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Tissue ia image analysis software

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Tissue IA is an image analysis software developed by Leica. It is designed to analyze digital microscopy images of tissue samples. The software provides tools for segmentation, quantification, and analysis of various tissue features and structures.

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Lab products found in correlation

Scn400 slide scanner, by Leica (5 mentions) Iview dab detection kit, by Roche (4 mentions) Bond max, by Leica (4 mentions) Cleaved caspase 8, by Novus Biologicals (1 mentions) P c jun, by Abcam (1 mentions) γh2ax, by Novus Biologicals (1 mentions) Pchk1, by Novus Biologicals (1 mentions) F4 80, by Bio-Rad (1 mentions) Slidepath, by Leica (1 mentions) Cleaved caspase 3, by BD (1 mentions) Horseradish peroxidase, by Thermo Fisher Scientific (1 mentions) Bond max system, by Leica (1 mentions) Bond polymer refine detection kit, by Leica (1 mentions)

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Image analysis software (13 citations) Tissue IA (8 citations)

6 protocols using tissue ia image analysis software

1

Immunohistochemical Analysis of Liver Tissue

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Sections (2μm) of livers (fixed in 4% paraformaldehyde and paraffin-embedded) were stained with the indicated antibodies. Incubation in Ventana buffer and staining was performed on a NEXES immunohistochemistry robot (Ventana Instruments) using an IVIEW DAB Detection Kit (Ventana) or on a Bond MAX (Leica). For quantification of stainings, slides were scanned using a SCN400 slide scanner (Leica) and analyzed using Tissue IA image analysis software (Slidepath, Leica).
Herranz N., Gallage S., Mellone M., Wuestefeld T., Klotz S., Hanley C.J., Raguz S., Acosta J.C., Innes A.J., Banito A., Georgilis A., Montoya A., Wolter K., Dharmalingam G., Faull P., Carroll T., Martínez-Barbera J.P., Cutillas P., Reisinger F., Heikenwalder M., Miller R.A., Withers D., Zender L., Thomas G.J, & Gil J. (2015). mTOR regulates MAPKAPK2 translation to control the senescence-associated secretory phenotype. Nature cell biology, 17(9), 1205-1217.
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2

Immunohistochemical Analysis of Liver Tissue

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Sections (2μm) of livers (fixed in 4% paraformaldehyde and paraffin-embedded) were stained with the indicated antibodies. Incubation in Ventana buffer and staining was performed on a NEXES immunohistochemistry robot (Ventana Instruments) using an IVIEW DAB Detection Kit (Ventana) or on a Bond MAX (Leica). For quantification of stainings, slides were scanned using a SCN400 slide scanner (Leica) and analyzed using Tissue IA image analysis software (Slidepath, Leica).
Herranz N., Gallage S., Mellone M., Wuestefeld T., Klotz S., Hanley C.J., Raguz S., Acosta J.C., Innes A.J., Banito A., Georgilis A., Montoya A., Wolter K., Dharmalingam G., Faull P., Carroll T., Martínez-Barbera J.P., Cutillas P., Reisinger F., Heikenwalder M., Miller R.A., Withers D., Zender L., Thomas G.J, & Gil J. (2015). mTOR regulates MAPKAPK2 translation to control the senescence-associated secretory phenotype. Nature cell biology, 17(9), 1205-1217.
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3

Immunohistochemical Staining and Analysis

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Paraffin sections were stained manually with haematoxylin and eosin or on a Bond MAX immunohistochemistry robot (Leica) with antibodies at concentrations listed in Supplementary Table 4. For immunohistochemical detection, the Bond MAX DAB-Kit (Bond Polymer Refine Detection, DS9800) was used for double staining of melan A and MCAM in combination with the Bond MAX Fast Red-Kit (Bond Polymer Refine Red Detection, DS9390). Slides were scanned using a SCN400 slide scanner (Leica) and analysed using the Tissue IA image analysis software (Slidepath, Leica).
Lorentzen A., Becker P.F., Kosla J., Saini M., Weidele K., Ronchi P., Klein C., Wolf M.J., Geist F., Seubert B., Ringelhan M., Mihic-Probst D., Esser K., Roblek M., Kuehne F., Bianco G., O’Connor T., Müller Q., Schuck K., Lange S., Hartmann D., Spaich S., Groß O., Utikal J., Haferkamp S., Sprick M.R., Damle-Vartak A., Hapfelmeier A., Hüser N., Protzer U., Trumpp A., Saur D., Vartak N., Klein C.A., Polzer B., Borsig L, & Heikenwalder M. (2018). Single cell polarity in liquid phase facilitates tumour metastasis. Nature Communications, 9, 887.
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4

