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11 protocols using pressure cooker

1

Immunofluorescence Analysis of Pancreatic Islets

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Paraffin sections (5 μm thick) were rehydrated, and antigen retrieval was performed using a Biocare pressure cooker and citrate (pH 6) buffer. The following primary antibodies were used: guinea pig anti-insulin (1:200; Dako), mouse anti-glucagon (1:800; Abcam), rabbit anti-glucagon (1:8000; Abcam), and mouse anti-BrdU (1:300; GE healthcare). For DNA counterstaining we used DAPI (Sigma). Secondary antibodies from Jackson ImmunoResearch were as follows: anti-guinea pig Alexa Fluor 488 (1:200), anti-mouse Cy3 (1:500), and anti-mouse Alexa Fluor 647 (1:500). Immunofluorescence images were captured using a Nikon confocal microscope. To assess β cell replication, at least 2000 β cells were counted per animal, and at least two slides at a distance of >200 µm were analyzed.
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2

Immunohistochemical Analysis of CDX2 and HNF4A

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Formalin-fixed, paraffin-embedded tissue sections (4 μm) were baked overnight at 37°C, deparaffinized, and rehydrated (100% xylene four times for 3 min each, 100% ethanol four times for 3 min each, and running water for 5 min). Sections were treated with 1.5% H2O2 in methanol for 10 min, washed under running water for 5 min, and placed in a pressure cooker (Biocare Medical) at 120°C in target retrieval solution (pH 6.1 citrate buffer) (DAKO). After cooling and transfer to Tris-buffered saline, consecutive sections were incubated for 40 min at room temperature with anti-CDX2 mouse monoclonal antibody (mAb; 1:150; BioGenex clone CDX2-88) or anti-HNF4A rabbit mAb (1:250; Cell Signaling clone C11F12), followed by secondary antibody (Envision+ mouse or rabbit [DAKO]) for 30 min. Stains were developed using 3,3′-diaminobenzidine (brown product) and counterstained with Mayer's hematoxylin.
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3

Dual Immunofluorescence Staining of PD-L1 and COX-2

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Double-fluorescence staining of PD-L1 and COX-2 were conducted on a total of 12 representative FFPE tissue sections, 6 each from primary and metastatic lesions, including both positive and negative for PD-L1 (clone SP-142) or COX-2 (clone CX-294) at IHC staining. Following their deparaffinization and hydration, prepared slides were incubated with antigen retrieval in a pressure cooker (Biocare) for 10 min at 110 °C. Following an incubation with protein blocking, slides were incubated with a cocktail of PD-L1- and COX-2-specific mAbs at RT. Primary antibodies were detected utilizing a cocktail of goat anti-mouse IgG dylight 488 and goat anti-rabbit IgG dylight 594. After washing for two times, nuclei were stained with DAPI at RT for 10 min, and stored at 4 °C. The slides were examined using a fluorescent microscope (Olympus BX61).
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4

Morphological Analysis of Mouse Mandibular Molars

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Mouse mandibles (n = 4 mice/genotype at P20, P30, and P120) were sectioned and were fixed in 4% paraformaldehyde/phosphate-buffered saline (PBS) overnight, then were decalcified and embedded in paraffin, and sectioned at 6 μm. Histological structures of mouse mandibular first molars were visualized using hematoxylin-eosin staining protocol. For immunohistochemical staining, antigen retrieval was performed in citrate buffer (pH 6.0) using a pressure cooker (Biocare Medical, Concord/California, biocare.net, DC2008). The primary antibodies used in the immunohistochemistry analyses were Tgfbr2 (Santa Cruz, sc-17792), β-catenin (BD Transduction Laboratories, 610153). Bound antibodies were visualized with diaminobenzidine, and sections were counterstained with hematoxylin, and observed under microscopy (Nikon, Eclipse E600).
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5

Immunohistochemical Analysis of CDK4, MDM2, and GPS2 in Liposarcoma

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Commercially available monoclonal antibodies against CDK4 (Clone DCS-31, 1:50, Invitrogen), MDM2 (Clone IF-2,1:75, Zymed Laboratories), and GPS2 (1:100)were used. Anti-GPS2 antibodies for Western blotting were made by our lab (1:100). All WDLPS and DDLPS cases were stained for CDK4, MDM2, and GPS2 by immunohistochemistry. Sections were deparaffinized and rehydrated in graded alcohol. For heat-induced epitoperetrieval (HIER), the sections were subjected to DIVA retrieval buffer (pH 6.0) in a pressure cooker (Biocare Medical) at 98 °C for 60 min. The sections were then brought to an automated stainer (DAKO) following the vendor’s protocol. EnVisionPlus and peroxidase detection methods were used and counterstained in 50 % Mayer’s hematoxylin for 1 min. Nuclear CDK4 immunoreactivity, nuclear and cytoplasmicMDM2 immunoreactivity, and nuclear GPS2 immunoreactivity were assessed. Those cases with more than 1 % of tumor cells showing positive staining were assessed as positive. The staining was graded as + (1–5 % tumor cells positive),++ (5–24 % tumor cells positive), and +++ (>25 % tumor cells positive). The immunohistochemistry staining results of patients were shown as heat maps.
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Antibody Reactivity in Reproductive Tissues

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Antibodies were tested for reactivity on a variety of human reproductive tract tissues (cauda epididymis, vas deferens, vagina) and tonsil. Paraffin-embedded tissues were sectioned at 5 µm, de-waxed, hydrated, and subjected to antigen retrieval which was carried out by immersing the sections in a citrate buffer, pH 6, and then placing the tissues in a pressure cooker that was heated to 125°C for 30 seconds (Biocare Medical, Concord, CA). The sections were incubated with Cy3-labeled HCA or VRC01 (conjugation kit: Abcam, Cambridge, MA, USA) at a 1:20 dilution overnight at 4°C. Finally, the sections were mounted in AntiFade Mounting Medium with DAPI. All sections were examined under an Olympus microscope (Olympus America Inc. Melville, NY) fitted with epifluorescence imaging and images were captured with a digital camera.
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7

