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44 protocols using anti rabbit hrp

1

RSK Knockdown Effects on TNFα Response

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H460 cells were seeded in 96 well plates (5000 cells/well) in 10% serum RPMI. The next day, the cells were transfected with siRNA directed against RSK1/2/3 (siGenome, Dharmacon) using DharmaFECT 1 transfection reagent (Dharmacon). After 48 hours, the cells were starved in serum free RPMI for 6 hours prior to treatment with TNFα (0–1000 ng/ml). Cell Viability was measured after 24 hours of TNFα treatment using the CellTitre Blue assay (Promega). To verify siRNA knockdown of RSK1, 2 and 3 protein, whole cell lysates were harvested at 48 hours post transfection, run on SDS PAGE gels, transferred to nitrocellulose membrane and probed using isoform specific antibodies: RSK1 (#9333), RSK2 (#9340) and RSK3 (#9343, all from Cell Signaling). Secondary antibodies used were anti-rabbit-HRP and anti-mouse-HRP (GE healthcare). Blots were stripped and re-probed using a β-actin mouse polyclonal antibody (Santa Cruz) as a loading control.
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2

Western Blot Analysis of Wnt Pathway Proteins

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Whole cell lysates were prepared by resuspending a cell pellet in an appropriate amount of RIPA buffer containing protease inhibitors and phosphatase inhibitors and incubating for 30 minutes on ice. The lysates were spun down at high speed for 15 minutes at 4C, and the supernatant was transferred to a clean tube. Lysates were quantified using a Bradford assay (BioRad, 500-0205). 80 μg of total cell lysates were analyzed by Western blot using the following antibodies and concentrations: LRP6 (1:1000, Cell Signaling Technology 3395, RRID:AB1950408), LRP5 (1:1000, Cell Signaling Technology 5731, RRID:AB_10705602), ß-Catenin (1:1000, Cell Signaling Technology 8480, RRID:AB_11127855), ß-Tubulin (1:2000, Genetex GTX101279, RRID:AB_1952434). All blots were incubated overnight in primary antibody, washed, and then incubated for two hours in secondary antibody – anti-rabbit-HRP (1:5000, GE Healthcare) or anti-mouse-HRP (1:2000, GE Healthcare). Blots were imaged using a Syngene G-Box system. Bands were quantified using Adobe Photoshop (RRID:SCR_014199). Statistical evaluation of three or more independent biological replicates was performed using Student’s unpaired T-Test.
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3

Immunoblotting Protocol for Protein Analysis

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Immunoblotting was performed as described 7 (link) and developed using a Syngene G-Box imager. Antibodies: TRF2 (Karlseder lab), Rabbit FLAG (Sigma-Aldrich - F7425), FLAG (M2, Sigma-Aldrich - F1804), Tubulin (Sigma-Aldrich – T6557), BrdU A488 (3D4, BD Biosciences - 555627), Ku70 (V540, Cell Signalling - 4104), Ku70 (Abcam – ab3114), Ku86 (Cell Signalling - 2753), ATM (Epitomics - 1549-1), Ligase 4 (EPR16531, Abcam - ab193353), DNA-PKcs (Abcam - ab70250), Ligase 3 (BD Biosciences - 611876), Anti-Rabbit HRP (GE Healthcare - NXA931), Anti-Mouse HRP (GE Healthcare - NXA934V).
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4

Immunoblotting of Endothelial Cell Proteins

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Immunoblotting was carried out according to standard methods as described in [19 (link)]. Endothelial cells were lysed either in RIPA buffer (where protein content-equalised post-nuclear fractions were used) or directly in ‘gel sample buffer’ (with sonication to degrade genomic DNA). Immunoblotting of commercial pre-cast gels (BioRad) used either Immobilon PVDF membranes (Merck) or nitrocellulose membrane (GE Healthcare). Antibodies used in this study were: Δ-HS (F69-3G10, AMS Biotechnology); anti-fibronectin (AB1945, Merck); anti-integrin α5 (sc-166665); anti-rabbit-HRP (GE Healthcare, NA934V), anti-mouse-HRP (GE Healthcare, NA931V). To visualise HS neoepitope, protein lysate was digested with 1 mU of heparinase III (EC4.2.2.8 from Flavobacterium heparinum) prior to SDS-PAGE.
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5

