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13 protocols using β actin

1

Western Blot Analysis of IPF Fibroblasts

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Whole lysates of control and IPF fibroblasts were harvested in RIPA buffer (Sigma-Aldrich, R0278) supplemented with a protease inhibitor cocktail (Thermo Fisher Scientific, 78430). SDS-PAGE electrophoresis was used to separate proteins using the Mini-PROTEAN® TGX™ Precast Gels (Bio-Rad, 4561085) with Precision Plus Protein™ Dual Xtra Prestained Protein Standards (Bio-Rad, 1610377). Samples were transferred to PVDF membranes using the Trans-Blot® Turbo™ Transfer System (Bio-Rad) and the membranes were blocked for 1 h at room temperature (RT) in blocking buffer (3% BSA in PBS) before they were incubated overnight at 4 °C in a 3% BSA-TTBS (Tris-buffered saline with Tween) blocking buffer with the following antibodies: β-actin (BioLegend, 643802), H3K4me1 (Diagenode, C15410194), H3K4me3 (Diagenode, C15410003) and H3K27ac (Diagenode, C15410196). The membranes were washed 3 times in TTBS for 5 mins and incubated with IRDye® 800CW Goat anti-Mouse (LI-COR, 926-32210) and IRDye® 680RD Donkey anti-Rabbit (LI-COR, 926-68073) for 1 h at RT before they were washed and imaged on the LI-COR Odyssey CLx imaging system.
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2

Quantitative Protein Analysis in Cell Lines

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We prepared cell pellets and lysates from MCF-7, CA46, HL60, PC3 MRC-5, A549, and Hela cell lines as described previously [39 (link), 40 (link)].
Cell culture supernatant from A549 cells (5 × 106) was treated on ice with 10% trichloroacetic acid (TCA) and then incubated with ice-cold 90% acetone at −20°C. Subsequently, the sample was centrifuged and the pellet dried at 65°C for 30 minutes.
The isolated proteins were mixed in Laemmli sample buffer (20% glycerol, 4% sodium dodecyl sulfate (SDS), 100 mM Tris-HCl, 200 mM dithiothreitol (DTT), and 0.01% bromophenol blue) and boiled before loading into SDS-PAGE gel. Finally, the proteins were blotted onto membranes and blocked in nonfat dry milk 8% + PBS + 0.1% Tween-20 before hybridization with the anti-RTNKEASI serum diluted 1 : 1000 in PBS + 0.1% Tween-20 + BSA 5% buffer or β-actin 1 : 20000 (Biolegend, San Diego, CA), overnight at 4°C. After primary antibodies, the membranes were probed with a secondary antibody (1 : 30000 in PBS + 0.1% Tween-20 + BSA 5%), and then, proteins were visualized by enhanced chemiluminescence (GE Healthcare, Little Chalfont, UK).
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3

Western Blot Analysis of Signaling Pathways

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Cell lysates and tissue lysates were harvested with RIPA buffer (Biosesang, Seongnam, South Korea) containing a protease inhibitor cocktail and a phosphatase inhibitor. The proteins were fractionated on 10% SDS-polyacrylamide gels. Gels were transferred to polyvinylidene fluoride membranes, and the membranes were incubated for 1 h in 5% skim milk in TBS-T buffer. Then, membranes were incubated with primary antibodies recognizing pAkt, pSmad2/3, p-ERK, p-p38, p38, ColIα1 (Cell Signaling Technology, Danvers, MA, USA), Akt, Smad2/3 (BD Biosciences, CA, USA), ERK (Santa Cruz Biotechnology, Inc., Dallas, TX, USA), and β-actin (BioLegend, San Diego, CA, USA), followed by incubation with an HRP-conjugated secondary antibody (Jackson ImmunoResearch Laboratories, West Grove, PA, USA). Signals were developed using an enhanced chemiluminescence system (Thermo Fisher Scientific, Waltham, MA, USA). Optical densities of target protein bands were analyzed with ImageJ 1.52a (National Institutes of Health, Bethesda, MD, USA).
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4

Characterization of Macrophage Activation

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DMEM was purchased from BasalMedia. Penicillin/streptomycin and FBS were acquired from Gibco. TRIzol reagent was obtained from Thermofisher. 5x HiScript II Q RT SuperMix and 2x AceQ Universal SYBR qPCR Master Mix were purchased from Vazyme. Recombinant murine M-CSF, IFN-γ, and IL-4 protein were purchased from Peprotech. The antibodies are listed as follows: p-STAT1 (Abclonal), STAT1 (Abclonal), p-STAT3 (Abclonal), STAT3 (Cell Signaling Technology, CST), p-STAT6 (Abcam), STAT6 (Abclonal), p-ERK (CST), ERK (CST), p-JNK (CST), JNK (CST), p-P65 (CST), P65 (CST), p-P38 (CST), P38 (Abclonal), iNOS (CST), Arg1 (CST), PRMT2 (Novus), β-actin (CST), PE anti-mouse F4/80 (Biolegend), FITC anti-mouse CD86 (Biolegend), APC anti-mouse CD206 (Biolegend).
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5

