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6 protocols using anti smad7

1

Chromatin Immunoprecipitation of Smad7 and H4K12Ac

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Chromatin was harvested from RAW246.7 cells or tissue samples using the Magnify ChIP system (Invitrogen). Cross-linked, sheared chromatin was used for immunoprecipitation with protein A/G dynabeads coupled with anti-Smad7, rabbit anti-acetyl-histone H4 Lys12 (H4K12Ac) IgG (EMD Millipore, Billerica, MA) or isotype control from a different species (rabbit). Precipitated DNA was reverse cross-linked and amplified by PCR using primers specific for IKK-β promoter (Table 1). Data were expressed as fold change after normalization for background levels (9 (link)).
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2

Chromatin Immunoprecipitation of Smad7 and H4K12Ac

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Chromatin was harvested from RAW246.7 cells or tissue samples using the Magnify ChIP system (Invitrogen). Cross-linked, sheared chromatin was used for immunoprecipitation with protein A/G dynabeads coupled with anti-Smad7, rabbit anti-acetyl-histone H4 Lys12 (H4K12Ac) IgG (EMD Millipore, Billerica, MA) or isotype control from a different species (rabbit). Precipitated DNA was reverse cross-linked and amplified by PCR using primers specific for IKK-β promoter (Table 1). Data were expressed as fold change after normalization for background levels (9 (link)).
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3

Western Blot Analysis of TGF-β Signaling Pathway

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Western blot analyses of HCF and HKC cells were performed with lysis of cells, as previously described [27 (link),31 (link),32 ]. Protein concentration and purity were assessed by Bradford assay (Thermo Scientific, IL). As well, 4%–20% Tris-Glycine gels (Novex, Life technologies, Carlsbad, CA) was used for gel electrophoresis, to which equal amounts of proteins were loaded and a protein transfer was done using Nitrocellulose membrane (Novex, Nitrocellulose membrane filter par sandwich, Life Technologies). After incubation in a 5% BSA blocking solution (Thermo Scientific), the membranes were incubated with primary rabbit antibodies (Table 2): anti-Smad3 (Invitrogen, Camarillo, CA), anti-SMAD7 (Sigma-Aldrich, Saint Louis, MO), anti-SMAD4 (Abcam, Cambridge, MA), anti-SMAD6 (Abcam), Anti-TGF-βRI (Abcam), Anti-TGF-βRII (Abcam), Anti-TGF-βRIII (Abcam), anti-TGF-β1 (Abcam), anti-TGF-β2, and anti-TGF β3 (Abcam) at 1:1,000 dilution overnight at 4 °C separately. This was followed by washing of the membranes and incubation with a secondary antibody (Alexa Flour® 568 Donkey anti-Rabbit, IgG [H+L], Abcam) at 1:2,000 dilutions for 1 h. The Kodak imaging system was used for detecting the antibody binding to the membrane. GAPDH (Abcam) was used as the loading control and results were analyzed by normalizing the value to that of the loading control expression and plotting the fold expression.
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4

Antibody Validation Protocol

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The antibodies used in this study were: anti-ATXN7L3 (Bethyl, Cat#A302-800A), anti-ERα (Cell Signaling Technology, Cat# 8644), anti-FLAG (Shanghai Genomics, Cat#GNI4110-FG), anti-SMAD7 (Sigma Aldrich, Cat#SAB4200346), anti-H3K4me3 (Sigma-Aldrich, Cat#05-745R), anti-Ub-H2B K120 (Cell Signaling Technology, Cat#5546), anti-SHP1 (ZEN BIO, Cat#501836), annti-phospho-SMAD2 (Ser465/Ser467) (Cell Signaling Technology, Cat#18338), anti-GAPDH (ABclonal, Cat#AC033).
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5

Protein Expression Analysis Protocol

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Cells were dissociated in cracking 50 mM Tris-HCl (pH 7.4) buffer containing 2-mercaptoethanol (100 mM), SDS (2% w/v), and glycerol (10%). After separation using SDS-PAGE, proteins were electrotransferred onto PVDF membranes (Millipore, USA). The membranes were sealed in milk and incubated with primary antibodies, including anti-type I collagen, anti-E-cadherin, anti-Desmin, anti-Smad7, anti-DNMT1, and anti-β-actin (Sigma, St Louis, MO, USA) antibodies, at 4°C overnight. Subsequently, they were incubated with the secondary antibody, goat anti-rabbit IgG (1:2000, Rockland), for almost 1 h at 37°C. β-actin protein levels were used as the internal control.
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6

Plasmid Constructs and Antibodies for ER-MOF Study

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The FLAG‐MOF plasmid was purchased from Sinobiological (Cat: HG13797‐NF). The FLAG‐MOF‐K274R mutant was cloned into the PCMV‐Flag vector. The ERα‐K266R, ERα‐K268R, ERα‐K299R, ERα‐K302R, ERα‐K303R, and ERα‐K302/303R mutants were cloned into the pcDNA3‐HA vector. Final constructs were verified using DNA sequencing. The expression plasmid for human ERα (pSG5‐ERα) and pGL‐ERE‐AdML reporter plasmid carrying 3 consensus estrogen response elements (3 × ERE) were kindly provided by Dr. Shigeki Kato.
The antibodies used in this study were: anti‐MOF (Bethyl laboratories # A300‐992A‐2), anti‐acetylated‐lysine (AcK) (Cell Signaling Technology # 9441), anti‐ERα (Cell Signaling Technology # 8644), anti‐SMAD7 (Sigma # SAB4200346), anti‐SHP(NR0B2) (ZEN BIO # 501836), anti‐GAPDH (Shanghai Kangchen # KC5G4), anti‐FLAG and anti‐HIS (GNI), anti‐rabbit/mouse (ABclonal), anti‐IgG (Santa # sc‐2025).
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