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113 protocols using ab9484

1

Western Blot Quantification of E2F7

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After transfection for 48 h, proteins were extracted from cultured cells using RIPA buffer (Thermo Fisher Scientific) containing protease inhibitor. Then, the protein concentration was assayed by BCA protein assay kit (Thermo Fisher Scientific). The high-temperature denatured protein samples were separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) at 100 V and transferred onto the polyvinylidene fluoride (PVDF) membranes (Amersham, USA). The membranes were incubated with primary antibodies overnight at 4°C after being blocked for 1 h. Then, the membranes were incubated with horseradish peroxidase labeled secondary antibody goat anti-rabbit IgG H&L (ab97051, 1:2000, Abcam, Cambridge, UK) at room temperature for 1 h. Afterwards, the membranes were washed with TBST buffer for three times. The primary antibodies included rabbit polyclonal anti-E2F7 (ab56022, 1:1000, Abcam) and rabbit polyclonal anti-GAPDH (ab9484, 1:1000, Abcam). All proteins were visualized using an optical luminometer (GE, USA). The relative expression of proteins was analyzed by using the Image Pro Plus 6.0 (Media Cybernetics, USA). All experiments were conducted in triplicate.
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2

Quantification of MCU Protein Levels

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Cell proteins were extracted after 96 h of H9c2 transfection, as previously described [18 (link)]. Briefly, after being washed with cold PBS, cell cultures were scraped, harvested, and resuspended in RIPA buffer. The samples were vortexed and sonicated on rounds of 10 sec sonication/10 sec rest and centrifuged at 15000 ×g 10 min. The protein concentration of the lysate was determined by Lowry protein assay. Protein lysates (30 μg/lane) were resolved on SDS-PAGE gel 10%, transferred onto PVDF membrane at 150 mA, 50 min, and incubated with anti-MCU antibody ab121499 (Abcam, Cambridge, MA, USA) 1 : 500 and washed three times for 10 min with PBS-Tw 0.5% and subsequently probed with secondary antibody anti-rabbit IgG conjugated with HRP (Millipore, Billerica, MA, USA) 1 : 5000 for 2 h at room temperature (RT). After washing three times for 10 min, protein-antibody blots were developed with Clarity™ Western ECL (Bio-Rad, Hercules, CA) and quantified by using a BioSpectrum 415 Image Acquisition System (UVP®, Upland, CA, USA). Anti-β-actin antibody (ab8229) 1 : 500 or anti-GAPDH antibody (ab9484) 1 : 500 (both of them from Abcam, Cambridge, MA, USA) was used as a loading control. The level of MCU expression was the ratio of intensities of the MCU-signal/β-actin signal normalized versus siRNA-Neg signal.
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3

Western Blot Analysis of RNF6 Protein

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Cells were treated with RIPA buffer (Beyotime, China) to obtain the total cell proteins, which were quantified using the micro bicinchoninic acid (BCA) method. Proteins (50 μg) were separated by SDS-PAGE, transferred to PVDF membranes, and sealed with 5% skimmed milk at 37°C for 2 h. Then, the membrane was combined with RNF6 (ab204506; Abcam, USA) or GAPDH (ab9484; Abcam) antibodies overnight at 4°C. The secondary antibody was horseradish peroxidase-labeled goat anti-rabbit IgG (ab205718; Abcam). The ECL method was used to detect the signal, the UVI gel imaging system was used to collect the image, and Image J software (Media Cybernetics, USA) was used to analyze the gray value.
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4

Subcellular Fractionation for Target Analysis

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To determine the translocation of target molecules, nuclear and cytoplasmic extracts were prepared using NE-PER Nuclear and Cytoplasmic Extraction Reagents (Thermo Fisher Scientific, 78833) following the manufacturer’s instructions. Cells were harvested after trypsinization for cell counting. Then, input materials were normalized by pelleting 2 × 106 cells from each treatment. Cell membranes were disrupted by addition of the first detergent. Cytoplasmic extracts were recovered by centrifugation and the nuclei were then lysed with a second detergent to yield nuclear extracts. The purities of the extracts were determined by western blot probed with anti-GAPDH mAb (Abcam, ab9484) and anti-histone H3 pAb (Abcam, ab1791).
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5