Molecular Profiling of Skeletal Muscle

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The following antibodies were used: skeletal muscle myosin (Santa Cruz Biotechnology, Dallas, TE, USA), Glut4 (Proteintech, Rosemont, IL, USA), Myomesin1 (Proteintech), Hexokinase II (Cell Signaling Technology), FoxO1 (Cell Signaling Technology), phospho-FoxO1 (Cell Signaling Technology) (rabbit), Histone H3 (Cell Signaling Technology), Glut1 (Cell Signaling Technology), GAPDH (Cell Signaling Technology), Vinculin (Cell Signaling Technology), Desmin (Milipore/Sigma-Aldrich), Troponin-I (Milipore/Sigma-Aldrich), b-Actin (mouse; Milipore/Sigma-Aldrich), anti-mouse HRP (GE Healthcare, Chicago, IL, USA), and anti-rabbit HRP (GE Healthcare). AS1842856 was purchased from Adooq.
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6

Western Blot Analysis of Tumor Proteins

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Lysates were generated by incubating cells or ground tumors in RIPA buffer (Millipore). 20–30 μg of cleared lysate were analyzed by SDS-PAGE as previously described 11 (link). The following primary antibodies were used: Vinculin (1:5,000 dilution; Sigma, V9131), β-Actin (1:5,000; Sigma, A5441), Collagen I (1:500; Abcam, ab21286), Fibronectin (1:1,000; Abcam, ab2413), Smad4 (1:200; Santa Cruz, sc-7966), Smad2 p-S465/467 (1:1,000; Cell Signaling, 3108S), Smad2/3 (1:1,000; Cell Signaling, 3102S), GCN2 p-T899 (1:1,000; Abcam, ab75836), GCN2 (1:1,000; Cell Signaling, 3302S), ATF4 (1:200; Santa Cruz, sc-200), PC (1:1,000; Novus, NBP1–49536), S6K (1:1,000; Cell Signaling, 2708S), GLUL (1:1,000; Sigma, G2781), SMA (1:1,000; Millipore, CBL171). The following secondary antibodies were used: anti-rabbit HRP (1:5,000; GE, NA934V), anti-mouse HRP (1:5,000; GE, NA931). Quantification of band intensities of Collagen I relative to β-Actin or Vinculin in tumor allograft experiments was performed with Image Lab software v6.0 (Bio-Rad).
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7

Comprehensive Antibody Characterization Protocol

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The following antibodies were used: Rabbit polyclonal anti-Sec16 (Ivan et al., 2008 (link))1:800 IF, 1:2500 WB; Rabbit polyclonal anti-Sec23 (RRID:AB_2546460, Thermo scientific, 1:200 IF, 1:500 WB); Mouse monoclonal anti-V5 (ThermoFischer Scientific 46–0705, 1:500 IF); Rabbit polyclonal anti-V5 (RRID: AB_261889, Sigma V8137); Mouse monoclonal anti-ATP5A (RRID:AB_301447, Abcam 15H4C4; 1:1000 IF); Mouse monoclonal anti-KDEL receptor (RRID:AB_1209241; Abcam ab69659, 1:500 IF); Mouse monoclonal anti-calnexin 99A (Gift fom Sean Munro, 1:10 IF); Mouse monoclonal anti-FMR1 (RRID:AB_528251, DSHB supernatant clone 5A11, 1:800 IF, 1:2000 WB); Rabbit polyclonal anti-GFP (RRID:AB_1002458, Acris antibodies, 1: 5000 WB); Rabbit polyclonal anti-GFP 1:100 IEM; Polyclonal FMR1-c 1:20 IF 1:500 WB (DSHB), anti-Rabbit HRP (RRID:AB_384736, GE healthcare 1:2000 IEM); Anti-Mouse HRP (RRID:AB_384734, GE Healthcare, 1:2000 IEM).
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8