Protein Expression Analysis by Western Blot

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Protein from tissues and cells was extracted in RIPA buffer (Solarbio, Beijing, China). Protein concentrations were determined by the bicinchoninic acid method. Western blotting was used to detect protein expression. One hundred microgram of protein extract was separated by SDS‐PAGE (Beyotime) and transferred to PVDF membranes, which were blocked with 5% non‐fat milk for 1 hr. Membranes were incubated with primary antibodies overnight at 4°C. After washing three times in 1× Tris‐buffered saline with Tween‐20, membranes were incubated with secondary antibodies (Zsgb‐bio, Beijing, China) for 1 hr. Relative band intensities were evaluated using Quantity One (Bio‐Rad MP4000, Hercules, CA, USA). Primary antibodies were calponin and α‐SMA (1:500; Millipore), KLF5 (1:50; Abcam, Cambridge, MA, USA), MYOCD (1:200; Abcam) and β‐actin (1:500; Biolegend, San Diego, CA, USA).
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6

Western Blot Analysis of Dectin-1 and PGLYRP-2

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Western blot analysis was performed as previously described [37 (link)]. Cytoplasmic and nuclear extracts were prepared using a Nuclear Extract kit (Active Motif) according to manufacturer's instructions. Protein concentration was measured by a BCA protein assay kit. Samples were mixed with 6×SDS reducing sample buffer and boiled for 10 minutes before loading. Equal protein concentrations (20μg/lane) were separated on an SDS polyacrylamide gel and transferred electronically to PVDF membranes. The membranes were blocked with 5% nonfat milk in TTBS (50 mM Tris [pH 7.5], 0.9% NaCl, and 0.1% Tween-20) for 1 hour at room temperature and incubated with primary antibodies to dectin-1 (1:200), PGLYRP-2 (1:200), or β-actin (622102, BioLegend, 1:1000) overnight at 4°C. After three washes with Tris-buffered saline with 0.05% Tween 20 for 10 min each, the membranes were incubated with HRP conjugated rabbit anti-goat IgG (1:1000) or goat anti-rabbit IgG (1:1000, Rockford, IL) for 1h at room temperature. The signals were detected with an ECL Plus chemiluminescence reagent (GE Healthcare), and the images were acquired by a blot imaging station (model 2000R; Eastman Kodak, Rochester, NY).
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7

Protein Detection via Western Blotting

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Whole-cell lysates were resolved by SDS-PAGE (40 μg of protein was loaded into each well) using 10% acrylamide mini-gels, followed by electrophoretic transfer to PVDF membranes (Immobilon-P MILLIPORE) for 2 h. Membranes were blocked with 5% fat-free milk in PBS for 2 h and incubated with primary antibodies overnight. The detection step was performed with peroxidase-coupled anti-mouse IgG and anti-rabbit IgG (BioLegend, 1 : 2000) and anti-goat IgG (Santa Cruz Biotechnology) for 2 h. The primary antibodies included antiphosphotyrosine (Santa Cruz Biotechnology) and β-Actin (BioLegend). All primary antibodies were diluted 1 : 500 in 1% fat-free milk in PBS. Blots were developed with the ECL detection system according to the manufacturer's instructions (Amersham). Blots are representative of two separate experiments.
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8

Western Blot and ELISA Analysis of Focal Adhesion Proteins

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For western blot analysis, total cell lysates, separated by SDS-PAGE, were probed with polyclonal Abs against mouse focal adhesion kinase (FAK) (#3285; Cell Signaling), phospho-mFAK (#3283; Cell Signaling), mitogen-activated protein (MAP) kinase ERK1/ERK2 (Millipore), and phospho-MAP kinase ERK1/ERK2 (Tyr202/204) (#4370; Cell Signaling), and monoclonal Abs against mouse integrin αv/CD51 (NBP1-96739; Novus Biologicals), mouse integrin β3 (I19620; Transduction Laboratories), and β-actin (BioLegend). Chemiluminescence was detected by an ImageQuant LAS 4000mini (GE Healthcare).
For quantitation of mPOSTN protein, ELISA was performed by using Quantikine ELISA Mouse Periostin/OSF-2 Immunoassay kit (MOSF20; R&D Systems).
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9

Western Blot Analysis of Signaling Proteins

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Cell lysates and tissue lysates were harvested with RIPA buffer (Biosesang, Seongnam, Republic of Korea) containing a protease inhibitor cocktail and a phosphatase inhibitor. The proteins were fractionated on 10% SDS-polyacrylamide gels. The gels were transferred to polyvinylidene fluoride membranes, and the membranes were incubated for 1 h in 5% skim milk in TBS-T buffer. Then, the membranes were incubated with primary antibodies recognizing pAkt (cat#2965), pSmad2/3 (cat#8828), ColIα1 (cat#84336) (Cell Signaling Technology, Danvers, MA, USA), Akt (cat#610861), Smad2/3 (cat#610843) (BD Biosciences, CA, USA), and β-actin (cat#664802, BioLegend, San Diego, CA, USA), followed by incubation with an HRP-conjugated secondary antibody (Jackson ImmunoResearch Laboratories, West Grove, PA, USA). Signals were developed using an enhanced chemiluminescence system (Thermo Fisher Scientific). The optical densities of the target protein bands were analyzed with ImageJ 1.52a (National Institutes of Health, Bethesda, MD, USA).
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10

Antibody Acquisition and Generation

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Antibodies were purchased from Abcam (PABPC1, hnRNPA1, PSD-95, RPS6, and synaptophysin), Cell Signaling Technologies (PABPC1, V5, eIF4G, and β-Actin), BioLegend (β3tubulin), Invitrogen (V5 tag), Santa Cruz Biotechnology (GAPDH), and Sigma-Aldrich (PAIP2 and FLAG). A peptide encompassing the C-terminal end of mouse neuPABP (ERGAWARQSTSADFKDFD), which is not conserved in other mammalian PABPC proteins, was injected into rabbits for neuPABP antibody production (Thermo Fisher).
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