Ventana benchmark

Manufactured by Roche

Sourced in United States, Switzerland, Germany, United Kingdom, Azerbaijan

The Ventana Benchmark is an automated staining instrument designed for immunohistochemistry and in situ hybridization assays in pathology laboratories. It is capable of performing a variety of staining protocols for the detection of specific proteins or genetic markers in tissue samples.

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Lab products found in correlation

Ultraview universal dab detection kit, by Roche (6 mentions) Bond 3, by Leica (4 mentions) Ventana discovery ultra, by Roche (3 mentions) Iview dab detection kit, by Roche (3 mentions) Benchmark xt, by Roche (2 mentions) Ultraview sish detection kit, by Roche (2 mentions) Rm2165, by Leica (2 mentions) Ultramap dab detection kit, by Roche (2 mentions) Bond polymer refine detection kit, by Leica (2 mentions) Inform hpv 3 family 16 probe b, by Roche (2 mentions) Genpoint, by Agilent Technologies (2 mentions) Ki 67 clone mib 1, by Agilent Technologies (2 mentions) A0452, by Agilent Technologies (2 mentions) Iview hrp system, by Roche (2 mentions) Ab74073, by Abcam (1 mentions) Aperio at2 scanner, by Leica (1 mentions) Qiaamp dna mini kit, by Qiagen (1 mentions) A0564, by Agilent Technologies (1 mentions) Ab5694, by Abcam (1 mentions) P53 clone bp53 11, by Roche (1 mentions)

Close spelling variants of this product

Ventana Benchmark Ultra (285 citations) Ventana BenchMark GX (48 citations) Ventana Benchmark Ultra platform (29 citations) Ventana BenchMark AutoStainer (28 citations) Ventana BenchMark Ultra Autostainer (19 citations) Ventana BenchMark stainer (10 citations) Ventana BenchMark ULTRA Instrument (8 citations) Ventana BenchMark LT (8 citations) Ventana BenchMark TX (4 citations) Ventana BenchMark XT Automated System (3 citations)

101 protocols using ventana benchmark

Immunohistochemistry for Immune Markers

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Immunohistochemistry (IHC) for CD3 and CD8 was performed in a Clinical Laboratory Improvement Amendments–accredited laboratory using a polyclonal rabbit antibody for CD3 (A0452; Dako/Agilent, Santa Clara, CA) and a mouse monoclonal for CD8 (clone C8/C8144B, 760-4250; Cell Marque, Rocklin, CA) on the Ventana Benchmark immunostaining system (Ventana/Roche, Tucson, AZ). IHC for FOXP3 used a rat monoclonal antibody (FJK-16s; Invitrogen/Thermo Fisher, Carlsbad, CA) on the Ventana Discovery Ultra (Ventana/Roche). FOXP3 IHC was unevaluable in a subset of the European American tumors from the matched-race TMA set because of a faulty batch of charged slides, which were incompatible with the Ventana immunostainer. Thus, these data are not included.
p53 IHC was performed on the Ventana Benchmark autostaining system using a mouse monoclonal antibody (BP53-11) after antigen retrieval in CC1 buffer followed by detection with the iView HRP system (Roche/Ventana Medical Systems, Oro Valley, AZ). This protocol was previously validated for detection of TP53 mutations in prostate cancer [9 (link)].

Kaur H.B., Lu J., Guedes L.B., Maldonado L., Reitz L., Barber J.R., De Marzo A.M., Tomlins S.A., Sfanos K.S., Eisenberger M., Schaeffer E.M., Joshu C.E, & Lotan T.L. (2019). TP53 missense mutation is associated with increased tumor-infiltrating T cells in primary prostate cancer. Human pathology, 87, 95-102.

