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7 protocols using anti a20

1

RIPK1-Mediated Necroptosis Signaling

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Stimulated T cells were incubated in lysis buffer. For signaling complex analyses, cell lysates were pre-cleared with Protein G beads prior to immunoprecipitation with anti-RIPK1 antibody. Antibodies and reagents used for immunoprecipitation and immunoblotting studies included: anti-RIPK1, anti-Bim, anti-Bclx, (BD Biosciences), nec1, anti-Bcl2, β-actin (Merck chemicals), anti-RIPK3 (ProSci Incorporated), anti-ubiquitin, anti-Bax, anti-RIPK3 (Santa Cruz Biotechnology), anti-RIPK1, anti-A20 (Cell signaling Technology), QVD, ZVAD (Enzo Life Science).
Signaling studies in MEFs were performed as described19 (link). RIPK1 immunoprecipitations were performed using anti-RIPK1 (Cell Signaling) and Dynabeads M270 Epoxy (Invitrogen). K63-ubiquitin immunoprecipitations were performed using anti-K63 (Millipore) and Dynabead Protein A (Invitrogen). Studies of RIPK3 mutants in A20−/−Ripk3−/− MEFs were performed by generating RIPK3 lysine mutants, introducing mutant RIPK3-encoding cDNAs into GFP expressing lentiviral constructs, and infecting A20−/−Ripk3−/− MEFs with these viruses. Productively infected cells were FACS-sorted to obtain pure populations of RIPK3-expressing cells prior to being tested in necroptosis assays. Cell survival of MEFs was quantitated using the CellTiter-Glo Luminescent Cell Viability Assay per manufacturer’s instructions (Promega).
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2

Ubiquitin-mediated protein regulation assay

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Spautin-1 (S7888), Imatinib (S1026), and MG132 (S2619) were from Sellectchem (Houston, TX, USA). SKP2-C25 (M60136) was from Xcessbio Biosciences, Inc. (San Diego, CA). MTS reagent (G3582) was from Promega Corporation (Madison, WI, USA). Co-IP assay kit (14311D) was from Life Technologies (Carlsbad, CA). Antibodies: anti-Ubiquitin (#3936), anti-K63-Ubiquitin (#12930), anti-K48-Ubiquitin (#12805), anti-USP10 (#8501), anti-USP1 (#8033), anti-USP2 (#8036), anti-USP7 (#4833), anti-USP8 (#11832), anti-USP14 (#11931), anti-USP15 (#66310), anti-USP18 (#4813), anti-UCHL1 (#13179), anti-UCHL3 (#8141), anti-CYLD (#8462), anti-A20 (#5630), anti-SKP2 (#2652), anti-p27 (#3686), anti-FLAG (#14793), anti-HA (#3724), anti-phospho-c-Abl(Y245) (#2861), anti-c-Abl (#2862), anti-phospho-STAT5 (#9359), anti-STAT5 (#25656), anti-phospho-Crkl (#3181) and anti-Crkl (#38710) (Cell Signaling Technology, Beverly, MA, USA); anti-UCHL5 (ab124931), anti-USP13 (ab109264) (Abcam, Cambridge, MA); anti-GAPDH (BS60630) (Bioworld Technology, Inc., Louis Park, MN, USA).
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3

Evaluating CD40-mediated Activation in U2OS and iDCs

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To evaluate CD40-mediated activation we analyzed p100 processing and TRAF1 induction in U2OS cells and iDCs by western blotting. For western blot, coculture experiments were performed in six well plates (106 +106 cells per well). For stimulation of iDCs 0.8 × 106 cells per well were seeded also in 6-well plates and stimulated overnight. Cells were collected in ice-cold PBS by scraping with a rubber policeman. Cells were then washed twice with fresh ice-cold PBS, pelleted (5 min, 4°C, 4630 g) and resuspended in Laemmli buffer. Samples were sonicated for 25 seconds at 100% amplitude with a sonication probe (UP100H Ultrasonic Processor, Helscher, Germany), heated at 95°C for 5 min and subjected to SDS-PAGE separation. After transfer of proteins to a nitrocellulose membrane western blot analysis was performed with an anti-p100/p52 (#05–361, Millipore), anti-TRAF1 (#4715), anti-A20 (#5630, both Cell Signaling Technology Beverly, MA, USA), anti-β-actin (#A1978–200), anti-Flag (M2) (#F-3165, both Sigma Aldrich) and horseradish peroxidase (HRP)-conjugated polyclonal rabbit anti-mouse antibody (#P0260, Dako, Glostrup, Denmark) or HRP-coupled anti-rabbit antibody (#7074, Cell Signaling Technology Beverly, MA, USA). Finally, membranes were developed by chemiluminescence western blot detection using ECL solution.
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4