Detailed Western Blotting Protocol

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Western blotting was performed as previously described (Hsiao et al., 2009 (link)). Briefly, lysate protein concentrations were determined using the Advanced Protein Assay (Cytoskeleton, Inc.). Samples were boiled in 2× Laemmli buffer for 5 min, and 35 μg protein per lane was loaded in 8% Tris/Glycine SDS polyacrylamide gels for separation at 100 V. Samples were then transferred to Immobilon-FL PVDF microporous membrane for 2 h on ice at 100V. Membranes were then blocked with 5% milk diluted in tris-buffered saline (TBS) + 0.1% Tween 20 (TBST) for 1 h at RT, followed by overnight incubation at 4°C with primary antibodies against desmin (1:100; DSHB, D3), myosin heavy chain (MHC) (1:200; DSHB, MF20) or GAPDH (1:10000; Abcam, ab9484) diluted in 3% milk TBST blocking solution. Membranes were then rinsed in TBST three times for 30 min each, followed by 1 h incubation at RT in secondary antibody (1:5000; Pierce, 32230, goat anti-mouse HRP) diluted in 3% milk TBST blocking solution. Immunodetection was performed using the Super Signal West Femto Maximum Sensitivity substrate kit (Thermo Scientific).
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6

Western Blot Analysis of EMT Markers

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Total protein was extracted from SKOV3 and 3AO cells with RIPA buffer (Beyotime, Shanghai, China) supplemented with protease inhibitors. The same amount of protein in each group was separated by sodium dodecyl sulfate polyacrylamide gel electrophoresis and then the proteins were transferred to the nitrocellulose (NC) membrane (Pall Life Sciences, Port Washington, NY, USA). After that, the membrane was blocked with 5% skim milk for 1.5 h and then incubated with the corresponding specific primary antibody at 4 °C overnight. Then, the secondary antibody (1:5000) was employed to incubate the membrane at room temperature for 1 h. Ultimately, electrochemical luminescence (ECL) kit (Beyotime, Shanghai, China) was used to detect the immunoreactivity. The primary antibodies used in this work included anti-E-cadherin antibody (Abcam, ab197751, 1:2000), anti-vimentin antibody (Abcam, ab92547, 1:1000), anti-β-catenin antibody (Abcam, ab16051, 1:1000), anti-c-Myc antibody (Abcam, ab32072, 1:2000), anti-cyclin D1 antibody (Abcam, ab16663, 1:2000) and anti-GAPDH antibody (Abcam, ab9484, 1:4000).
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7

Western Blot Analysis of Keratinocyte Factors

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Cell lysate collected from nontransduced, transduced with Ad-Foxn1 or Ad-GFP keratinocytes were prepared in 200 μL RIPA buffer containing Protease Inhibitor cocktail (PhosStop, Roche; Protease Inhibitor, Sigma-Aldrich, St. Louis, MO, USA). Thirty milligrams of protein per sample separated on 12% SDS/PAGE gels and transferred onto polyvinylidene difluoride membranes (Merck Millipore, Burlington, MA, USA) were incubated with anti-BMP2 (1:1000, ab14933, Abcam, Cambridge, MA, USA), anti-IGF2 (1:800, GTX 129110, GeneTex, Irvine, CA, USA), anti-GAPDH (1:1500, ab 9484, Abcam, Cambridge, MA, USA) and anti-Actb (1:1000, ab 8226, Abcam, Cambridge, MA, USA) antibodies followed by fluorescent secondary antibodies (Alexa Fluor 680, 1:10,000, goat anti-mouse, A10038, Life Technologies, Thermo Fisher Scientific and Irdye 800, 1:10,000, 611-132-122, Rockland, Limerick, PA, USA). Bands were visualized using the ChemiDoc™ Imaging System (Bio-Rad Laboratories, Inc., Hercules, CA, USA). Densitometric analysis was performed using Image Lab™ Software version 6.0 (Bio-Rad Laboratories, Inc.) (n = 3 samples per experimental group).
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8

