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5 protocols using p53 antibody do 1 sc 126

1

Protein Expression Analysis Protocol

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p53 antibody (DO-1): sc-126 were obtained from Santa Cruz Biotechnology (Santa Cruz, CA, USA). NF-κB p65 antibody (#8242), phospho-NF-κB p65 (Ser468) (#3039), Phospho-IKKα (Ser176)/IKKβ (Ser177) (C84E11) Rabbit mAb (#2078), E-Cadherin (24E10) (#3195), N-Cadherin (D4R1H) (#13116) and phospho-NF-κB p65 (Ser 536) (#3031) antibodies were obtained from Cell Signaling (Beverly, MA, USA). Fascin antibody (ab78599) was obtained from Abcam. The anti-β-actin antibody (AC-15) was purchased from Sigma-Aldrich (St. Louis, MO, USA).
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2

DNA Pulldown Assay for p53 Detection

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MRC5 primary human fibroblasts were treated with 5 µM nutlin‐3. Five days later, cell lysate was prepared in HKMG buffer containing 10 mM Hepes pH 7.9, 100 mM KCl, 5 mM MgCl2, 10% glycerol, 0.5% NP‐40, 1 mM DTT, and protease inhibitors (Complete EDTA‐free, Roche) and was precleared with preequilibrated streptavidin‐coupled Dynabeads (Invitrogen). Annealed pairs of complementary oligonucleotides with the sense oligonucleotide biotinylated at the 5′ end (Sigma) were used for DNA pulldown. Oligonucleotide sequences are listed in Supporting Information Table S3. These DNA probes were incubated overnight at 4°C with the cell lysate. DNA‐bound proteins were then collected by incubation for 1 hr at 4°C with streptavidin‐coupled Dynabeads (Invitrogen), washed four times in HKMG buffer, and separated by SDS‐PAGE. p53 was detected by western blot (p53 antibody, DO‐1, sc‐126; Santa Cruz).
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3

Antibody Sources for Protein Detection

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p53 antibody (DO-1): sc-126 was obtained from Santa Cruz Biotechnology (Santa Cruz, CA, USA). PD-L1 (E1L3N®) (#13684) and Ki-67 (8D5) (#9449) antibody were obtained from Cell Signaling (Beverly, MA, USA). Anti-PCNA antibody (ab29) was obtained from Abcam.
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4

Immunohistochemical Assessment of SETD2, TP53, ERG, and PTEN

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SETD2 protein expression was assessed on TMAs using immunohistochemistry (IHC) at the anatomical pathology lab of the Alberta Precision Research Lab (APRL) facility using a Dako Omnis autostainer. Briefly, about 4 µm formalin-fixed paraffin-embedded (FFPE) sections were deparaffinized and incubated with epitope retrieval buffer. Then, rabbit polyclonal SETD2 antibody (Cat # HPA042451, RRID: AB_10806239 Sigma-Aldrich, St. Louis, MO, USA) was used at a dilution of 1:50. TP53 expression was assessed using p53 antibody (DO-1): sc-126, Santa Cruz Biotechnology, Inc., Santa Cruz, CA, USA (1:50). ERG and PTEN were assessed using IHC. The FLEX DAB+ substrate chromogen system was used as a detection reagent (Agilent, Santa Clara, CA, USA). Counter-staining was performed using hematoxylin, followed by dehydration and mounting using Flo-TEXX mounting medium (Lerner Laboratories, Pittsburgh, PE, USA).
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5

Immunohistochemical Protein Expression Analysis

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SRRT protein expression on TMAs was assessed using immunohistochemistry (IHC) with the help of a Dako Omnis autostainer. Briefly, about 4 µm formalin-fixed paraffin-embedded sections (FFPE) were deparaffinized and then incubated with epitope retrieval buffer. Then, either mouse monoclonal SRRT/ARS2 antibody (Cat# sc-376716, Santa Cruz Biotechnology, Inc. Santa Cruz, CA, USA) at a dilution of (1:50) or ATM antibody (Cat# Ab32420 rabbit monoclonal recombinant antibody ATM (Y170), Abcam Plc, Cambridge, UK) at a dilution of (1:400) was used. TP53 expression was assessed using p53 Antibody (DO-1): sc-126 Santa Cruz Biotechnology, Inc. Santa Cruz, CA, USA (1:50). The FLEX DAB+ Substrate Chromogen system was used as a detection reagent. PTEN and ERG were evaluated using previously described fluorescence in situ hybridization (FISH) [23 (link),24 (link)].
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