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15 protocols using immpact vector red

1

Quantifying Oxidative DNA Damage in Muscle

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Thin sections of deparaffinized gastrocnemius muscle were treated with immunosaver (Nisshin EM) for antigen retrieval and then with streptavidin and biotin blocking solution (Vector Labs.) and 5% BSA for blocking of tissue. In addition, sections were treated with biotinylated anti-DNA/RNA damage (8-OHdG) antibody [15A3] (Abcam), followed by streptavidin alkaline phosphatase (Vector Labs.). The oxidized nuclei were visualized with ImmPACT Vector Red (Vector Labs.) and contrast staining with hematoxylin. Tissue images were obtained using optical microscope with ×100 tiling mode. After excluding stromal tissue, blood vessels, and blood cells from the images, the number of nuclei clearly identified as 8-OHdG positive (+) and total nuclei were counted using ImageJ Fiji.
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2

Immunohistochemical Profiling of Xenograft Tumors

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UM004 xenografts were excised from mice following seven days of treatment with vehicle, abemaciclib, merestinib, or in combination, fixed in formalin overnight and then embedded in paraffin. After sectioning, paraffin-embedded tissue sections were deparaffinized and antigen retrieval was accomplished using high pH conditional buffer. Sections were incubated with anti-phospho-cMET, phospho-RB, FOXM1, and Ki67 antibody overnight. On the following day, sections were incubated for 30 min in ImmPRESS AP Reagent (Vector Laboratories, Burlingame, CA, USA), followed by incubating for 5 to 10 min in ImmPact Vector Red (Vector Laboratories). Sections were counterstained with hematoxylin. Immunohistochemistry analysis was performed in three tumors from each group.
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3

Detailed Multicolor Staining Protocol

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All rearing, collecting, embryo fixing, staining and RNAi experiments, mounting and imaging were done using standard protocols, as described in previous work [11 (link), 14 (link), 48 (link)]. The main change is that for double staining we used Vector labs ImmPACT Vector Red (SK-5105) and Vector Blue (SK-5300) as the second AP substrates. Full protocols can be provided upon request.
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4

Histological Evaluation of Osteochondral Samples

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Directly after µCT imaging porcine osteochondral samples were fixed for 72 h in 4% formaldehyde and decalcified for 13 to 15 days in Formical® 2000 (StatLab, McKinney, TX, USA). Subsequently, specimens were dehydrated, PCL remnants dissolved via Xylene as intermedium, and samples embedded in paraffin. After cutting off 5 µm serial sections, slides were stained with Safranin O/Fast Green according to standard protocols. Type II collagens were stained with mouse anti-human monoclonal antibodies (MPBiomedicals, Eschwege, Germany; Jackson ImmunoResearch, Ely, United Kingdom) according to standard immune histology protocols with ImmPact Vector Red counterstaining (Vector Laboratories, Burlingame, CA, USA).
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5

Immunohistochemical Localization of HSD3B

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Paraffin sections of testes were prepared as above at 7 µm in thickness, and de-paraffinized and hydrophilized with xylene, ethanol, and Milli-Q water. The sections were boiled for 45 min with 10 mM sodium citrate-HCl (pH 6.0) and treated with 3% H2O2-containing PBS. After the H2O2 treatment, the blocking was performed by soaking the sections with 1% bovine serum albumin in 10 mM Tris-HCl (pH 7.5), 0.88% NaCl, and 0.1% Tween20 for 1 hr at room temperature. An anti-HSD3B antibody (no dilution; Cat# sc-515120, Santa Cruz Biotechnology, Dallas, TX) was reacted with the section for 1 hr at room temperature. After washing with PBS, the sections were subjected to the 2nd antibody reaction for 1 hr at room temperature with a HRP-Labelled Polymer Anti-Mouse (1:4 dilution, Dako). After washing with PBS, the sections were stained with ImmPACT Vector Red (Vector Laboratories, Burlingame, CA) according to the manufacturer’s instructions.
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6

