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Ndp2 viewer software

Manufactured by Hamamatsu Photonics
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Sourced in Japan

The NDP2 viewer software is a utility provided by Hamamatsu Photonics to display and analyze data from their NDP2 series of products, which are high-performance photon detectors. The software allows users to view and manipulate the acquired data in a user-friendly interface.

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Lab products found in correlation

Nanozoomer slide scanner, by Hamamatsu Photonics (2 mentions) Slide scanner, by Hamamatsu Photonics (2 mentions) Nanozoomer 2ht, by Hamamatsu Photonics (1 mentions) Nis elements software, by Nikon (1 mentions) Eclipse ti, by Nikon (1 mentions)

Close spelling variants of this product

NanoZoomer Digital Pathology (NDP2.0) viewer software

6 protocols using ndp2 viewer software

1

Histological Analysis of Dermal Vasculature

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Fixed examples were embedded in paraffin and the 4 μm sections were stained with hematoxylin and eosin (H&E) for histological analysis. Slides were scanned into digital section by slide scanner and analyzed by NDP2 viewer software (HAMAMATSU Photonics). The dermal vascular area in H&E-stained sections was quantified.
Chen J., Bai Y., Xue K., Li Z., Zhu Z., Li Q., Yu C., Li B., Shen S., Qiao P., Li C., Luo Y., Qiao H., Dang E., Yin W., Gudjonsson J.E., Wang G, & Shao S. (2023). CREB1-driven CXCR4hi neutrophils promote skin inflammation in mouse models and human patients. Nature Communications, 14, 5894.
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2

Colitis Assessment via Histology

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Colons were removed, flushed with cold PBS, cut longitudinally and prepared as swiss rolls. 5μm formalin–fixed, paraffin–embedded tissue sections were H&E stained and slides were scanned with a NanoZoomer slide scanner (Hamamatsu). Tissue sections were investigated using NDP.2 viewer software (Hamamatsu) in a blinded fashion. Colitis scores were assessed using a semi–quantitative score as previously described105 (link).
Mills R.H., Dulai P.S., Vázquez-Baeza Y., Sauceda C., Daniel N., Gerner R.R., Batachari L.E., Ochoa M.M., Zhu Q., Weldon K., Humphrey G., Carrillo-Terrazas M., Goldasich L.D., Bryant M., Raffatellu M., Quinn R.A., Gewirtz A.T., Chassaing B., Chu H., Sandborn W.J., Dorrestein P.C., Knight R, & Gonzalez D.J. (2022). Multi-omics analyses of the Ulcerative Colitis gut microbiome link Bacteroides vulgatus proteases with disease severity. Nature microbiology, 7(2), 262-276.
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3

Histological Analysis of OXA-Induced Tissue

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OXA-induced mouse tissue samples were fixed with 4% paraformaldehyde and embedded in paraffin, followed by staining of the 8-µm paraffin sections with hematoxylin and eosin (H&E; Wako, Osaka, Japan). Slides were scanned using a slide scanner (HAMAMATSU Photonics, Iwata City, Japan) and analyzed using NDP2 viewer software (HAMAMATSU Photonics).
Luo Y., Zhu Z., Li B., Bai X., Fang H., Qiao P., Chen J., Zhang C., Zhi D., Dang E, & Wang G. (2022). Keratin 17 Promotes T Cell Response in Allergic Contact Dermatitis by Upregulating C–C Motif Chemokine Ligand 20. Frontiers in Immunology, 13, 764793.
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4

Colitis Assessment via Histology

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Colons were removed, flushed with cold PBS, cut longitudinally and prepared as swiss rolls. 5μm formalin–fixed, paraffin–embedded tissue sections were H&E stained and slides were scanned with a NanoZoomer slide scanner (Hamamatsu). Tissue sections were investigated using NDP.2 viewer software (Hamamatsu) in a blinded fashion. Colitis scores were assessed using a semi–quantitative score as previously described105 (link).
Mills R.H., Dulai P.S., Vázquez-Baeza Y., Sauceda C., Daniel N., Gerner R.R., Batachari L.E., Ochoa M.M., Zhu Q., Weldon K., Humphrey G., Carrillo-Terrazas M., Goldasich L.D., Bryant M., Raffatellu M., Quinn R.A., Gewirtz A.T., Chassaing B., Chu H., Sandborn W.J., Dorrestein P.C., Knight R, & Gonzalez D.J. (2022). Multi-omics analyses of the Ulcerative Colitis gut microbiome link Bacteroides vulgatus proteases with disease severity. Nature microbiology, 7(2), 262-276.
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5

Histological Examination of Tissue Samples

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Tissue samples from humans and mice were fixed, paraffin-embedded, cut into 8 µm slices, and then deparaffinized using EZ-DeWaxTM (BioGenex, Fremont, USA). The sections were then stained for histological investigation with hematoxylin and eosin (H&E). Slides were studied using NDP2 viewer software (HAMAMATSU Photonics) after being scanned using a slide scanner (HAMAMATSU Photonics, Shizuoka, Japan).
Luo Y., Pang B., Hao J., Li Q., Qiao P., Zhang C., Bai Y., Xiao C., Chen J., Zhi D., Liu Y., Dang E., Wang G, & Li B. (2023). Keratin 17 covalently binds to alpha-enolase and exacerbates proliferation of keratinocytes in psoriasis. International Journal of Biological Sciences, 19(11), 3395-3411.
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6

Quantification of Intestinal Tuft Cells

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Slides were scanned in fluorescent mode on a digital slide scanner, Nanozoomer 2HT, equipped with appropriate filters and NDP2-viewer software (Hamamatsu, JP). Confocal microscope Nikon Eclipse Ti (Nikon, Japan) and NIS elements software (Nikon, Japan) were also used. Tuft cells containing DCLK1-IR, with or without 5HT-IR material, were identified and counted in S1-S5 and LI segments and expressed as relative numbers. The numbers of DCLK1-IR tuft cells, 5HT-IR tuft cells (DCLK1/5HT-IR) and 5HT-IR EC cells were estimated per villus and per crypt. The percentages of tuft cells (DCLK1-IR) in contact with 5HT-IR EC cells and the percentages of 5HT-IR EC cells in contact with tuft cells (DCLK1-IR) were estimated by cell counting in each segment. Contacts were estimated based on close anatomic proximity. At least 120 villi and crypts were included per small intestinal segment; in the large intestine, crypts were evaluated.
Cheng X., Voss U, & Ekblad E. (2019). A novel serotonin-containing tuft cell subpopulation in mouse intestine. Cell and tissue research, 376(2).
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