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CD44 Expression Immunostaining Protocol

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The slides were stained for CD44 expression using an automated Ventana Benchmark staining machine (Ventana Medical Systems). Citrate buffer at pH 8.0 for 8 min at 94 C and EDTA buffer for 4 min at 100 C were applied for antigen retrieval.
Thereafter, the primary antibody CD44 monoclonal IgG2a, diluted 1/100 (MA5-13890, ThermoFisher Scientific) was applied, followed by incubation for 32 min. The slides were then counterstained in a Ventana Benchmark staining machine with hematoxylin and bluing reagent (lithium carbonate).
Secondary antibodies part of AEC Detection Kit (760-020) for Ventana Benchmark XT (Ventana Medical Systems, Inc, Roche), were used for detection.
Human skin was used as positive control. Staining without primary antibody was used as negative control.

Holm A., Hellman U., Laurent C., Laurell G., Nylander K, & Olofsson K. (2018). Hyaluronan in vocal folds and false vocal folds in patients with recurrent respiratory papillomatosis. Acta oto-laryngologica, 138(11).

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DONSON Expression in Renal Cancer

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DONSON protein expression was investigated using a clinically annotated TMA from paraffin-embedded renal and cancerous tissue as described previously (KIRC N = 124, KIRP N = 29, KICH N = 10, NAT N = 21) [17 ,18 (link)]. 5 μm thick paraffin sections were stained with the specific polyclonal DONSON antibody in a 1:50 dilution (HPA039558, Atlas Antibodies, Bromma, Sweden) using the Ventana Benchmark automated staining system (Ventana Medical System, Tuscon, AZ, USA) as formerly described [19 (link),20 ].
The DONSON protein expression was quantified as an H-score with the semi-quantitative QuPath image analysis software [21 (link)]. First, the morphology of the RCC was trained to the algorithm in order to get the automated recognition of the tumor samples with evaluation of the DONSON expression as H-score in the second step.

Klümper N., Blajan I., Schmidt D., Kristiansen G., Toma M., Hölzel M., Ritter M, & Ellinger J. (2020). Downstream neighbor of SON (DONSON) is associated with unfavorable survival across diverse cancers with oncogenic properties in clear cell renal cell carcinoma. Translational Oncology, 13(11), 100844.

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Immunohistochemical Analysis of Tumor Proliferation and Angiogenesis

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IHC was performed with the Ventana Benchmark automated staining system (Ventana Medical Systems, Tucson, AZ) on 4-μm paraffin sections. The slides were deparaffinized in xylene and rehydrated through a graded series of ethanol concentrations. Tissue sections were stained using the following primary antibody: Ki67 (1:100, Spring Bioscience, CA); CD31 (1:100, Cell Marque, CA, USA); S100 (1:100, Cell Marque) and loaded into a Benchmark XT (Ventana Medical Systems Inc, Tucson, AZ) automated stainer. Primary antibodies were detected with the Ventana iVIEW DAB detection kit. Scoring of Ki67 and CD31 protein expression was interpreted independently by an expert gastrointestinal pathologist (SO). For quantification of the proliferation, the percentage of Ki67-positive nuclei was determined in five of the most proliferating areas within a tumor (“hot spots”) (×200 magnification, n = 10). To quantify angiogenesis, blood vessels/cells were counted in a representative high-power (×200) field. Blood vessel density was calculated as the mean ± SD of all counts (×200 magnification, n = 10) (10 (link), 23 (link)).

Kersy O., Loewenstein S., Lubezky N., Sher O., Simon N.B., Klausner J.M, & Lahat G. (2019). Omental Tissue-Mediated Tumorigenesis of Gastric Cancer Peritoneal Metastases. Frontiers in Oncology, 9, 1267.

