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12 protocols using anti p p38 thr180 tyr182

1

Antibody Analysis of Tissue Remodeling

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The following antibodies were used: anti-elastin (Santa Cruz Biotechnology Inc., Dallas, TX, USA), anti-matrix metalloproteinase (MMP)-3 (Santa Cruz), anti-extracellular signal-regulated kinase (ERK) (Santa Cruz), anti-collagen (Abcam, Cambridge, UK), anti-actin (Sigma-Aldrich Co., St Louis, MO, USA), anti-tumor necrosis factor receptor (TNFR)-1 (Thermo Fisher Scientific, Waltham, MA, USA), anti-epidermal growth factor receptor (EGFR) (Thermo Fisher Scientific), anti-pp38 (Thr180/Tyr182; Cell Signaling Tech, Danvers, MA, USA), anti-c-Jun (Santa Cruz), anti-p53 (Cell Signaling Tech), and secondary antibodies (anti-mouse or anti-rabbit) from Komabiotech (Seoul, South Korea).
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2

Oocyte Lysis and Protein Extraction

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Fresh oocytes were lysed by pippeting up and down in 200 μl (pools of 20 oocytes) of ice-cold extraction buffer (0.25 M sucrose, 0.1 M NaCl, 2.5 mM MgCl2, 20 mM HEPES, pH 7.2) containing 1 mM EDTA, 1 mM EGTA, protease inhibitors (10 μg/ml leupeptin, 1 mM PMSF, 10 μg/ml aprotinin) and phosphatase inhibitors (50 mM β-glycerolphosphate, 50 mM sodium fluoride, 1 mM sodium orthovanadate, 5 mM sodium pyrophosphate). Samples were clarified by centrifugation at 14,500 rpm for 5 min and supernatants were collected and processed for immunoblotting or caspase assay as described below. The whole supernatants were denatured with Sample Buffer (50 mM Tris HCl, pH 6.8, SDS 2%, 100 mM dithiothreitol, 10% glycerol) and subjected to 10% or 15% SDS/PAGE and transferred to Immobilon-P membranes (Millipore). Uniformity of samples loading was verified by Ponceau (Sigma) staining of the blots. Membranes were blocked for 1 h with 5% dried skimmed milk in TBST (50 mM Tris, 150 mM NaCl, 100 mM KCl, pH 7.4, and 0.1% Tween 20) and then incubated with the following antibodies: anti-AMPKα (#2532, Cell Signaling), anti-pp38 (Thr180/Tyr182) (#9211, Cell Signaling), anti-p38 (sc-7149, Santa Cruz), and anti-Cytochrome c (556432, BD Pharmingen). Antibody binding was detected with horseradish peroxidase–coupled secondary antibody and the enhanced chemiluminescence (ECL) detection kit (Amersham).
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3

Isoproterenol and Trichostatin A Modulate Cell Signaling

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Isoproterenol and Trichostatin A (TSA) were purchased from Sigma Aldrich (St. Louis, MO, USA) and used at 10 µM and 100 nM, respectively. Murine TNF-α was a gift from the VIB Department for Molecular Biomedical Research of Ghent University (VIB-UGent, Gent, Belgium) and was used at 2000 IU/ml. Insulin-like growth factor-1 (IGF-1) was from ImmunoTools (Friesoythe, Germany) and was used at 10 ng/ml. Anti-β2-AR, anti-TNF-R1, anti-myogenin, anti-PARP, anti-P-H3-Ser10, anti-CBP, anti-RNA polymerase II, anti-p65, anti-IκBα, anti-P-CREB-Ser133 and anti-PKAc were from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Anti-P-p65-Ser536, anti-P-ERK-Thr202/Tyr204, anti-P-JNK-Thr183/Tyr185, anti-P-p38-Thr180/Tyr182, anti-P-MSK-1-Thr581, anti-Lamin A/C and anti-CREB were from Cell Signaling Technology (Danvers, MA, USA). Anti-Ac-H3-Lys27 and GAPDH were from AbCam (Cambridge, UK). Anti-α-tubulin and anti-α-actin were from Sigma-Aldrich. In figures, the expression “antibody anti-” was substituted by the Greek letter “α-”. AatII and HincII restriction enzymes were obtained from New England BioLabs (Ipswich, MA, USA).
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4

