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35 protocols using bis tris sds page

1

Quantifying MMP-9 Expression

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In tissue, samples of 15 μg were loaded on 4–12% Bis-Tris SDS-PAGE (Invitrogen) and transferred onto PVDF membranes (Millipore). Membranes were blocked with 5% non-fat dry milk in PBS-Tween 0.1% and incubated against MMP-9 (Millipore, ab19016) at a concentration of 1:1000 overnight at 4°C. GAPDH or β-tubulin was used as loading controls. Detection was carried out using peroxidase-coupled anti-rabbit (Vector) at 1:10000 for 1 hour at room temperature. Protein bands were visualized using enhanced chemiluminescence (ECL). Cell media was thawed to room temperature and mixed with 4x SDS at a 1:3 ratio. Samples of 15 μl were loaded on 4–12% Bis-Tris SDS-PAGE (Invitrogen) and transferred onto PVDF membranes (Millipore). Membranes were blocked with 5% non-fat dry milk in PBS-Tween 0.1% and incubated against MMP-9 (Millipore ab19016) at a concentration of 1:1000 overnight at 4°C. Cell count was used for normalization. Detection was carried out using peroxidase-coupled anti-rabbit (Vector) at 1:10000 for 1 hour at room temperature. Protein bands were visualized using enhanced chemiluminescence (ECL).
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2

Efficient Recombinant Protein Purification

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ExpiCHO-S cells (Thermo Fisher Scientific) cultured in shaker flasks in serum-free medium were grown to a density of 6 × 106/mL and transfected with 400 μg of plasmid DNA using with 1.28 mL of ExpiFectamine. After 12 hours, 2.4 mL of ExpiCHO Enhancer and 64 mL of ExpiCHO Feed were added. After 4 days, the culture supernatant was collected and passed over a 0.22 μm filter. The supernatant was passed over a 5 mL HiTrap Chelating column charged with nickel on an Akta FPLC (GE healthcare). The column was washed with buffer containing 20 mM Tris pH 8, 150 mM NaCl, 10mM imidazole and the bound protein was then eluted in buffer containing 250 mM imidazole. The eluate was loaded onto a Superdex 200 size-exclusion column (GE healthcare) in running buffer containing 10 mM Tris pH 7.4, 150 mM NaCl. Fractions were collected and those containing peak protein concentrations were pooled. Protein purity was analyzed on a 4–12% Bis-Tris SDS-PAGE by silver staining (Invitrogen).
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3

VEGFR Expression Modulation by Fisetin

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Y79 cells were cultured in RPMI-1640 medium containing 0, 25, 50 or 100 µM fisetin with 100 µg/ml VEGF for 24 h at 37°C. The cells were lysed on ice in 100 µl RIPA buffer containing a protease and phosphatase inhibitor cocktail (Pierce; Thermo Fisher Scientific, Inc.). After centrifugation at 10,000 × g for 20 min at 4°C, an equal amount (20–30 µg) of protein, quantified using a BCA Protein Assay kit (Beyotime Institute of Biotechnology), was subjected to 4–12% Bis-Tris SDS-PAGE (Invitrogen; Thermo Fisher Scientific, Inc.). The proteins were then blotted onto Immobilon-P PVDF membranes (EMD Millipore). After blocking with 3% skimmed milk powder for 1 h at room temperature, the membranes were incubated with the primary anti-VEGFR antibody (1:1,000) in PBS containing 0.01% Tween 20 overnight at 4°C. The membranes were then incubated with goat anti-rabbit horseradish peroxidase-conjugated secondary antibody (1:500; cat. no. BA1056; Wuhan Boster Biological Technology, Ltd.) for 1 h at 25°C, followed by the addition of SuperSignal enhanced chemiluminescent substrate to stabilize the peroxide solution, and detected with Biomax-MR membrane (Kodak). Protein expression was quantified and analyzed using ImageJ software (version 1.4).
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4

Crosslinking DUBs with Ub-prg

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To crosslink DUBs with Ub-prg, DUBs (2 μM) in 20 μl were incubated in DUB buffer (50 mM Tris, pH 7.5, 120 mM NaCl, and 10 mM DTT) with and without Ub-prg (6 μM) for 10 min at room temperature. Reactions were stopped by the addition of SDS–PAGE loading buffer (Invitrogen) and visualised using 4–12% Bis-Tris SDS–PAGE (Invitrogen) run with NuPAGE MOPs SDS running buffer (Thermo Fisher Scientific) and Coomassie staining. A slower migrating band indicates reaction with Ub-prg.
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5

Detection of CVA10 Capsid Protein

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Western blotting analyses of CVA10 were performed by 4–12% Bis-Tris SDS-PAGE (Invitrogen). The CVA10 proteins were separated by SDS-PAGE and transferred onto a PVDF membrane (Invitrogen) using a Mini Trans-Blot Cell (Bio-Rad) according to the manufacturer's instructions. The anti-CVA6 VP1 rabbit polyclonal antibody GTX132346 (GeneTex) that could detect not only the CVA6 but also cross-react with CVA10 and CVA16, was used (supplementary Fig. S3). The secondary, goat anti-rabbit IgG (AP132P, Millipore) conjugated with horseradish peroxidase (HRP), was then applied. Immobilon crescendo western HRP substrate WBLUR0500 (Millipore) was used for chemiluminescence development and detected by the Amersham Imager 600 system (GE Healthcare).
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6

