CD31+ was calculated as percentage of total annotation area using HistoQuant software.

Leuning D.G., Witjas F.M., Maanaoui M., de Graaf A.M., Lievers E., Geuens T., Avramut C.M., Wiersma L.E., van den Berg C.W., Sol W.M., de Boer H., Wang G., LaPointe V.L., van der Vlag J., van Kooten C., van den Berg B.M., Little M.H., Engelse M.A, & Rabelink T.J. (2019). Vascular bioengineering of scaffolds derived from human discarded transplant kidneys using human pluripotent stem cell–derived endothelium. American Journal of Transplantation, 19(5), 1328-1343.

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Quantifying Airway Inflammatory Cells

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Two biopsies per patient were analyzed. Biopsies that were too exiguous and those with areas of artifactual hemorrhage or crushed tissue were not included in the study. The tissue samples were analyzed in a blinded manner, and all slides were digitized using a 3DHistech Slide Scanner (3DHistech, Budapest, Hungary). Eosinophils, neutrophils, tryptase-positive and chymase-positive mast cells, and CD4 + and CD8 + T lymphocytes in the submucosal (SM), airway smooth muscle (ASM), and intraepithelial layers were quantified using Case Viewer for Windows (3DHistech, Budapest, Hungary); for intraepithelial analyses, cells were quantified in completely intact or semi-intact epithelium present in each analyzed airway. The SM layer was defined as that located between the epithelium and the internal ASM border, including the BM and lamina propria [30 (link)]. All analyses were performed as previously described by Ferreira et al., 2018 [29 (link)]. BM thickness and length were measured using Image-Pro® Plus 4.1 (Media Cybernetics, Silver Spring, MD, USA).

Eller M.C., Pierantozzi Vergani K., Saraiva-Romanholo B.M., de Souza Xavier Costa N., de Brito J.M., Antonangelo L., Faria C.S., Rodrigues J.C, & Mauad T. (2022). Bronchial eosinophils, neutrophils, and CD8 + T cells influence asthma control and lung function in schoolchildren and adolescents with severe treatment-resistant asthma. Respiratory Research, 23, 335.

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Histological Analysis of Lung Tissue

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After euthanasia, the lungs were excised. Both lungs were placed in identified cassettes and immersed in neutral buffered formalin (Sigma-Aldrich) at 3.7% for 48 h. After fixing the cassettes, they were placed in 70% alcohol until processing. Processing was performed in an automatic processor. Initially, for the diaphanization stage, tissues were transferred to two baths of 100% alcohol. They were then immersed in two xylol baths followed by two baths in liquefied paraffin. Thick cuts of 5 µm of the tissues in paraffin molds were obtained with the aid of a microtome. The sections were submitted to hematoxylin–eosin stains and Alcian Blue, pH 2.5⁶⁰. The slides were deparaffinized and hydrated with distilled water, immersed in hematoxylin for 10 s, washed in running water for 10 min, stained with eosin for 15 s, washed in distilled water, dehydrated, clarified and mounted on Enthelan (Sigma-Aldrich). The slides were analyzed under light microscopy using the Slide Scanner (3D HISTECH). For histological sections, four infected WT and three infected TLR9^−/− mice were used; three mice for each Sham group (WT and TLR9^−/−) were also used.

da Silva-Junior E.B., Firmino-Cruz L., Guimarães-de-Oliveira J.C., De-Medeiros J.V., de Oliveira Nascimento D., Freire-de-Lima M., de Brito-Gitirana L., Morrot A., Previato J.O., Mendonça-Previato L., Decote-Ricardo D., de Matos Guedes H.L, & Freire-de-Lima C.G. (2021). The role of Toll-like receptor 9 in a murine model of Cryptococcus gattii infection. Scientific Reports, 11, 1407.

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Perfusion-Fixed Brain Sectioning and Imaging

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Animals were anesthetized and perfused with 4% paraformaldehyde and brains were sectioned at 50

μ m

thickness. Every fourth section was mounted on slides and imaged with a slide scanner equipped with a 20x objective lens (3DHISTECH; Budapest, Hungary). In house programs were used to adjust contrast and remove shading caused by uneven lighting. Images were converted to a zoomify-compatible format for web delivery and are available at http://neuroseq.janelia.org.

Sugino K., Clark E., Schulmann A., Shima Y., Wang L., Hunt D.L., Hooks B.M., Tränkner D., Chandrashekar J., Picard S., Lemire A.L., Spruston N., Hantman A.W, & Nelson S.B. (2019). Mapping the transcriptional diversity of genetically and anatomically defined cell populations in the mouse brain. eLife, 8, e38619.

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Histological Analysis of Skin Samples

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Skin samples were fixed in 10% formalin. After routine processing and embedding in paraffin, 5 μm-thick sample sections were cut and then stained with hematoxylin and eosin. The slides were scanned with a slide scanner (3DHISTECH, Budapest, Hungary) at a magnification of ×200.

Chen L.C., Cheng Y.P., Liu C.Y, & Guo J.W. (2022). Lithosepermic Acid Restored the Skin Barrier Functions in the Imiquimod-Induced Psoriasis-like Animal Model. International Journal of Molecular Sciences, 23(11), 6172.

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Immunohistochemical Analysis of Hepatic α-SMA

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The wax blocks of liver tissue were sectioned, dewaxed, and repaired routinely. 3% BSA was dripped into the tissue circle to cover the tissue evenly and, for 30 min, was sealed at room temperature. The samples were then incubated with anti-α-SMA antibody (1:200), and the slices were placed flat in a wet box at 4°C for overnight incubation. The membranes were then incubated with secondary antibodies coupled with anti-rabbit or anti-mouse horseradish peroxidase (HRP). After washing with PBS and incubating with diaminobenzidine (DAB) solution, the nuclei stained with hematoxylin were blue, and the positive expression of DAB was brown. Immunostained samples were observed using a slide scanner (3DHISTECH, Budapest, Hungary).

Liu H., Lu W.L., Hong H.Q., Li M.J., Ye M.P., Rao Q.F., Kong J.L., Luan S.H., Huang Y., Hu Q.H, & Wu F.R. (2022). CaM/CaMKII mediates activation and proliferation of hepatic stellate cells regulated by ASIC1a. Frontiers in Pharmacology, 13, 996667.

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Immunohistochemical Staining Procedure

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Sections were permeabilized with PBS-T (0.1% Triton X-100 in PBS or 0.2% for ex vivo electrophysiology sections) and subsequently blocked with 2% bovine serum albumin (BSA, in PBS-T) for 1 hr to attenuate unspecific binding. Slides were incubated overnight with primary antibodies (Key Resources Table) in BSA at 4°C. Slides were then washed in PBS-T and incubated with fluorescently conjugated secondary antibodies (Key Resources Table) in BSA for 2h at room temperature. After washing, slides were mounted with fluorescence mounting medium (Dako) and images were acquired on a confocal microscope (Zeiss) and slide scanner (3DHistech).

Kargl D., Kaczanowska J., Ulonska S., Groessl F., Piszczek L., Lazovic J., Buehler K, & Haubensak W. (2020). The amygdala instructs insular feedback for affective learning. eLife, 9, e60336.

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