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10 protocols using myecl

1

Western Blot Analysis of Cell Signaling

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Western blot protein assays were conducted as previously reported [20 ]. Cells were treated with omipalisib and harvested by trypsinization, followed by resuspension in lysis buffer (containing 1 mM PMSF and 0.5 mM PhosSTOP) with brief sonication. The protein concentrations were determined with a protein assay kit according to the manufacturer’s instructions (Beyotime, P0010, China). Cell lysates were separated by SDS-PAGE and transferred onto PVDF membranes (GE Healthcare). After blocking with blocking buffer containing 5% nonfat milk, membranes were incubated with primary antibodies overnight at 4°C, followed by incubation with horseradish peroxidase–conjugated secondary antibody. Blots were imaged with an imaging system (MYECL, Thermo scientific). Primary antibodies, AKT (#9272), ERK (#4695), P70S6K (#9202), S6 (#2217), 4EBP1 (#9644), p-AKT (Ser473, #4060), p-ERK (Thr202/Tyr204, #4376), p-P70S6K (Ser371, #9208), p-S6 (Ser235/236, #2211), p-4EBP1 (Thr37/46, #2855), and CDKN1B (#3688) were purchased from Cell Signaling Technology. CCND1 (ab134175) was obtained from Abcam.
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2

SDS-PAGE and Western Blotting Quantification

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SDS–PAGE was carried out using 10% polyacrylamide gel, unless stated otherwise. The gels were stained with SYPRO Ruby or Oriole. The fluorescent signals were captured using a WSE-5200 Printgraph 2M (ATTO Bioscience & Technology). The amount of protein in the preparations was estimated based on the densitometry of the SYPRO Ruby signals of total proteins separated on the electrophoretic gel using the standard samples. The protein concentration was determined based on bovine serum albumin. Western blotting was carried out using ImmunoStar chemiluminescent substrate (Wako Pure Chemical) and visualized with a CCD video camera system (myECL; Thermo Fisher Scientific Inc.). The amount of protein in the immuno-blot bands was normalized to tubulin contained in the same lane. Contrast of images of SDS–PAGE and Western blotting was modulated with Photoshop although they are greatly dependent on the exposure conditions.
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3

Native SDS-PAGE Analysis of Nluc

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A 5 µL aliquot of Nluc containing harvest was mixed with 10 µL Native sample buffer and run at 100 V for 30 minutes under native conditions using a 4–15% SDS PAGE gel. The gel was then removed and Nluc substrate diluted 1:100 in PBS pH 7.4, was added on top of the gel and imaged using a chemiluminescent imager (Thermo-fisher scientific, myECL) with a matte black background.
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4

Cytokine profiling using protein arrays

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Cytokine arrays were generated using the Proteome Profiler Human XL Cytokine Array Kit (R&D Systems, Minneapolis, MN), according to the manufacturer's protocol. For each assay, a total of 500 μL of nonconcentrated cell culture supernatant/condition medium was used. Resultant membranes were imaged with a chemiluminescent image analyzer (MyECL; ThermoFisher Scientific) and analyzed by densitometric quantification (ImageJ; NIH, Bethesda, MD). A total of 4 independent samples (1:3 shNT, 1:3 shHDAC1, 1:10 shNT, and 1:10 shHDAC1) were subject to cytokine array analysis (n=1 for each).
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5

Hst1 Modulates LPS-Induced Inflammatory Responses

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RAW264.7 cells were cultured and stimulated with LPS with or without Hst1 (2 h pretreatment with Hst1 and then co-treatment with LPS) for the indicated times. T Protein concentration was quantified (Bio-Rad Laboratories, Hercules, CA, USA). The cells were prepared using a Nuclear Extraction Kit (Abcam, Cambridge, UK). Proteins were separated on NuPAGE 10% Bis-Tris gel (Invitrogen, Carlsbad, CA, USA)). Nonspecific binding was blocked by soaking the membrane in a Tris-buffered saline containing 3–5% non-fat dry milk (Santa Cruz). The membranes were reacted with primary antibodies against iNOS, p-JNK, JNK, p-p38, p38, p-IκBα, p65, PCNA, and β-Actin. Horseradish peroxide-conjugated secondary antibodies were detected using enhanced chemiluminescence detection (Amersham Bioscience, Buckinghamshire, UK). Protein expression was determined by the analysis of the signals captured using an image analyzer (myECL, Thermo Scientific, Waltham, MA, USA).
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6

Western Blot Analysis of Proteins

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Cell lysates were separated by 15% sodium dodecyl sulfate (SDS)-polyacrylamide gel and transferred onto nitrocellulose membranes. After blocking in 5% nonfat powdered milk in Tris-HCl buffer (TBS), the membrane was incubated with anti-HA and anti-actin monoclonal antibodies (Sigma, St. Louis, MO, USA), washed three times with TBS (50 mM Tris-HCl, pH 7.4), and probed with HRP-conjugated goat anti-mouse antibody (R & D Systems). After washing with TBS buffer with 0.05% Tween 20, the membrane was analyzed by myECL (Thermo Scientific, Waltham, MA, USA) using the enhanced chemiluminescence (ECL) reaction in the Western Chemiluminescent HRP substrate (Millipore Sigma, Burlington, MA, USA).
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7