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Immunohistochemical Analysis of Melanoma Markers

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For the mouse experiments: skin samples were fixed with 4% formaldehyde and frozen in OCT compound. For immunohistochemistry, sections were stained as previously described [20] (link). Anti-Dct (rabbit, ab74073, Abcam) was used.
Sections of 2 μm from a tissue TMA were stained with antibodies against Melan A, Hif-1α, TRP-2 and Mib-1. The immunohistochemical staining for all antigens was performed on automated staining systems Melan A, TRP-2/Mib-1 on Ventana Bench Mark, Ventana Medical Systems, Tucson, AZ, USA and Hif-1α on Bond Refine, Vision BioSystems Ltd, Newcastle Upon Tyne, UK. The following antibodies were used: Hif-1α clone mgc3 (Abcam Limited), dilution 1:400; Melan A clone A103 (DAKO A/S), dilution 1:30; Mib-1 clone 30–9 (Ventana-Roche), prediluted.

Lenggenhager D., Curioni-Fontecedro A., Storz M., Shakhova O., Sommer L., Widmer D.S., Seifert B., Moch H., Dummer R, & Mihic-Probst D. (2014). An Aggressive Hypoxia Related Subpopulation of Melanoma Cells is TRP-2 Negative. Translational Oncology, 7(2), 206-212.

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CD8 Immunohistochemistry Protocol

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CD8 immunohistochemistry (clone CD8/144B, Dako M7103) was performed on tissue sections from the formalin-fixed paraffin-embedded blocks, after pre-treatment of the tissue, on the Ventana Benchmark automated slide stainer (Ventana Medical System). The antibody was diluted to a concentration of 1:40, and DAB (3,3′-diaminobenzidine) was used as the colour reagent for visualisation. All slides were counterstained with haematoxylin for visualisation of the nuclei. Appropriate positive and negative controls were utilised for all cases. The haematoxylin- and eosin-stained slides, along with the CD8-stained slides, were then digitised using an Aperio AT2 scanner (Leica).

Monaco S.E., Dacic S., Seigh L., Hartman D.J., Xing J, & Pantanowitz L. (2020). Quantitative image analysis for CD8 score in lung small biopsies and cytology cell-blocks. Cytopathology : official journal of the British Society for Clinical Cytology, 31(5), 393-401.

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Targeted Genetic Profiling of Lung Cancer

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Genomic DNA of EGFR and KRAS was isolated from paraffin-embedded tissues using the QIAamp DNA mini-Kit (Qiagen, Valencia, CA) according to the manufacturer’s instructions. EGFR tyrosine kinase exons 18, 19, 20, 21, and KRAS exon 2 were detected by amplification refractory mutation system (ARMS) based polymerase chain reaction (PCR), using the ACCB Gene mutation Detection Kit (ACCB Biotech Ltd, Beijing, China).
ROS1 was detected by IHC staining (clone D4D6, Cell Signaling Technology Inc, Shanghai, China) and ROS1 gene rearrangement was verified by PCR using ROS1 fusion gene detection kit (Ed biopharmaceutical company, China). ALK was detected only by IHC with intense cytoplasmic granular staining, for a high consistency between IHC positive expression and gene rearrangement of ALK. Automated IHC for ALK rearrangement was performed using an anti-ALK monoclonal antibody (D5F3, Roche) using the OptiView DAB IHC Detection kit and OptiView Amplification kit (Spring Bioscience, Ventana, Tucson, AZ, USA). IHC staining of ALK and ROS1 was performed automatically using Ventana BenchMark ultra automated staining platform (Ventana Medical Systems Inc., Tucson, AZ, USA).

Wu J., Sun W., Wang H., Huang X., Wang X., Jiang W., Jia L., Wang P., Feng Q, & Lin D. (2019). The correlation and overlaps between PD-L1 expression and classical genomic aberrations in Chinese lung adenocarcinoma patients: a single center case series. Cancer Biology & Medicine, 16(4), 811-821.

