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47 protocols using slc7a11

1

Quantifying Protein Expression Levels by Western Blot

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Twenty-five µg of protein extract was separated by SDS-PAGE (8% gels) and transferred to nitrocellulose membranes (GE Healthcare, Freiburg, Germany) by semidry electroblotting. The primary antibodies used were against SLC7A11 (rabbit mAb, clone D2M7A, 1:1000, Cell Signaling, Frankfurt, Germany), HIST1H3B (rabbit pAb, PA5-111876, 1:1000, Thermo Fisher Scientific), HK2 (rabbit mAb, clone C64G5, 1:1000, Cell Signaling), PPARGC1A (mouse mAb, clone 1C1B2, 1:3000, Proteintech, Manchester, UK), ALDH6A1 (rabbit pAb, 20452-1-AP, 1:6000, Proteintech), MARC2 (rabbit pAb, 24782-1-AP, 1:1000, Proteintech), SLC47A1 (rabbit mAb, clone D4C62, 1:500, Cell Signaling), and GAPDH (rabbit mAb, clone 14C10, 1:10,000, Cell Signaling). Secondary horseradish peroxidase-conjugated antibodies against rabbit or mouse were purchased from Jackson ImmunoResearch (Suffolk, UK) and used at a concentration of 1:5000. Protein bands were detected by enhanced chemiluminescence in an LAS-4000 chemiluminescence detection system (GE Healthcare, Munich, Germany).
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2

Western Blot Analysis of Oxidative Stress

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Western blotting and the analysis of the blot results was conducted as previously reported27 (link). In brief, cells were lysed and centrifuged at 12,000 g for 10 minutes at 4 °C. The supernatants were denatured at 100 °C for 5 minutes and mixed with a 1/5 volume (corresponding to the volume of the supernatants) of loading buffer (Beyotime, China). Then, 30-µg protein samples were loaded into each well in a 10% SDS-polyacrylamide gel and were subjected to electrophoresis. Once the proteins of diverse molecular weights were sufficiently separated, the proteins were transferred to PVDF membranes (Millipore, USA). Next, the PVDF membranes with the transferred proteins were blocked with 5% nonfat milk diluted in TBST for 2 hours at 25 °C and were then incubated with primary antibodies, such as SLC7A11, SLC3A2, GPX4, GSS, GCLC, ACSL4 (Cell Signaling Technology, USA) and β-actin (Beyotime, Shanghai, China), with dilutions of 1:1500, 1:2000, 1:2000, 1:2500, 1:3000 and 1:10,000, respectively, at 4 °C for 12 hours. Next, the membrane was washed again with TBST and was incubated with a 1:10,000 dilution of horseradish peroxidase (HRP)-labelled anti-rabbit IgG (Beyotime, Shanghai, China) for 1 hour at 25 °C. Finally, the respective protein bands were visualized using enhanced chemiluminescence reagents (BOSTER, Wuhan, China).
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3

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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4

Western Blot Analysis of SLC7A11, GPX4, and TIM23

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The cell samples were harvested using RAPI buffer containing PMSF (11359061001, Sigma) and Protease Inhibitor Cocktails (P8849, Sigma), and were subjected to western blot assay as our previous description49 (link),50 (link). Herein, the antibody against SLC7A11 (1:1000, 12691 S) was purchased from Cell Signaling Technology, and the antibodies against GPX4 (1:1000, sc-166570) and TIM23 (1:1000, sc-514463) and GAPDH (1:3000, sc-32233) were purchased from Santa Cruz Biotechnology. Finally, the intensity of each signal was calculated using a Quantity One Image Program (Bio-Rad).
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5

Antibody and Drug Validation Protocol

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The following primary antibodies were used: SPINK2 (#HPA026813, Atlas Antibodies, Stockholm, Sweden), SLC7A11 (#12691S, Cell Signaling Technology, Danvers, MA, USA), ALCAM (#ab109215, Abcam, Boston, WA, USA), β-Actin (#ab8266, Abcam) and GAPDH (#ab9485, Abcam).
The following drugs were used: Dimethyl sulfoxide (DMSO, #D4540, Sigma-Aldrich, Burlington, MA, USA), Nutlin-3a (#S8059, Selleckchem, Houston, TX, USA), erastin (#5499, Tocris, Bristol, UK), Puromycin (#A1113802, ThermoFisher, Waltham, MA, USA) and C26H19NO4 (#OSSK_987997, Princeton Biomolecular Research, Monmouth Junction, NJ, USA). The drugs were used at the concentrations indicated in the main text.
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6

Western Blot Analysis of Signaling Pathways

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FLS were lysed on ice using a RIPA lysis kit (ATTO, Co., Tokyo, Japan; containing protease and phosphatase inhibitors). Lysates were clarified by centrifugation, and samples were analyzed by sodium dodecyl sulfate–polyacrylamide gel electrophoresis (SDS-PAGE). Proteins were transferred onto polyvinylidene fluoride (PVDF) membranes (Bio-Rad Laboratories), which were then incubated with antibodies against phospho-LKB1 (Ser428), LKB1, p-NF-κB p65 (Ser536), NF-κB p65, phospho-p38 MAPK (Thr180/Tyr182), p38-MAPK, phospho-AMPK (Thr172), AMPK, SLC7A11, GAPDH (all obtained from Cell Signaling Technology, Danvers, MA, USA), or NOX4 (Abcam, Cambridge, UK) overnight at 4 °C. After washing with PBS-Tween 20, membranes were stained with peroxidase-conjugated goat anti-rabbit IgG (AbFrontier Co., Seoul, Republic of Korea). Target proteins were detected using a chemiluminescent HRP Substrate (Thermo Fisher Scientific).
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7