Immunohistochemical Analysis of Liver Tissues

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Sections (2 μm) of livers (fixed in 4% paraformaldehyde and paraffin-embedded) were stained with Hematoxylin/Eosin or various antibodies. Incubation in Ventana buffer and staining was performed on a NEXES immunohistochemistry robot (Ventana Instruments) using an IVIEW DAB Detection Kit (Ventana) or on a Bond MAX (Leica). Immunostainings were performed as described before (Wolf et al., 2014 (link)) with antibodies against the following proteins: Ki67, 1:200 dilution (SP6, NeoMarkers / Lab Vision Corporation); γH2AX, 1:300 dilution (Novus Biologicals); p-cJUN, 1:100 (Abcam); cleaved-Caspase8, 1:500; p-CHK1, 1:50 and p-CHK2, 1:500 (Novus Biologicals). For virtual microscopy and archiving, histological and immunohistochemical images were digitalized using a Nano Zoomer C9600 Virtual Slide Light microscope scanner by Hamamatsu using NDP, View Software, version 1.2.36. Alternatively, for quantification of stainings, slides were scanned using a SCN 400 slide scanner (Leica) and analyzed using Tissue IA image analysis software (Slidepath, Leica).
Boege Y., Malehmir M., Healy M.E., Bettermann K., Lorentzen A., Vucur M., Ahuja A.K., Böhm F., Mertens J.C., Shimizu Y., Frick L., Remouchamps C., Mutreja K., Kähne T., Sundaravinayagam D., Wolf M.J., Rehrauer H., Koppe C., Speicher T., Padrissa-Altés S., Maire R., Schattenberg J.M., Jeong J.S., Liu L., Zwirner S., Boger R., Hüser N., Davis R.J., Müllhaupt B., Moch H., Schulze-Bergkamen H., Clavien P.A., Werner S., Borsig L., Luther S.A., Jost P.J., Weinlich R., Unger K., Behrens A., Hillert L., Dillon C., Di Virgilio M., Wallach D., Dejardin E., Zender L., Naumann M., Walczak H., Green D.R., Lopes M., Lavrik I., Luedde T., Heikenwalder M, & Weber A. (2017). A Dual Role of Caspase-8 in Triggering and Sensing Proliferation-Associated DNA Damage, a Key Determinant of Liver Cancer Development. Cancer Cell, 32(3), 342-359.e10.
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5

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.
Roblek M., Protsyuk D., Becker P.F., Stefanescu C., Gorzelanny C., Glaus Garzon J.F., Knopfova L., Heikenwalder M., Luckow B., Schneider S.W, & Borsig L. (2018). CCL2 is a vascular permeability factor inducing CCR2-dependent endothelial retraction during lung metastasis. Molecular cancer research : MCR, 17(3), 783-793.
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6

Hepatitis B Surface Antigen Localization in Liver Tissue

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For HBs-staining, liver specimens of HBV-transgenic mice (strain HBV1.3.3.2) (Guidotti et al., 1996) and chronic hepatitis patients who had developed HCC were fixed in 4% paraformaldehyde (PFA)
for 24 hr before paraffin embedding; 2-μm tissue sections were collected and stained by IHC. To analyse the location of HBs, sections were stained with polyclonal anti-HBs antibodies such as 70-HG15
(goat; Fitzgerald, Acton, Massachusetts) and MoMab (human) and accordingly secondary antibodies were coupled to horseradish peroxidase (Thermo Fisher Scientific, Carlsbad, California). Histological analysis of the 2-μm paraffin-embedded tissue sections was performed with the Bond Polymer Refine Detection Kit (Leica, Wetzlar, Germany) on a BondMax system (Leica). Images of the HBs and MoMab stainings were documented by scanning the whole slides using an SCN-400 slide canner (Leica) and analysed using Tissue IA image analysis software (Leica) with optimised quantification algorithms.
Zhao L., Chen F., Quitt O., Festag M., Ringelhan M., Wisskirchen K., Festag J., Yakovleva L., Sureau C., Bohne F., Aichler M., Bruss V., Shevtsov M., van de Klundert M., Momburg F., Möhl B.S, & Protzer U. (2021). Hepatitis B virus envelope proteins can serve as therapeutic targets embedded in the host cell plasma membrane. Cellular microbiology, 23(12).
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