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65 protocols using anti gpx4

1

Comprehensive Ferroptosis Analysis Protocol

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MEM (Thermo Fisher Scientific, 11095-080), FCS (Gibco, 10437-028), Lysogeny broth (LB) (Sigma-Aldrich, L3152), RSL3 (Selleck Chemicals, S8155), erastin (Selleck Chemicals, S7242), ferrostatin-1 (Sigma-Aldrich, SML0583), Chloroquine (Sigma, C6628), NH4Cl (Sigma, A9434), MG132 (Selleck Chemicals, S2619), P3421 (Selleck Chemicals, S1013), 1400W (Cayman, 81520), L-NIL (Cayman, 80310), BSA (Sigma-Aldrich), DETA-NONOate and DPTA-NONOate (Caymen Chemical), NADPH (Sigma), Glutathione peroxidase (Sigma G6137), Cumene hydroperoxide (Sigma C0524), Thiol fluorescent probe IV (Millipore 595504), Glutathione reductase (Sigma), Glutathione reduced (Sigma G4251), 15-HpETE-PE (Caymen Chemical), Pierce BCA Protein Assay Kit (Thermo Fisher Scientific, 23225), anti- GPx4 (rabbit monoclonal, Abcam, ab125066), anti-Lamp2a (Abcam, ab18528), anti-iNOS (Abcam, ab3523), anti-actin (mouse monoclonal, Sigma-Aldrich, A3854, clone AC-15), secondary antibody, goat anti-rabbit (Sigma-Aldrich, A0545).
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2

Ferroptosis Induction and Detection

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atRAL, Fer-1 (catalog no. SML0583), DFO (catalog no. D9533), 4',6-diamidino-2-phenylindole (DAPI) and Hoechst 33342 were purchased from Sigma-Aldrich (Saint Louis, MO, USA). 2',7'-dichlorodihydrofluorescein diacetate (H2DCFDA) and BODIPY 581/591 C11 (C11-BODIPY) were obtained from ThermoFisher Scientific (Eugene, OR, USA). Mitotracker Red CMXRos and TRIeasy total RNA extraction reagent were obtained from Yeasen (Shanghai, China). Antibodies against COX2 (catalog no. 12282S), SLC7A11 (catalog no. 98051S), cleaved caspase-3 (catalog no. 9664S and 9661S), and GAPDH (catalog no. 5174S) were provided by Cell Signaling Technology (Danvers, MA, USA). Anti-GPX4 (catalog no. ab125066), anti-ACSL4 (catalog no. ab155282), and anti-acrolein (catalog no. ab48501) were purchased from Abcam (South Cambs, England, UK). Anti-γH2AX (catalog no. 05-636) was purchased from Millipore (Billerica, MA, USA). Anti-γH2AX (catalog no. NB100-384) was provided by Novus Biologicals (Littleton, CO, USA).
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3

Ferrostatin-1 Inhibits Ferroptosis in Doxorubicin-Treated Cells

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Doxorubicin hydrochloride and ferritin from equine spleen were purchased from Sigma Aldrich (Shanghai, China). Erastin and ferrostatin-1 were obtained from Selleck (Shanghai, China). Deferoxamine was obtained from Novartis (Shanghai, China), glutathione reduced form (GSH) was purchased from Tokyo Chemical Industry (Shanghai, China). Fe3+(FeCl3·6H2O) was obtained from Sinopharm Chemical Reagent Co., Ltd, Float-A-Lyzer G2 Dialysis Cassettes (MWCO 3.5 kDa) and Tube-O-DIALYZER™ Micro Dialysis System (MWCO 50 kDa) were purchased from Sangon Biotech (Shanghai, China). PD-10 desalting columns were obtained from GE Healthcare. C11-BODIPY was obtained from Thermo Fisher. The kits for Cell Counting Kit-8 (CCK-8), enhanced BCA protein assay, and reactive oxygen species assay, anti-actin, goat anti-rabbit IgG (H + L)-HRP conjugate and goat anti-mouse IgG (H + L)-HRP conjugate were purchased from Beyotime Institute of Biotechnology (Jiangsu, China). Anti-GPX4 was obtained from Abcam. Anti-GPX4 and anti-actin were used as primary antibodies. Goat anti-rabbit IgG (H + L)-HRP conjugate and goat anti-mouse IgG (H + L)-HRP were used as secondary antibodies. All obtained chemicals were used without further purification.
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4