Multiplex Immunofluorescence Staining for CD4+ and CD8+ T Cells

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All specimens were sectioned into 5 μm sections from formalin-fixed, paraffin-embedded tissue. Sections were dewaxed in xylene and rehydrated using serial ethanol baths in decreasing concentrations. Specimens were histopathologically evaluated with conventional hematoxylin and eosin (H&E) staining. Further evaluation was performed via immunofluorescence staining. Antigen retrieval was performed with citrate buffer pH 6 (Agilent Dako) in a pressure cooker (BioCare Medical) programmed at 110°C for 15 min. Sections were incubated with primary antibodies rabbit-anti-human CD4 (Novus Biologicals) at 1:200 and mouse-anti-human CD8 (Abcam) at 1:50 overnight at 4°C. Afterward, biotinylated secondary antibodies goat-anti-rabbit (Vector) and horse-anti-mouse (Vector) were both incubated at 1:200 for 1 h at room temperature followed by Streptavidin-AF546 conjugate (Invitrogen) and Streptavidin-AF647 conjugate (Invitrogen), respectively, for 30 min at room temperature. Sections were mounted with ProLong Gold Antifade Reagent with DAPI (Invitrogen) and coverslipped. Immunofluorescence-stained sections were photographed using a fluorescence microscope (EVOS FL Auto 2, Invitrogen) and processed with ImageJ software.
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8

Immunofluorescent Staining of Mouse Pancreas

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The mouse pancreatic sections were processed as follows: first, they were deparaffinized in xylene, rehydrated in series of alcohol concentrations and double distilled water. Antigen retrieval was then performed using a pressure cooker (Biocare Medical) and 10 mM citrate buffer (pH=6). The sections were blocked with CAS-Block (Life technologies) and incubated overnight at 4°C with the following primary antibodies: guinea pig anti-insulin (1:5; Cat#A0564, DAKO, RRID:AB_10013624), mouse anti-glucagon (1:200; Cat#K79bB10, Abcam, RRID:AB_297642), and rabbit anti-somatostatin (1:200; Cat#ab108456, Abcam, RRID:AB_11158517). DAPI (1:100; Cat#D9542, Sigma-Aldrich) was used for DNA counterstaining. After washing three times in 1xPBS, the sections were incubated with secondary antibodies diluted in 1% PBS/BSA for 2 h at room temperature: guinea pig Cy2 (1:200) for anti-insulin antibody detection, mouse Cy3 (1:300) for anti-glucagon antibody detection, and rabbit Cy5 (1:400) for anti-somatostatin antibody detection. All secondary antibodies were purchased from Jackson ImmunoResearch. Following staining, the sections were mounted with aqueous mounting medium and covered with a coverslip. Images were acquired using an Olympus confocal microscope at 40X magnification. Quantification of images was performed using the ImageJ software.
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9

Immunofluorescence Imaging of PDGF and PDGFR in 3D Cell Cultures

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IHCs were performed on paraffin sections (4–5 μm) of NMF and BJ3Z cells cultured in 3D colonies as described [30 (link)]. They used antibodies directed against PDGF-A (sc-7958; rabbit polyclonal, Santa Cruz), PDGF-B (sc-7878; rabbit polyclonal, Santa Cruz), PDGFR-α (AF1062; goat polyclonal, R&D systems) and PDGFR-β (AF1042; goat polyclonal, R&D systems). Briefly, sections were deparaffinized and antigen retrieval was performed in a pressure cooker (Bio-care Medical) at 20 psi for 5 min in citrate buffer (10 mM sodium citrate, 0.05% Tween-20, pH 6.0). Sections were blocked 30 min with 10% normal goat serum and primary antibodies were applied for 1 hr. Fluorescent secondary antibodies were: Alexa fluor 555 (red) donkey anti-goat IgG (1:300) and Alexa fluor 488 (green) goat anti- rabbit IgG (1:400; both Invitrogen). Cell nuclei were counterstained with 4-6-Diamidino-2-phenylindole (DAPI). Fluorescent images were obtained using a Nikon Eclipse E600 fluorescent microscope coupled to a RGB-MSC micro color camera, and Image Pro Plus software version 4.5 (Media Cybernetics, Silver Spring, MD).
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10

Immunohistochemical Staining of FFPE Tissue

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Formalin fixed paraffin embedded tissue sections were stained with antibodies detailed in (Table 2). Slides were stained with a Leica Bond autostainer (Leica Biosystems) using the Refine staining kit (DS9800). The standard protocol F was followed with the exception of the primary antibody incubation time which was extended to 60 minutes. For fluorescent staining (ALK, Galectin 9), slides were processed by hand using standard methods. Briefly, slides were deparaffinized in xylene and rehydrated in a descending series of ethanol. Antigen retrieval was performed using a pressure cooker (Biocare Medical) with antigen unmasking solution (Vector Labs). Blocking was performed in 0.5% SDS for 20 minutes, followed by 2% fetal bovine serum for 20 minutes. Primary antibodies were incubated at room temperature for 60 minutes followed by appropriate Alexa fluor 488 or 594 Secondary antibody incubation (Invitrogen) at a 1:200 dilution for 1 hour at room temperature. Slides were counter stained with DAPI (Sigma) and scanned at 20x magnification using an Aperio CS-O (brightfield) or fluorescent scanner. Results of IHC staining pattern were reviewed with a single pathologist and graded as “negative”, “rare” or “positive” (Figure 1).
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