Lung Tissue Immunohistochemistry for Influenza

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Lung tissues from two animals per treatment group and time point were processed and stained as previously described (9 (link)). Antibodies specific for PR8 hemagglutinin protein (catalog number NR-3148; BEI Resources) and Ly6G (clone 1A8; Bio X Cell) were detected with immPACT vector red and diaminobenzidine immPACT DAB, respectively (Vector Laboratories).
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7

Histological Analysis of Porcine Osteochondral Samples

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Directly after micro-CT imaging, porcine osteochondral samples were fixed for 72 h in 4% formaldehyde followed by either decalcification for up to 16 weeks in ethylenediaminetetraacetic acid or 13–15 days in Formical® 2000 (StatLab, USA) (n = 30), respectively, or processed for polymethylmethacrylate (PMMA) embedding (n = 46). Decalcified specimens were dehydrated and dissolved in acetone and xylene for PCL remnants, before samples were embedded in paraffin. After cutting 5 μm serial sections, type II collagens were stained with mouse anti-human monoclonal antibodies (MP Biomedicals, Germany; Jackson ImmunoResearch, UK) according to standard immune histology protocols with ImmPACT Vector Red counterstaining (Vector Laboratories, USA).
PMMA embedded specimens were stained using toluidine blue. Polymerization was completed in an incubator at 37.5°C. Ground sections were cut, mounted on Acropal slides and polished before surface staining with toluidine blue.
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8

Aortic Root Macrophage Quantification

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Aortic roots were harvested from Apoe−/− mice, embedded in OCT (Sakura Finetek), and frozen. Sections 5 μm thick were stained with rat anti-MAC3 antibody (clone M3/84, 1:100; BD Biosciences) followed by a biotinylated antirat secondary antibody (1:300; Vector Laboratories). Vecta Stain ABC kit and ImmPact vector red (both from Vector Laboratories) were used for color development. Next, counterstaining with hematoxylin was carried out. Total plaque size and mac3+ area were analyzed with the use of ImageJ (v2.1.0/1.53c) by taking the average of 6 sections spaced ∼30 μm apart, beginning at the base of the aortic root.
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9

Immunohistochemical and Immunofluorescence Assays

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IHC. Antigen retrieval was performed in low pH Retrieval Solution (Dako, Carpinteria, CA), followed by incubation with pRB antibody (1:50; overnight; 4°C), amplification with rabbit linker (Dako), and detection with Immpress anti-rabbit-AP and Immpact Vector Red (Vector Laboratories; Burlingame, CA). Slides were scanned on an AperioScope (Vista, CA). IF. Cells, plated on coverslips, were fixed (4% formaldehyde), permeabilized (0.1% triton-X), blocked (3% BSA), and incubated with Abl (mouse 8E9; 1:50; overnight, 4°C)34 (link) and BRAF (rabbit H-145; 1:500; 2h, 4°C) antibodies, followed by anti-mouse Alexa-488 and anti-rabbit Alexa-555 secondary antibodies (1:100; Cell Signaling; 1h), and mounted in ProlongGold antifade (Invitrogen). Images were captured on an Olympus Fluoview FV1000 Confocal microscope, 60X objective, V1.7 software, using Arg Ion (488nM excitation for Alexa-488), HeNe (543nm excitation for Alexa-555), and Diode lasers (405nm DAPI).
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10

Quantitative Analysis of CD8+ T Cells

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Formalin-fixed paraffin-embedded tissue obtained from surgical resection of patient tumours was used for IHC analysis. Tumours were processed using an automated Bond Max system (Leica Biosystems, Milton Keynes, UK) as described [35 (link)]. Mouse-anti-human CD8 antibody (Dako) was used at 1:100 dilution, followed by anti-mouse secondary (Abcam, Cambridge, UK) at 1:500; CD8 positivity was detected using ImmPACT Vector Red (Vector Labs, Oxfordshire, UK). Control sections were processed without the addition of primary antibody. Digital images were acquired at ×20 magnification and quantified using ImageScope software (version 12.4.3.5008, Leica Biosystems).
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