Protein Extraction and Western Blot Protocol

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Cells were centrifuged at 1200 rpm at 4 °C for 10 min to collect cells. Cell pellets were lysed with radioimmunoprecipitation assay (RIPA) buffer (Santa Cruz, Dallas, TX, USA) containing a proteinase inhibitor cocktail (Thermo Fisher Scientific) and incubated for 10 min on ice. The lysed cell pellet was centrifuged at 12,500 rpm at 4 °C for 10 min to isolate the proteins. The concentration of isolated proteins was measured using the bicinchoninic acid protein (BCA) assay. Proteins were then separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and transferred to polyvinylidenedifluoride membrane with a 0.2 μm pore size (Bio-Rad, Hercules, CA, USA). The target proteins were detected and analyzed by immunoblotting using the primary antibodies diluted in 0.1% PBS-Tween buffer containing 1% bovine serum albumin and 0.02% sodium azide. These primary antibodies included anti-A20 (1:1000) (Cell Signaling, Danvers, MA, USA) and anti-GAPDH (1:2000) (Enzo Life Science, Farmingdale, NY, USA).
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5

RIPK1-Mediated Necroptosis Signaling

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Stimulated T cells were incubated in lysis buffer. For signaling complex analyses, cell lysates were pre-cleared with Protein G beads prior to immunoprecipitation with anti-RIPK1 antibody. Antibodies and reagents used for immunoprecipitation and immunoblotting studies included: anti-RIPK1, anti-Bim, anti-Bclx, (BD Biosciences), nec1, anti-Bcl2, β-actin (Merck chemicals), anti-RIPK3 (ProSci Incorporated), anti-ubiquitin, anti-Bax, anti-RIPK3 (Santa Cruz Biotechnology), anti-RIPK1, anti-A20 (Cell signaling Technology), QVD, ZVAD (Enzo Life Science).
Signaling studies in MEFs were performed as described19 (link). RIPK1 immunoprecipitations were performed using anti-RIPK1 (Cell Signaling) and Dynabeads M270 Epoxy (Invitrogen). K63-ubiquitin immunoprecipitations were performed using anti-K63 (Millipore) and Dynabead Protein A (Invitrogen). Studies of RIPK3 mutants in A20−/−Ripk3−/− MEFs were performed by generating RIPK3 lysine mutants, introducing mutant RIPK3-encoding cDNAs into GFP expressing lentiviral constructs, and infecting A20−/−Ripk3−/− MEFs with these viruses. Productively infected cells were FACS-sorted to obtain pure populations of RIPK3-expressing cells prior to being tested in necroptosis assays. Cell survival of MEFs was quantitated using the CellTiter-Glo Luminescent Cell Viability Assay per manufacturer’s instructions (Promega).
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6

THP-1 Cells Immunoblotting Protocol

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THP-1 cells stimulated with LPS and/or MSF were harvested and lysed with 2× Laemmli buffer. Denatured proteins were separated by 12% SDS-PAGE in a Tris/glycine/SDS buffer (25 mM Tris, 250 mM glycine, 0.1% SDS) and transferred onto PVDF membranes (EMD Millipore, Burlington, MA, USA). Membranes were blocked with TBST (20 mM Tris-HCl, 150 mM NaCl, 0.1% Tween 20) containing 5% BSA and treated with primary antibodies such as anti-phospho-NFκB p65 (#3033), anti-phospho-SAPK/JNK (#9251), anti-phospho-p38 (#9211), anti-phospho-p44/42 (#9101), anti-A20 (#5630) (Cell Signaling Technology, Danvers, MA, USA), anti-SOCS1 (sc-518028), and anti-β-actin HRP (sc-47778) (Santa Cruz Biotechnology, Santa Cruz, CA, USA) for 2 h at RT. After washing the membrane with TBST, HRP-conjugated anti-mouse (#31430, Invitrogen, Carlsbad, CA, USA) or anti-rabbit (sc-2357, Santa Cruz Biotechnology) secondary antibodies were incubated with membranes for 2 h at RT. After washing the membranes four times in TBST, protein bands were detected using ECL reagents (Thermo Fisher Scientific, Waltham, MA, USA) and exposed to X-ray film.
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7

Immunoblotting of Apoptosis Regulators

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After stimulating THP-1 cells with aLTA for an appropriate time, protein samples were prepared using 2X reducing buffer. Proteins were separated using a 12% SDS-PAGE system (25 mM Tris, 250 mM glycine, 0.1% SDS) and transferred to a polyvinylidene fluoride (PVDF) membrane for overnight. The membrane was blocked with TBS-T buffer (20 mM Tris-HCl, 150 mM NaCl, 0.05% Tween-20, 5% skim milk) for 1 h at room temperature (RT). The primary antibodies and HRP-conjugated secondary antibodies diluted in TBS-T buffer were sequentially treated on the membrane, and the target protein was visualized using the enhanced chemiluminescence (ECL) reagents (GE Healthcare, UK) and X-ray film. Anti-Caspase-1, anti-Caspase-3, anti-Caspase-7, anti-Cytochrome C, anti-Bcl2, anti-A20, anti-Abin1, anti-SOCS-1 (Cell Signaling Technology, USA), and anti-β-actin (Santa Cruz Biotechnology, USA) antibodies were used in this study.
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