Oxidative Stress Pathway Analysis

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Anti-poly (ADP-ribose) polymerase (PARP), anti-active caspase-3, anti-light chain 3B (LC3B), anti-phospho-p65 (Ser536) (p-p65), anti-acetyl-p65 (Lys310), anti-Nrf2, anti-IκBα, anti-p-p38 (Thr180/Tyr182), anti-p38, anti-p-p46/54 SAPK/JNK (Thr183/Tyr185), anti-SAPK/JNK, anti-p-ERK (Thr202/Tyr204), and anti-ERK antibodies were purchased from Cell Signaling Technology (Danvers, MA, USA). Anti-Del-1, anti-p21, anti-p65, and anti-glyceraldehyde 3-phosphate dehydrogenase (GAPDH) antibodies were obtained from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Anti-8-hydroxy-2′-deoxyguanosine (8-OHdG) antibody was purchased from Bioss (Woburn, MA, USA). The anti-4-hydroxynonenal (4-HNE) antibody was purchased from Abcam (Boston, MA, USA). Lipopolysaccharide (LPS), quercetin, resveratrol, and sulforaphane were obtained from Sigma-Aldrich (St. Louis, MO, USA).
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5

Butein and Cisplatin Signaling Pathways

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Butein and cisplatin (CDDP) were obtained from Sigma (St. Louis, MO, USA), and were dissolved in dimethyl sulfoxide (DMSO) and stored at −20°C until use. The ERK inhibitor, U0126, p38 inhibitor, SB203580, and the AKT inhibitor, LY294002, were obtained from Sigma and used at final concentrations of 10, 20 and 20 µM, respectively. The following antibodies were used in western blot analysis: anti-ERK1/2 (#9102; 1:1,000), anti-p-ERK1/2 (Thr202/Tyr204) (#9101; 1:1,000), anti-p38 (#9212; 1:1,000), anti-p-p38 (Thr180/Tyr182) (#9211; 1:1,000), anti-Akt (#9272; 1:1,000) and anti-p-Akt (Ser413) (#9271; 1:1,000) (all purchased from Cell Signaling Technology, Danvers, MA, USA). β-actin (sc-4778; 1:5,000), forkhead box O3a (FoxO3 or FoxO3a; sc-9812; 1:1,000), Bax (sc-7480; 1:1,000), Bcl-2 (sc-7382; 1:1,000), p27 (sc-1641; 1:1,000) and cyclin D1 (sc-718; 1:1,000) antibodies were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Horseradish peroxidase (HRP)-conjugated goat anti-mouse/anti-rabbit immunoglobulin (IgG; ab6721; 1:1,000) was obtained from Abcam (Hong Kong, China).
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6

Comparative Analysis of Human OS Cell Lines

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Human OS cell lines U2-OS, Saos-2, and MG-63 were all bought from Cell Bank of the Chinese Academy of Sciences (Shanghai, People’s Republic of China). Roswell Park Memorial Institute-1640 medium (Thermo Fisher Scientific, Waltham, MA, USA) was used to culture cell line U2-OS, Dulbecco’s Modified Eagle’s Medium was used to culture MG-63, and McCoy’s 5A (Sigma-Aldrich Co., St Louis, MO, USA) was used to culture Saos-2. All media were supplemented with 10% fetal bovine serum (Thermo Fisher Scientific) and 1% ampicillin/streptomycin in 5% CO2 resuscitation at 37°C with saturated humidity.
Recombinant HDGF protein was purchased from Pepro-Tech (Rocky Hill, NJ, USA). Anti-HDGF and anti-β-actin antibodies were from Santa Cruz Biotechnology Inc. (Dallas, TX, USA), anti-ERK, anti-pERK-Thr202/Tyr204, anti-AKT, anti-pAKT-Ser473, anti-p38, and anti-p-p38-Thr180/Tyr182 antibodies were from Cell Signaling Technology (Danvers, MA, USA). AKT inhibitor wortmannin was purchased from Sigma-Aldrich Co.
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7

TLR-Mediated Signaling Pathway Analysis

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Lipopolysaccharide (LPS, E. coli 0111: B4, TLR4 ligand), poly(I:C) (TLR3 ligand), and CpG ODN (TLR9 ligand) were purchased from Sigma-Aldrich. ChIP Grade Protein G Magnetic Beads, Cell Lysis Buffer, Anti-Myd88, Anti-Traf6, Anti-p65, Anti-p-p65 (Ser536), Anti-Ikkα/β, Anti-p-Ikkα/β (S176/180), Anti-IκBα, Anti-p-IκBα (S32), Anti-ERK, Anti-p-ERK (Thr202-Tyr204), Anti-JNK, Anti-p-JNK (Thr183-Tyr185), Anti-p38, Anti-p-p38 (Thr180-Tyr182) and Anti-Syk and Anti-p-Syk (Tyr-525/526) were from Cell Signaling Technology. Anti-DAP12 was purchased from Abcam. Anti-β-actin, Anti-rabbit IgG-HRP, and anti-mouse IgG-HRP were from Santa Cruz Biotechnology. Anti-LaminA/C, Anti-Flag and Anti-Myc and Anti-V5 were purchased from Proteintech. Anti-Ocilrp2 (AF3370) was from purchased R&D. The NF-κB inhibitor BAY11-7082 (10 μM), Tbk inhibitor Amlexanox (10 μM), Mek inhibitor PD98059 (10 μM), PI3K inhibitor Wortmannin (5 μM), Erk inhibitor SHC772984 (10 μM), Jnk inhibitor SP600125 (10 μM), or p38 inhibitor SB203580 (10 μM), Syk inhibitor R406 (5 μM) were from Selleckchem.
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8