Multimodal Analysis of Cell Death Pathways

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Recombinant purified TNFα, the annexin V-FITC antibody and the 7-AAD antibody were purchased from BioLegend (London, United Kingdom). Necrostatin-1s (Nec-1s) was obtained from BioVision, Inc. (Milpitas, CA, USA). The zVAD-fmk (herein referred to as zVAD) was purchased from Bachem (Weil, Germany). Erastin (era), GSK’872, Necrosulfonamide (NSA) and the anti-MLKL antibody (clone 3H1) were obtained from Calbiochem (Merck Millipore, Darmstadt, Germany). Synthesis of the ferrostatin derivative 16-86 and the ferroptosis inducer RSL3 were described previously [12 (link), 14 (link)]. Ferrostatin-1 (Fer-1) was purchased from Xcess Biosciences Inc. (San Diego, CA, USA). Dabrafenib was purchased from Selleckchem (Absource Diagnostics, Munich, Germany). GW806742X was purchased from Biomol (Hamburg, Germany). The monoclonal anti-ACSL4, anti-GPX4, the anti-human and anti-mouse monoclonal phospho-MLKL antibodies were all obtained from Abcam (Cambridge, United Kingdom). The β-actin antibody was purchased from Cell Signaling (Frankfurt, Germany).
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5

Western Blot Analysis of GPX4 Protein

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T24 and MB49 cells (106 per dish) subjected to the indicated treatments were harvested and lysed in lysis buffer (M-PERTM mammalian protein extraction reagent, Thermo Fisher Scientific Inc.) for 30 min on ice and then centrifuged at 14,000 rpm for 20 min at 4 ℃ to remove precipitates. The obtained proteins were adjusted to equal loads (20 µg per well). They were separated through electrophoresis on a 12% sodium dodecyl sulfate-polyacrylamide gel and subsequently transferred to a 0.45 μm polyvinylidene difluoride (PVDF) membrane, blocked using 5% skim milk, and immunoblotted using anti-GPX4 (cat no. #ab125066, 1:3000 dilutions, Abcam plc.) and GAPDH (cat no. #2118, 1:5000 dilutions, Cell Signaling Technology Inc.) monoclonal antibodies. The membranes were then washed using Tris-buffered saline supplemented with 0.1% Tween-20 and incubated again with horseradish peroxidase (HRP)-conjugated secondary antibody (cat no. #7074, 1:5000 dilutions, Cell Signaling Technology Inc.). The corresponding bands were detected using HRP substrate (Merck Millipore) and captured using an imaging system (UVP Bio-Spectrum; Analytik Jena US LLC, Upland, CA). The images were analyzed by ImageJ software (NIH, Bethesda, Maryland) for protein expression normalization and quantification.
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6

Western Blot Analysis of Protein Targets

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Cell extracts and tissue homogenates were lysed on ice with RIPA buffer (Sigma Aldrich, St. Louis, Missouri, USA), including DTT and protease inhibitors (Protease and Phosphatase Inhibitor Mini Tablets, Thermo Scientific, Waltham, MA, USA). Proteins, in the amount of 30–50 μg, were subjected to SDS PAGE on 4%–12% denaturing gel and probed with the following antibodies: anti‐ASIC1a (1:1000 Abcam, Cambridge, UK), anti‐GPx4 (1:1000, Abcam, Cambridge, UK), and anti‐GAPDH (1:1000, Sigma Aldrich) as a loading control. Horseradish peroxidase‐conjugated goat anti‐mouse or goat anti‐rabbit IgG (1:10,000, Applygen) was used as the secondary antibody, and the signal was visualized using Super ECL Plus substrate (P1050, Applygen). The indicated proteins were quantified with Image J software.
All of the uncropped blots of these western blot experiments were presented in the Data S1.
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7

Comprehensive Gene Expression Analysis

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For qRT-PCR, TRIzol reagent (Invitrogen, Carlsbad, CA, USA) was used to extract total RNA, and cDNA was synthesized using HiScript III RT SuperMix (Vazyme, Nanjing, China). qRT-PCR was performed using a HiScript II One Step qRT-PCR SYBR Green Kit (Vazyme). Primer sequences are listed in Supplementary Table S2. IB, IHC, and ELISA were performed using conventional protocols. Primary antibodies included: anti-METTL3 (Abcam, Cambridge, UK), anti-MEX3A (Sigma, St. Louis, MO, USA), anti-IGF2BP3 (Abcam), anti-HA (Abcam), anti-GPX4 (Abcam), anti-SLC3A2 (Abclonal, Wuhan, China), anti-acyl-CoA synthetase long chain family member 3 (ACSL3, Abclonal), anti-ferritin heavy chain 1 (FTH1, Abclonal), anti-insulin like growth factor 2 mRNA binding protein 1 (IGF2BP1, Abcam), anti-YTHDF2 (Abcam), and anti-glyceraldehyde-3-phosphate dehydrogenase (GAPDH, Cell Signaling Technology, Danvers, MA, USA). Tissue microarray assay (TMA) slides were obtained and measurement of IHC scores was performed as described in our previous study [26 ]. IGF2BP3, SLC3A2, and ACSL3 proteins were determined in tissues using ELISA kits (Yingxin Biotech, Shanghai, China) in accordance with the manufacturer's instructions.
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8