Western Blot Analysis of Opioid Receptors

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Colonic ME and MS samples were homogenized on ice in RIPA buffer (Cell signaling, Danvers, USA) supplemented with protease inhibitor cocktail and phosphatase inhibitor cocktail 2 and 3 (Sigma-Aldrich, St. Louis, USA). After centrifuging at 12,000 g at 4°C for 15 minutes, the supernatant was collected and resolved by a standard immunoblotting method. Equal quantities (20~100 μg) of total protein were run on pre-made 4–12% Bis-Tris SDS-PAGE (Invitrogen, Carlsbad, CA). OPRM1 (MOR-1) antibody (1:2000) was from Thermo-fisher scientific (Austin, TX) (Cat# PA3–203, Lot# ra224670). OPRD1 (DOR-1) antibody (1:500) was purchased from Life span biosciences (Seattle, WA, USA) (Cat# LS-C383200, Lot# 126591). OPRK1 (KOR-1) antibody (1:200) was purchased from Santa Cruz biotechnology (Dallas, TX, USA) (Cat# Sc-374479, Lot# K2816). β-actin antibody (1:5000, Sigma, St. Louis, USA) was used as loading control. The protein band detection was performed using Odyssey Infrared Imaging System (LI-COR Biosciences, Lincoln, NE).
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7

Western Blot Analysis of IDO and iNOS

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Samples were lysed on ice in RIPA buffer (Millipore) supplemented with protease inhibitor cocktail (Sigma-Aldrich) then boiled in LDS sample buffer and NuPage reducing agent (Invitrogen) at 95°C for 10 min. Samples were loaded onto 4-12% bis-Tris SDS-PAGE (Invitrogen) gels for electrophoresis and then transferred to PVDF membranes using an iBlot2, program P0. Membranes were blocked in 5% skimmed milk powder in PBS plus 0.05% Tween20 (PBS-T) for 1 h at room temperature then incubated with primary antibody overnight at 4°C. Membranes were washed in PBS-T and incubated with HRP-conjugated secondary antibodies for 1 h at room temperature. Membranes were developed with enhanced chemiluminescence reagent (BioRad) and imaged on an Amersham GE Imager. Antibodies used were anti-IDO (New England Biolabs #12006 1:1000), anti-iNOS (Novus Biologicals #NBP1-67618 1:250), anti-actin conjugated to HRP (Cell Signaling Technologies #13E5 1:5000) and anti-rabbit-IgG conjugated to HRP (Promega W4011 1:10,000) antibodies.
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8

Western Blot Analysis of nNOS in Spinal Cord

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Dorsal spinal cord tissues at the L5 and L6 levels were removed, dissected, and homogenized in 300 μl RIPA buffer containing 50 mM Tris-HCl (pH 7.4), 1% NP-40, 0.25% Na-deoxycholate, 150 mM NaCl, 1 mM EDTA, 1 mM Na3VO4, and 1 mM NaF in the presence of the protease inhibitor cocktail. Samples were then put on ice for 30 min with shaking. Lysates were centrifuged at 13,000 g for 30 min at 4°C and the supernatant was collected. The protein concentration was quantified using a DC protein assay kit (Bio-Rad, Hercules, CA). Thirty μg of total proteins of each sample was loaded and separated on 4–12% Bis-Tris SDS-PAGE (Invitrogen). The resolved proteins were transferred to nitrocellulose membranes. The membranes were treated with 5% bovine serum albumin in Tris buffer containing Tween 20 for 2 h and then incubated with a rabbit anti-nNOS antibody (Cat. #07-571-I, EMD Millipore) overnight at 4°C. The membrane was washed three times and then incubated with horseradish peroxidase–conjugated goat anti-rabbit secondary antibody (Jackson ImmunoResearch, West Grove, PA) for 1 h at room temperature. The protein band was revealed with an ECL Plus detection kit (ThermoFisher, Rockfort, IL), and the protein band intensity was quantified by using the ImageJ software program. The amounts of proteins were normalized by GAPDH (Cell Signaling Technology), which was used as a protein loading control.
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9

MLL1-Mediated Histone H3 Methylation Assay

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Histone H3 methylation assays were conducted by incubating 5 µM MLL1 or MLL1 variant with 0.5 µM 3H-AdoMet (Perkin Elmer, Inc.) and 100 µM H3 peptide for 8 hours at 15° C. Reactions were quenched with SDS loading buffer, separated by 4–12% Bis-Tris SDS PAGE (Invitrogen) in MES buffer at 200 volts for 30 minutes. Coomassie brilliant blue stained gels were photographed and soaked for 30 minutes in autoradiography enhancer solution (Enlightning, PerkinElmer, Inc.), dried for 2 hours at 72°C under constant vacuum and exposed to film (Kodak BioMax MS Film) at −80° C for 16–18 hours.
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10

Protein Extraction and Western Blot Analysis

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Protein preparation was performed as described previously (19 (link)). Total protein was extracted from SMC samples collected from normal rat and ARM model rat embryos by sonication in double-distilled H2O containing protease inhibitors. Enhanced BCA Protein Assay Kit (Beyotime Institute of Biotechnology, Shanghai, China) was applied for protein quantification according to the manufacturer's protocol. Protein extracts (50 µg) were heated at 90°C for 10 min, size fractionated by 12% Bis-Tris SDS-PAGE (Invitrogen; Thermo Fisher Scientific, Inc., Waltham, MA, USA) and transferred to polyvinylidene fluoride membranes (EMD Millipore). Membranes were blocked with 5% fat-free milk in TBS at room temperature for 1 h and incubated overnight at 4°C with primary antibodies against Wnt3a (1:300) and β-actin (catalog no. 60008-1-Ig; 1:5,000; ProteinTech Group, Inc., Chicago, IL, USA). The membrane was subsequently incubated with a secondary antibody (1:2,000; catalog. no. ZB-2301; ZSGB-BIO) for 1.5 h at room temperature), and the immunostained bands were detected with a ProtoBlot II AP System with a Stabilized Substrate (Promega Corporation, Madison, WI, USA). Protein levels were normalized to β-actin.
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