qRT-PCR Analysis of siRNA Knockdown

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RNA was isolated from HEK293 cells after siRNA treatment using TRIzol (Invitrogen) according to the vendor’s protocol. RNA aliquots were frozen at −80°C prior to RT-PCR analysis. RT-PCR evaluation of knockdown of mRNA of interest was assessed using the following primers: Tpcn1 F – GACCACAGCCAATTTCCCAG, Tpcn1 R – CGCTTGTGCAGTAGCAAAGA. Tpcn2 F – ACGGACTTTGAGCTTCACCAT, Tpcn2 R – CGAACAGGTAACCCTTCACAGA. Mcoln1 F – GGTGCAGCTCATCCTGTTTG, Mcoln2 R – ACCACGGACATACGCATACC. Smpd1 F – CTGCGCACCCTCAGAATTGG, Smpd1 R – TGTCTCCTCGATCCTCAGCA, Asah1 F – CCTTCAGGACCAACGTACAGAG, Asah1 R – AAAAGGGCCAGGAAAGTTGC, Cers2 – TTCTTTGAGCTGTACGTGGCT, Cers2 R – GCTGGCTTCTCGGAACTTCT, Gapdh F – TGCACCACCAACTGCTTAG, Gapdh R – GCATGGACTGTGGTCATGAG. Superscript III One-Step RT-PCR System with Platinum Taq (Invitrogen) was used to convert mRNA to cDNA and amplify samples in a single reaction. semi quantitative RT-PCR reactions (35 cycles) were multiplexed to amplify GAPDH and mRNA of interest simultaneously. PCR products were separated on a 2% agarose gel. Gels were imaged using a myECL (Thermo Fisher) and quantified by densitometry (ImageJ).
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8

RT-PCR Analysis of siRNA-Mediated Knockdown

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RNA was isolated from HEK293 cells after siRNA treatment using TRIzol (Invitrogen) according to the vendor’s protocol. RNA aliquots were frozen at −80 °C prior to RT-PCR analysis. RT-PCR evaluation of knockdown of mRNA of interest was assessed using the following primers: Tpcn1 F – GACCACAGCCAATTTCCCAG, Tpcn1 R – CGCTTGTGCAGTAGCAAAGA. Tpcn2 F – ACGGACTTTGAGCTTCACCAT, Tpcn2 R – CGAACAGGTAACCCTTCACAGA. Mcoln1 F – GGTGCAGCTCATCCTGTTTG, Mcoln2 R – ACCACGGACATACGCATACC. Smpd1 F - CTGCGCACCCTCAGAATTGG, Smpd1 R – TGTCTCCTCGATCCTCAGCA, Asah1 F – CCTTCAGGACCAACGTACAGAG, Asah1 R – AAAAGGGCCAGGAAAGTTGC, Cers2 F – TTCTTTGAGCTGTACGTGGCT, Cers2 R – GCTGGCTTCTCGGAACTTCT, Gapdh F – TGCACCACCAACTGCTTAG, Gapdh R – GCATGGACTGTGGTCATGAG. Superscript III One-Step RT-PCR System with Platinum Taq (Invitrogen) was used to convert mRNA to cDNA and amplify samples in a single reaction. semi quantitative RT-PCR reactions (35 cycles) were multiplexed to amplify GAPDH and mRNA of interest simultaneously. PCR products were separated on a 2% agarose gel. Gels were imaged using a myECL (Thermo Fisher) and quantified by densitometry (ImageJ).
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9

Western Blot Analysis of SMCHD1 in mES and mEF Cells

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Mouse embryonic stem (ES) cell and mouse embryonic fibroblast cell cultures were lysed in RIPA buffer. Protein concentrations were measured using a Bradford assay, and lysates diluted to an equal concentration. Cell lysates were mixed 1:1 with Laemmli buffer, boiled for 10 min then immediately run on an 8% polyacrylamide gel with a 4% stacking layer for 50 min at 200V. Immobilon-P membrane (EMD Millipore) was activated by placing it in a sequence of 100% methanol (30 sec), deionized water (2 min), and then transfer buffer (20 min). Electroblotting was completed by submerging the transfer assembly in ice during transfer (1 h, 95V). Membranes were blocked for 1.5 h in 5% nonfat dry milk in transfer buffer (25 mM Tris, 192 mM Glycine). Antibodies (SMCHD1; Abcam ab122555, 1:1000 dilution; Actin Sigma A5441, 1:10,000 dilution) were incubated on the membrane overnight in the same solution. Chemiluminescent detection of proteins was completed using the SuperSignal mouse Immunoglobulin G (IgG) detection kit from Thermo (34081, Waltham, MA) and Imaged on a myECL (Thermo) imager following manufacturer instructions.
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10

Protein Expression Analysis After Hypertrophy

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The cells were lysed after hypertrophy induction using buffer RIPA (Abcam, Cambridge, MA, USA) by adding a protein inhibitor cocktail (Roche Diagnostic, Indianapolis, IN, USA) to recover the extract. For the separation of proteins, the samples were denatured at 97.5°C for over 2 minutes and an SDS-PAGE at 12.5% was performed, after which the samples were transferred to a membrane of polyvinylidene fluoride (PVDF). The membrane was incubated in blocking buffer (TBS, 0.1% Tween-20 and 5% skimmed milk) for over 1 hour at room temperature with agitation. After, the membrane was incubated overnight at 4°C with agitation in TBS-Tween-20 solution at 0.1% v/v with primary antibodies against JMJD2A (1 : 2000) (Abcam, Cambridge, MA, USA, ab24545), BNP (1 : 500) (Abcam, Cambridge, MA, USA, ab19645), and ANP (1 : 500) (Abcam, Cambridge, MA, USA, ab76743). The membrane was then incubated for 1 hour at room temperature in TBS-Tween-20 solution at 0.1% v/v with the secondary antibody (1 : 3000) (Abcam, Cambridge, MA, USA, ab6721). Lastly, the membrane was treated with Luminata-HPR Substrate (EMD Millipore) for 5 minutes at room temperature and was visualized by chemiluminescence using MyECL (Thermo Scientific, MA, USA).
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