Western Blot Analysis of Oxidative Stress Markers

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Cells were lysed using lysis buffer (Promega Corp.) supplemented with a complete protease inhibitor cocktail (Roche Applied Science) and phenylmethylsulfonyl fluoride (Sigma-Aldrich Corp.). Tissues were further homogenized using 0.5 mm glass beads in a Bullet Blender high-throughput homogenizer (Next Advance, Inc.). After pelleting cellular debris by spinning at 16 000 rpm at 4°C for 15 min, protein was quantified by Bradford assay (66 ). For western blotting, 40–50 µg protein was added per lane of 4–12% Bis-Tris gels (Invitrogen Corp.). Primary antibodies were diluted in Odyssey blocking buffer (LI-COR Biosciences). Antibodies used included: anti-FXN (provided by Franco Taroni M.D., Istituto Besta), anti-HO1 (# sc-10789, Santa Cruz Biotechnology, Inc.), anti-NQO1 (#3187, Cell Signaling Technologies), anti-Gpx4 (#ab125066, AbCam), anti-nrf2 (sc-25820, Santa Cruz) and anti-actin (#A2668, Sigma). Direct conjugated secondary antibodies (anti-rabbit IRdye800Cw and anti-mouse IRdye680 from LI-COR) were used to detect and quantify the signal of primary antibodies and imaged using a LI-COR Odyssey.
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9

Homocysteine-Induced Ferroptosis Mechanism

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DL-homocysteine (Hcy, H4628) was purchased from Sigma–Aldrich (St. Louis, MO, USA). Rituximab (RTX, 10 mg/ml), a monoclonal anti-human CD20 antibody, was purchased from Roche (Basel, Switzerland). Ferrostatin-1 (Fer-1, S7243) and liproxstatin-1 (lip-1, S7699) were purchased from Selleckchem (Houston, TX, USA). The following antibodies were used in this work. Anti-β2GPI (bs-1570R) was purchased from Bioss Inc. (Beijing, China). Anti-CBS (cystathionine β-synthase, 14787-1-AP) and anti-CSE (cystathionine γ-lyase, 12217-1-AP) were purchased from Proteintech (Rosemont, IL, USA). Anti-CD31 (sc-18916), anti-nephrin (sc-377246) and anti-PDGFRβ (platelet-derived growth factor receptor beta, sc-374573) were purchased from Santa Cruz Biotech (CA, USA). Anti-4-HNE (4-hydroxynonenal, MAB3249) was purchased from R&D Systems (MN, USA). Anti-xCT (catalytic subunit of cystine/glutamate antiporter System Xc-, also called SLC7A11, ab37185), anti-LOX15 (Lipoxygenase 15, ab23691), anti-GPX4 (glutathione peroxidase 4, ab125066), and anti-TFR (transferrin receptor, ab214039) were purchased from Abcam (Cambridge, MA, USA). Anti-TF (transferrin, A1448), anti-SLC40A1 (A14884), anti-β-actin (AC038), HRP-conjugated goat anti-rabbit (AS014), and HRP-conjugated goat anti-mouse (AS003) were purchased from ABclonal (Wuhan, China).
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10

Comprehensive Immunoblotting Antibody Panel

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Anti-Gpx4 (Abcam, ab41787, 1:2000), Anti-xCT (Abcam, ab37185, 1:2000), Anti-Cas9 (Cell signaling, 14697, 1:1000,), Anti-ß-Actin (Sigma, A1978, 1:10,000), Anti-GCLC (Santa Cruz, sc-166345, 1:1000), Anti-Ascl1 (BD Pharmingen, 556604, 1:1000), Anti-Txnrd1 (Cell signaling, 15140S, 1:1000), Anti-Txnrd2 (Cell signaling, 12029, 1:1000), Anti-Acsl4 (Santa Cruz Biotechnology, sc-271800, 1:2000), Anti-Txn1 (Cell signaling, 2429S, 1:1000), Anti-GAPDH (Cell signaling, 97166S, 1:2000), Anti-FSP1 (previously described55 , kindly provided by M. Conrad, undiluted hybridoma supernatant), Anti-REST1 (ThermoFisher, BS-2590R, 1:1000), Anti-REST1 (Abcam, ab21635, 1:1000), Anti-TXNIP (Cell signaling, 14715S, 1:1000), Anti-CD71 (Santa Cruz, sc-65882, 1:2000), Anti-cMyc (Abcam, ab32072, 1:2000), Anti- NCAM (Invitrogen, PA5-79717, 1:1000), Anti-Vimentin (Abcam, ab137321, 1:1000), Anti-YAP1 (Cell signaling, #4912, 1:1000), Anti-Synatophysin (Invitrogen, MA5-14532, 1:1000), Anti-AGPAT2 (Thermo Fisher, PA5-76010, 1:2000), Anti-AGPAT3 (Thermo Fisher, PA5-101343, 1:2000). HRP-conjugated secondary antibodies: goat-anti-mouse-HRP (Linaris GmBH, 20400-1 mg, 1:10,000), goat-anti-rabbit-HRP (Linaris GmBH, 20402-1 mg, 1:10,000), goat-anti-rat-HRP (Sigma, A9037-1 ml, 1:10,000).
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