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12 protocols using ber ep4

1

Isolation and Culture of EpCAM+ Cells

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Huh7 cells were trypsinized, washed, and resuspended in Hank’s balanced salt solution (Lonza, Basel, Switzerland) supplemented with 1% HEPES and 2% PBS. Cells were incubated with the fluorescein isothiocyanate-conjugated anti-EpCAM monoclonal antibody BER-EP4 (DAKO) on ice for 30 min prior to cell sorting using FACSAriaII (BD Biosciences, San Jose, CA, USA). Sorted cells were harvested on dishes and cultured overnight for PCR analysis.
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2

Detecting Tumor Cells in Bone Marrow

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Mononuclear cell fractions from bone marrow blood were centrifuged as cytospins (Cytospin Centrifuge, Hettich, Germany) using 5x105 cells per spot and slide. Slides were air-dried and stored dry and tightly sealed at -20 °C until further use. Cells were stained after 5 minutes aceton fixation, either with the primary pan-cytokeratin antibody A45-B/B3 detecting CK8, CK18 and CK19 (AS Diagnostik, Germany) or anti-EpCAM antibody BER-EP4 (Dako, Hamburg) using the Dako REAL detection system (Dako, Hamburg, Germany). Cytospins were analysed with an ACIS (automated cellular imaging system; Chromavision medical systems, St. Juan Capistrano, CA, USA) followed by manual microscopy by an independent scientist. Only positive cells with distinct morphological signs of a tumor cell were counted as positive cells [18 (link)]. Detection of at least one positive tumor cell regarded this patient as a positive case.
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3

Flow Cytometry for Immune Phenotyping

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Flow cytometry for surface and intracellular staining was performed using standard protocols [52 (link)]. Cells were stained with: CD3 (SP34), CD4 (L200), CCR5 (3A9), Epithelial antigen (Ber-EP4, Dako), TNF-α (MAB11), IFN-γ (B27), Granzyme B (GB11), IL-2 (MA1–17H12), IL-17 (eBio64CAP17, eBioscience), IL-21 (3A3-N2.1) and IL-22 (IL22JOP, eBioscience), Ki67 (B56), LIVE/DEAD Fixable Aqua Dead Cell Stain Kit (Invitrogen, Grand Island, NY), All antibodies and reagents were purchased from BD Biosciences Pharmingen (San Diego, CA) unless otherwise noted. Samples were resuspended in BD Stabilizing Fixative (BD Biosciences) and acquired on a FACS Calibur or LSRII flow cytometer (Becton Dickinson, San Jose, CA). Data was analyzed with Flow Jo software (Tree star, Ashland, OR).
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4

Immunohistochemical Analysis of Basal Cell Carcinoma

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Blocks of paraffin‐embedded, formalin‐fixed tissues from BCC shave biopsies were used for IHC. Briefly, shave biopsies were fixed overnight in 4% formaldehyde then dehydrated and put in paraffin. 4um cuts were produced and were used to perform IHC. Sections were stained with H&E. For immunohistochemistry, the following primary antibodies were used for automated staining on a VENTANA BenchMark Ultra immunohistochemistry staining system (Roche): Ki67 (DAKO, M7240, 1:50) and BerEP4 (Dako. M0804, 1:300). Images were scanned with Aperio ImageScope Slide Scanner.
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5

Flow Cytometry Protocol for EMT Markers

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Flow cytometric analyses were performed as described previously,14 using the following antibodies: anti‐CDH1 (1:500, EP700Y, Abcam), anti‐vimentin (1:300, 3B4, Agilent Technologies, San Jose, CA), FITC conjugated anti‐EPCAM (1:500, Ber‐EP4, DAKO, Glostrup, Denmark) and anti‐ZEB1 (1:100, Sigma, St Louis, MO). Propidium iodide was used to control for unspecific staining of dead cells. No dye exclusion was used when measuring intracellular epitopes, which were stained after using permeabilization buffer (BD Biosciences, San Jose, CA). Data were analyzed with FlowJo 10 (Tree Star, Ashland, OR).
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6

Expression Profiling of TROP-2, EpCAM, and ABCG2 Cells

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To identify the expression profile of TROP-2+, EpCAM+ and ABCG2+ cells, immunofluorescent double staining was performed on 4 μm cryosections. In series, the primary antibodies were incubated against K19 (1/100; Dako) and EpCAM (Ber-Ep4, ready-to-use; Dako), K19 (1/100; Dako) and TROP-2 (1/20; Abcam), K19 (1/100; Dako) and ABCG2 (BCRP; 1/10; Monosan). Alexa Fluor 488 goat anti-mouse and Alexa Fluor 568 goat anti-mouse (Life Technologies, Brussels, Belgium) were used as secondary antibodies and were incubated for 30 min at RT. Counterstain was performed with 4',6-diamidino-2-phenylindole (1/10 000; Invitrogen, Breda, The Netherlands) for 15 min. PBS was used for the rinsing steps and the slides were covered by ProLong Gold Antifade Reagent (Life Technologies, UK). Pictures were taken by Zeiss Axioplan (Carl Zeiss, Oberkochen, Germany).
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7