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Immunohistochemical Analysis of Tissue Biopsies

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The formalin-fixed biopsies were paraffin-embedded and sectioned for Haematoxylin & Eosin (HTEX) and immunohistochemical staining. Primary antibodies used were; rabbit anti-cytokeratin 18 (CK18) at 1/50 dilution (ab52948, Abcam, Cambridge, United Kingdom) and rabbit anti-alpha smooth muscle actin (aSMA) at 1/200 dilution (ab5694, Abcam, Cambridge, United Kingdom). Antibody staining’s were performed using an automated Ventana Benchmark staining machine (Ventana Medical Systems, Tucson, AZ, USA). Antigens were retrieved with citrate buffer at pH 6.0 for 8 min at 94 °C. For validation of islet AF on cryosections, guinea pig anti-Insulin (A0564, DAKO) at 1/500 and Alexa Fluor 488 goat anti-guinea pig, dilution 1/500 (A11073, Invitrogen Thermo Fisher Scientific) were used.

Hahn M., Nord C., Franklin O., Alanentalo T., Mettävainio M.I., Morini F., Eriksson M., Korsgren O., Sund M, & Ahlgren U. (2020). Mesoscopic 3D imaging of pancreatic cancer and Langerhans islets based on tissue autofluorescence. Scientific Reports, 10, 18246.

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HER2 SISH Evaluation Protocol

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We performed HER2 SISH on the Ventana Benchmark automated instrument (Ventana Medical Systems, Tucson, AZ, USA), according to the manufacturer’s protocols for INFORM HER2 DNA and chromosome 17 probes. We performed testing for the HER2 gene and chromosome 17 on sequential sections. Two sections were baked at 60 °C for 20 min. The HER2 DNA probe was denatured at 95 °C for 12 min, and hybridization was performed at 52 °C for 2 h. The chromosome 17 probe was denatured at 95 °C for 12 min, and hybridization was performed at 44 °C for 2 h. After hybridization, appropriate stringency washes were performed three times at 72 °C for the HER2 probe and three times at 59 °C for the chromosome 17 probe. Both DNP-labeled probes were visualized using a rabbit anti-DNP primary antibody and the ultraView SISH Detection Kit (Ventana). The slides were counterstained with hematoxylin for examination by light microscopy. Evaluation of HER2 gene amplification status was performed in a blinded manner using the ASCO/CAP guidelines [20 (link)].

Park C., Park K., Kim J., Sin Y., Park I., Cho H., Yang K., Bae B.N., Kim K.W., Ahn S, & Gwak G. (2016). Prognostic values of negative estrogen or progesterone receptor expression in patients with luminal B HER2-negative breast cancer. World Journal of Surgical Oncology, 14(1), 244.

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Immunohistochemical Analysis of Tumor Markers in TETs

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In our clinical institute of pathology, tumor sections are processed from the capsule, every 1–2 cm of tumor tissue and from tumor regions, which appear different on gross inspection. However, our immunohistochemical analyses were done on selected slides from one block per patient that represented the main tumor component with a very homogenous histology.
Formaldehyde-fixed and paraffin embedded human specimens of all patients (n = 95) with TETs were available for immunohistochemical stainings. Staining was performed by using the automated Ventana Benchmark® platform (Ventana Medical Systems, Tucson, AZ, USA) according to standard protocol of the Clinical Institute of Pathology^{46 (link)}. We used monoclonal rabbit anti-human Anti-Activin A Receptor Type IB antibody (ab204655, Abcam, Cambridge, UK) and monoclonal mouse anti-human Follistatin antibody IgG_2a (MAB669, R&D Systems, Minneapolis, MN, USA) as primary antibodies to assess Activin A and Follistatin expression in TETs. In addition, we used monoclonal mouse anti-human CD34 antibody (LEICA, NovoCastra, Clone QBEnd/10, Nussloch, Germany) to assess microvascular density.

Janik S., Bekos C., Hacker P., Raunegger T., Schiefer A.I., Müllauer L., Veraar C., Dome B., Klepetko W., Ankersmit H.J, & Moser B. (2019). Follistatin impacts Tumor Angiogenesis and Outcome in Thymic Epithelial Tumors. Scientific Reports, 9, 17359.

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