Western Blot Analysis of Protein Targets

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Cell lines or tumor tissues were harvested and lysed in RIPA buffer (1% NP 40, 0.5% sodium deoxycholate, 0.1% SDS, 10 ng/ml PMSF, 0.03% aprotinin, and 1 μM sodium orthovanadate) on ice for 30 min. After centrifugation for 15 min at 14,000 rpm, the supernatants were collected, and the protein concentration was quantified by using Bradford assay. The proteins were separated on 12% SDS-PAGE gels and transferred to polyvinylidene difluoride membranes. The membranes were blocked with 5% skim milk and incubated with primary antibodies, such as MLX (12042-1-AP, Proteintech), β-actin (81115-1-RR, Proteintech), TRC/CD71 (66180-1-Ig, Proteintech), SLC40A1/FPN1 (26601-1-AP, Proteintech), Transferrin (66171-1-Ig, Proteintech), FTH1 (3998S, Cell Signaling Technology), cleaved Capase-3 (9661S, Cell Signaling Technology), SLC7A11(12691S, Cell Signaling Technology), Tubulin (ab176560, Abcam) and 4-Hydroxynonenal (ab46545, Abcam), Caspase-3 (ab184787, Abcam), and corresponding horseradish peroxidase-conjugated secondary antibodies were used against each primary antibody. Proteins were detected and filmed by using chemiluminescent detection reagents.
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8

Immunoprecipitation and Western Blot Analysis

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Immunoprecipitation was conducted as previously described 62 (link), 63 (link). Protein extracts were resolved by SDS-PAGE and transferred to a nitrocellulose membrane (Bio-Rad) using standard techniques. The primary antibodies and concentrations used for Western blotting were: BAP1 (1:1000; Santa Cruz, sc-28383), SLC7A11 (1:5000; Cell Signaling Technology, 12691), tubulin (1:5000; Cell Signaling Technology, 2144), H2Aub (1:5000; Millipore, 05–678), H2A (1:5000; Millipore, ABE327), vinculin (1:10000; Sigma, V4505), FOXK1 (1:1000; Abcam, ab18196 ), FOXK2 (1:1000; Bethyl Laboratories, A301–730A), HCFC1 (1:1000; Bethyl Laboratories, A301–399A), OGT (1:1000, Cell Signaling Technology, 5368), KDM1B (1:1000; Abcam, ab193080), ASXL1 (1:1000; Santa Cruz, sc-293204), p53 (1:1000; Santa Cruz, sc-126), PARP (1:1000; Cell Signaling Technology, 9542), β-actin (1:4000; Abcam, ab8226), and V5 (1:2000; Sigma, A8012).
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9

Quantification of Metabolic Enzymes via Western Blot

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Western blotting was conducted as previously described 49 , 50 (link). Tumor tissues were powdered in a liquid nitrogen-cooled mortar and pestle and then lysed in 10 volumes of NP40 buffer as previously described 51 (link)–53 (link). The primary antibodies and concentrations used for Western blotting were following: G6PD (1:1,000, Cell Signaling Technology, #12263S), Vinculin (1:5,000, Sigma, #V4505), Myc tag antibody(1:2,000, Cell Signaling Technology, #2276S), TKT (1:1,000, Cell Signaling Technology, #8616S), PGD (1:1,000, Cell Signaling Technology, #13389S), SLC7A11 (1:2,000, Cell Signaling Technology, #12691S), GLUT1 (1:1,000, Thermo fisher, #PA5–16793), GLUT3 (1:1,000, santa cruz, #sc-74497), NRF2 (1:1,000, Cell Signaling Technology, # 12721S).
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10

Multimodal Characterization of Embryonic Development

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Frozen human cancer tissues or fixed mouse deciduas from timed breeding were cut at 5 μm and immunostaining was performed according to standard procedures using antibodies against human SLC7A11 (no. 12691, Cell Signaling Technology), mouse p53 (CM5, Leica), BrdU (Ab6326, Abcam), Mki67 (Ab15580, Abcam) and cleaved caspase3 (9664, Cell Signaling). TUNEL assay was carried out using DeadEnd TUNEL system according to the manufacturer's instructions (Promega). Intraperitoneal injection of BrdU (BD Pharmagen) was given to pregnant mice at day E7.5 at 100 μg BrdU per g body weight. After 2 h, the embryos were collected and fixed in 10% formalin at 4 °C overnight. The embryos were embedded in paraffin and serial sections were collected for BrdU staining. Transmission electron microscopy was performed using standard procedures by the Microscopy Core at NYU. At least 20 images were acquired for each structure of interest and representative images are shown.
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