Evaluating Phosphoproteomic Signaling in Cholangiocarcinoma

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Cholangiocellular carcinoma cells were cultured in serum-free DMEM. Supernatant of OSI-027 treated cells was collected. Equal amounts of protein (4 µg of supernatant, 20 µg of lysate) were applied on 10% SDS-polyacrylamide gels and electrophoresed (BioRad, Munich, Germany) as described before (Guenzle et al., 2017 (link)). Blots were incubated with primary antibodies anti-MMP2 (#4022 1:1000 Cell Signaling Technology), anti-AKT (#9272 1:1000 Cell Signaling Technology), anti-pAKTSer473 (#9271 1:1000 Cell Signaling Technology), anti-ERK1/2 (#4696 1:1000 Cell Signaling Technology), anti-pERKThr202/Tyr204 1/2 (#4370 1:1000 Cell Signaling Technology), anti-p38 (#8690 1:1000 Cell Signaling Technology), anti-p-p38Thr180/Tyr182 (#4511 1:1000 Cell Signaling Technology), anti-4EBP1Ser65 (#9451 1:1000 Cell Signaling Technology), anti-p-p70S6KThr389 (#9206 1:1000 Cell Signaling Technology), anti-pSTAT3Tyr705 (#9145 1:1000 Cell Signaling Technology), anti-PDI (sc-74551 1:1000 Santa Cruz). Proteins were visualized by enhanced chemiluminescence (BioRad, Munich, Germany). PDI was used as loading control for the whole cell lysate. Finally, densitometry of the presented western blot was performed using ImageJ. Ratio was calculated to pixel/area of reference PDI. Expression of phosphorylated protein was calculated in relation to total protein amount.
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9

Immunoblotting Protocol for Signal Transduction

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For immunoblotting experiments, 60 μl of whole-cell lysate were diluted in 20 μl of 4× reducing SDS-PAGE sample loading buffer (1.25% SDS, 12.5% glycerol, 62.5 mm Tris-HCl, pH 6.8, 0.005% bromphenol blue, 50 mm DTT) and heated to 95 °C for 10 min before 20–35 μl was run on Novex 4–12% precast SDS-polyacrylamide gels (Thermo Scientific) with MES running buffer (Thermo Scientific). Separated proteins were transferred onto polyvinylidene difluoride membranes (Millipore) and blocked in 5% skim milk powder in PBS with Tween 20 before overnight incubation with specific primary antibodies: anti-MyD88 (R&D Systems; AF3109, 1:1000), anti-P-IRAK4 Thr-345/Ser-346 (Pfizer (20 (link)), 1:500), anti-IRAK4 (Thermo Scientific; clone 2H9, MA5-15883, 1:500), anti-IRAK1 (Santa Cruz Biotechnology, Inc.; clone H-273, sc-7883, 1:1000 (discontinued)), anti-P-p65 Ser-536 (Cell Signaling Technology; clone 93H1, 3033, 1:500), anti-P-p38 Thr-180/Tyr-182 (Cell Signaling Technology; 9211, 1:1000), anti-GFP (Thermo Scientific; A-11122, 1:1000), or anti-actin (Santa Cruz Biotechnology; clone I-19, sc-1616, 1:2000 (discontinued)). Membranes were then washed and incubated with appropriate secondary antibodies, and immunoreactivity was imaged using the ChemiDoc Touch Imaging System (Bio-Rad).
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10

Nox1 Inhibitor Signaling Pathway

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The Nox1 inhibitor, ML171 (2-acetylphenothiazine), was purchased from Sigma Aldrich (St. Louis, MO, USA) and dissolved in DMSO. Apocynin, aspirin and phorbol 12-myristate 13-acetate (PMA) were purchased from Tocris (R&D systems, Inc.) and reconstituted in DMSO. The final concentration of the vehicle DMSO in all experiments was 0.1% (except for studies with aspirin which contained 0.5% DMSO). Anti-ERK 1/2, anti-pERK 1/2Thr 202/Tyr 204, anti-Akt, anti-pAktSer 473, anti-p38 and anti-P-p38Thr 180/Tyr 182 antibodies were from Cell Signaling Technology (Boston, MA, USA). HRP-conjugated anti-rabbit light chain-specific IgG was from Millipore (Lake Placid, NJ, USA). Crosslinked collagen related peptide (CRP) was purchased from the Department of Biochemistry, University of Cambridge, UK. Fibrillar Horm collagen was from Nycomed (Munich, Germany).
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