Hippocampal Protein Extraction and Analysis

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Proteins were extracted as described previously (Liu et al., 2016 (link)). Briefly, hippocampus was homogenized and dissolved in ice-cold lysis buffer (PBS, pH 7.4) containing a cocktail of protein phosphatase and protease inhibitors (21 μg/ml aprotinin, 0.5 μg/ml leupetin, 4.9 mM MgCl2, 1mM sodium-Meta-vanandante, 1% Triton X-100, and 1mM PMSF) to avoid de-phosphorylation and degradation of proteins. Subsequently, all the samples were centrifuged at 14000 ×g at 4°C for 7 min followed by collecting supernatant which was assayed for total protein concentration. Proteins were separated in 8.5% SDS–PAGE gel, and then transferred to PVDF membrane, blocked with 5% non-fat dry milk, followed by incubation with primary antibodies overnight at 4°C. Then membranes were washed for three times, incubated with secondary antibody and then processed for visualization using the enhanced chemiluminescence immuno-blotting detection system. All results were normalized against GAPDH. GAPDH was purchased from Abcam, ab9484, monoclonal, 1:5000, NDR1/2 was from Santa cruz, sc271703, monoclonal, 1:2000.
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9

Analyzing HIF-1α and VEGF Expression

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Western blot was performed in cultured cells following various treatments. The protein lysates (1% NP40, 50 mM Tris, 5 mM EDTA, 1% SDS, 1% sodium deoxycholate, 1% Triton X-100, 1 mM PMSF, 10 mg/ml aprotinin, 1 mg/ml leupeptin, and pH = 7.5) were measured by Bradford assay and the same amount of proteins was resolved on SDS-PAGE followed by an electric transfer to a PVDF membrane. The blots were blocked by 5% non-fat milk and incubated with primary antibodies, including HIF-1α (ab51608, 1:1000; Abcam, Cambridge, MA, United States), VEGF (ab51745, 1:2000; Abcam, United States) and GAPDH (ab9484, 1:1000; Abcam, United States). The blots were then incubated by appropriate HRP conjugated secondary antibodies, and signals were visualized by an enhanced ECL-based imaging system.
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10

Protein Expression Analysis in Cancer Cells

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LoVo or SW1116 cells were lysed on ice with the lysis buffer (Beyotime, Shanghai, China) and the lysates were later centrifuged for 15 min at 12,000 × g. The BCA kit (Thermo Fisher Scientific, Waltham, MA, USA) was acquired for evaluating protein concentrations. Protein was subjected to SDS–PAGE (Bio-Rad, Hercules, CA, USA) and transferred to PVDF membranes (Millipore, Billerica, MA, USA). Primary antibodies and secondary antibodies were applied to incubate membranes in sequence. ECL detection system (Applied Biosystems, Foster City, CA, USA) was utilized to visualize protein bands. Primary antibodies against MMP2 (ab97779, Abcam, Cambridge, MA, USA), MMP7 (ab5706, Abcam), N-cadherin (ab76057, Abcam), E-cadherin (ab40772, Abcam), NANOG (ab80892, Abcam), OCT4 (ab181557, Abcam), Gli4 (AV37797, Sigma-Aldrich), PTCH1 (ab53715, Abcam), Shh (ab53281, Abcam), Gli1 (ab49314, Abcam), Gli2 (ab167389, Abcam), and GAPDH (ab9484, Abcam) were used, individually.
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