Topical TPA Induces Epidermal Protein Changes

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Three or more 7-wk old WT and BK5.EP4 mice were topically treated with 200 μl acetone or 2.5 μg TPA in 200 μl acetone, and total protein was isolated from the epidermis at 3, 12, and 24 h after treatment as previously described (Sung et al., 2006 (link)). Fifty to 75 μg epidermal lysates were separated on either an 8% or 15% SDS-polyacrylamide gel and transferred to polyvinylidene difluoride membranes (Thermo Scientific). Primary antibodies used were anti-MMP-9 (1:1000; Chemicon) for the 24 h samples, anti-pErk1/2 (1:1000), anti-Erk1/2 (1:1000), anti-pStat3 (1:1000), and anti-Stat3 (1:1000), all from Cell Signaling, Danvers, MA, for the 3 h samples, and anti-actin-HRP (1:1000; Santa Cruz Biotechnology) for all samples as loading controls. Antibodies against CYP1A1 and CYP1B1 (1:500, Santa Cruz Biotechnology) and aromatase (1:1000; Invitrogen, Carlsbad, CA) were also used. Secondary antibodies were anti-mouse-HRP (1:2500) and anti-rabbit-HRP (1:10000; GE Healthcare). Blots were blocked in 5% BSA in Tris-buffered saline containing 0.1% Tween 20 (TBST), primary antibodies were incubated overnight in 5% BSA in TBST at 4°C, and the secondary antibodies were incubated for an hour in 5% non-fat milk in TBST at room temperature. The membranes were washed, and SuperSignal West Femto Maximum Sensitivity Substrate (Pierce Biotechnology, Inc., IL) was used to detect antibody binding.
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9

Western Blotting for IL-1 Signaling

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Western Blotting was performed as previously described with lysis of cells directly in Laemmli buffer, SDS-PAGE, and transfer onto PVDF membrane. After blocking (5% milk), membranes were incubated (4 °C; 16 h) with IL-1α pAb (1:500; Peprotech), IL-1R2 pAb (1:250; R&D), or β-actin mAb (1:5000; Sigma) before washing (PBS/Tween) and incubation (room temperature for 1 h) with anti-rabbit HRP (1:2000; GE Healthcare) or anti-goat HRP (1:2000; Jackson ImmunoResearch). After washing membranes were visualized with ECL reagent (Amersham Biosciences) and x-ray film (Fujifilm).
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10

ELISA for Quantifying Secreted gp120

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ELISAs were based on previously described methods (Bowley et al., 2007 (link); Moore et al., 2008 (link); Si et al., 2004 (link)) with several modifications. Briefly, 96-well microplates were coated overnight with sheep antibody D7324 at 5 μg/ml in PBS (AALTO Bioproducts, Ltd., Ireland). Wells were washed 3 times with PBS supplemented with 2.5% Tween-20 (PBS-T) and blocked for 1 hour at room temperature with PBS-T supplemented with 3% BSA. Supernatants were incubated in the wells for 3 hours, followed by 10 washes with PBS-T and 1 hour incubation with polyclonal rabbit anti-gp120 (American Biotechnologies Inc.). After 10 additional washes with PBS-T, wells were incubated with anti-rabbit-HRP (GE Healthcare). The reaction was developed using BM chemiluminescence ELISA substrate (Roche) according to the manufacturer’s instructions. The reaction was read on a luminometer (Viktor2, Perkin Elmer, Waltham, MA). Calculations of sgp120 concentrations were based on a standard curve of purified gp120 (Dunfee et al., 2006b (link)). Supernatant from cells transfected with empty pcDNA3 vector was used to determine background.
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