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4 protocols using clone y69

1

Immunohistochemical Analysis of ERG and MYC

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IHC was performed on TMA sections as described previously (6 (link),18 (link)), using primary antibodies against ERG (Ventana Medical Systems, EPR3864, predilute; Tucson, AZ, USA) and MYC (Epitomics, clone Y69, 1:200 dilution; Burlingame, CA, USA). For each evaluable TMA core, IHC was scored semi-quantitatively by two study pathologists (A.M.U. and R.M.), based on nuclear staining intensity (0–3; i.e., negative, weak, moderate, or strong) and percentage of positive tumor cells (0–100), and an IHC product score was calculated (range = 0–300). For a given patient and tumor nodule, IHC product scores were averaged across evaluable TMA cores.
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2

Immunostaining of MYCN and MYC Proteins

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Immunostaining for MYCN and MYC protein was performed using formalin-fixed, paraffin-embedded sections with Leica BOND-MAXTM (Leica Microsystems Inc., Bannockburn, IL, USA) heating for 30 min in BondTM Epitope Retrieval Solution 2 (No. AR9640; Leica Biosystems Newcastle Ltd., Benton Ln, Newcastle Upon Tyne, UK). The sections were incubated with either anti-MYCN mouse monoclonal antibody, NCM II 100 (Ikegaki et al, 1986 (link)) at a dilution of 1 : 200, or anti-human MYC rabbit monoclonal antibody, clone Y69 (No. 1472-1; Epitomics, Cambridge, MA, USA) (Kluk et al, 2012 (link)) at a dilution of 1 : 200 in Bond TM Primary Antibody Diluent (No. AR9352; Vision BioSystems Inc., Norwell, MA, USA). Staining was visualised using Bond Polymer Refine DetectionTM (No. DS9800; Leica Microsystems Inc., Bannockburn, IL, USA). The slides stained for MYC protein were counterstained with hematoxylin. No counterstaining was performed for the slides after MYCN protein staining. The slides were reviewed by HS, LLW, and RT, and results were graded as follows: negative (−); focal or sporadic, and weak nuclear staining (±); and diffuse and strong nuclear staining with typically heterogeneous intensity (+). Appropriate positive and negative controls were stained along with those tumours.
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Western Blotting Analysis of Cellular Proteins

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Cells were grown to 95% confluence in 60-mm culture dishes and cell lysates were prepared in reducing 2X Laemmli buffer, boiled at 95 °C for 10 minutes, electrophoretically separated by SDS-PAGE and transferred onto 0.45-µm nitrocellulose membranes (GE Healthcare Life Sciences). Blots were incubated with 5% non-fat dry milk in TBS – 0.1% TweenTM 20 for 30 minutes at room temperature. Afterwards, blots were probed overnight at 4°C with the following primary antibodies: monoclonal anti-TSP-1 antibody Ab-11 (clones D4.6, AG.1, MBC 200.1, Neomarkers Lab Vision), monoclonal anti-pVHL antibody (clone VHL40, Santa Cruz), monoclonal anti-HIF-1α antibody (clone 241809, R&D Systems), polyclonal anti-HIF-2α antibody (Santa Cruz), monoclonal anti p53 antibody (clone DO-1, Santa Cruz), monoclonal anti-myc antibody (clone Y69, abcam) and monoclonal anti-p21 antibody (clone SX118, BD) and monoclonal anti-tubulin antibody (clone DM1A, Sigma). Anti-mouse (Dako) or anti-rabbit (GE Healthcare) HRP-conjugated secondary antibodies were added for 1 hour at room temperature and protein signal was then visualized using Immun-Star WesternCTM kit (BioRad).
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Immunohistochemical Profiling of Cancer Tissue

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Immunohistochemical staining of DNA mismatch repair proteins as well as of proteins CTNNB1, CCND1 (cyclin D1) and c-myc in tumor tissue was performed as follows: 3–4 μm slides were cut and stained for MLH1 (Monoclonal Mouse Anti-Human; Clone ES05, dilution 1 : 10, Dako), MSH2 (Monoclonal Mouse Anti-Human; Clone G219-1129, dilution 1 : 200, BD Biosciences), MSH6 (Monoclonal Rabbit Anti-Human; Clone EP49, dilution 1 : 1000 Dako), PMS2 (Monoclonal Mouse Anti-Human; Clone A 16–4, dilution 1 : 100, BD Biosciences) to assess the reactivity in the nuclei of tumor cells as well as for CTNNB1 (Monoclonal Mouse Anti-Human; clone β-Catenin-1, ready to use, Dako), CCND1 (Monoclonal Rabbit Anti-Human; Clone EP12, ready to use, Dako) and c-myc (Monoclonal Rabbit Anti-Human; Clone Y69, 1:100 dilution, Abcam). Immunostains were developed according to an antigen retrieval treatment using a detection system suitable for the Dako Autostainer Link 48 (EnVision FLEX, Dako).
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