Immunohistochemical Characterization of Peritoneal Xenografts

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Formalin-fixed, paraffin-embedded sections from the peritoneal xenografts were examined as previously described [10 (link)]. Visualization was achieved using the EnVision + peroxidase system (Dako, Glostrup, Denmark). The antibodies used were against EpCAM and MUC4 (Abcam, Cambridge, UK), as well as Ber-EP4, carcinoembryonic antigen (CEA), calretinin, WT-1, CK20, CK7 and CDX2 (Dako). In addition the antibodies PAX8 (Abnova, Taipei City, Taiwan), B72.3 (BioGenex, Fremont, CA), Claudin-3 (CLD3) (Zymed, San Fransisco, CA), and Villin (Immunotec, Indianapolis, IN) were used. Negative control consisted of sections that underwent similar staining procedures with nonrelevant rabbit immunoglobulins or a monoclonal antibody of the same isotype as the primary antibody used. For all antibodies, positive controls were included with satisfactory results. The study pathologist (BD) evaluated immunohistochemical staining.
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8

Immunohistochemistry and Immunofluorescence Protocols

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For immunohistochemistry (IHC), the monoclonal antibodies (mAbs) were anti-CXCL17 (MAB4207, clone 422208; R&D Systems, Minneapolis, MN, USA), anti-CXCL10 (NB600-1426; Novus, Littleton, CO, USA), anti-CXCL9 (MAB392, clone 49106; R&D Systems) and anti-CEA mAb, clone II-7 (Dako, Glostrup, Denmark). Mouse IgG, ready to use (Dako), served as negative control. Anti-mouse Ig ImmPress enhancement reagents kit was purchased from Vector Laboratories (Burlingame, CA, USA). The substrate used was 3,3′-diaminobenzidine (DAB; Vector Laboratories).
For immunofluorescence, the mAbs were FITC-conjugated anti-epithelial cell mAb BerEP4 (F0860, lot 00059670; Dako) and unconjugated anti-CXCL17 mAb. Alexa Fluor 594-conjugated goat anti-mouse IgG (ab150116, Abcam, Cambridge, MA, USA) was used as secondary antibody. Anti-CEA mAb was used as a positive control for indirect staining, and FITC-conjugated mouse IgG2b (X0959; Dako) was used as a negative control.
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9

Flow Cytometry for Immune Phenotyping

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Flow cytometry for surface and intracellular staining was performed using standard protocols [52 (link)]. Cells were stained with: CD3 (SP34), CD4 (L200), CCR5 (3A9), Epithelial antigen (Ber-EP4, Dako), TNF-α (MAB11), IFN-γ (B27), Granzyme B (GB11), IL-2 (MA1–17H12), IL-17 (eBio64CAP17, eBioscience), IL-21 (3A3-N2.1) and IL-22 (IL22JOP, eBioscience), Ki67 (B56), LIVE/DEAD Fixable Aqua Dead Cell Stain Kit (Invitrogen, Grand Island, NY), All antibodies and reagents were purchased from BD Biosciences Pharmingen (San Diego, CA) unless otherwise noted. Samples were resuspended in BD Stabilizing Fixative (BD Biosciences) and acquired on a FACS Calibur or LSRII flow cytometer (Becton Dickinson, San Jose, CA). Data was analyzed with Flow Jo software (Tree star, Ashland, OR).
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10

Immunohistochemical Analysis of Ovarian Tissue

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Paraffin-embedded ovarian tissue sectioned at 4 µm, mounted on slides and subjected to immunohistochemistry as described previously [65] (link). Sections were incubated at 4°C with polyclonal antibodies against PCNA (Santa Cruz sc-56), cytokeratin 8 (Developmental Studies Hybridoma Bank, TROMA I), ERα (Novacastra Laboratories), p-Akt1/2/3 serine 473 (Santa Cruz SC-33437), AMH (Santa Cruz Biotechnology SC-6886), WT1 (Santa Cruz Biotechnology), PAX8 (Proteintech group 10336-1-AP), calretinin (Invitrogen 18-0291), Ber-EP4 (Dako), aromatase (Abcam ab35604), vimentin (Sigma Aldrich V5255). Biotinylated secondary antibodies were used followed by incubation with horseradish peroxidase-conjugated streptavidin (Invitrogen). Sections were stained in AEC Solution.
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