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8 protocols using ripa assay

1

Molecular Assays for Cancer Research

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Cisplatin (cDDP), penicillin were from Sigma-Aldrich (USA). Antibodies against APE1, COX-2 and Histone 1 were from Santa Cruz Biotechnology (USA). Antibodies against β-tubulin, P-Akt, and Akt were from Abcam (USA). The CCK-8 assay, RIPA assay, Transwell® chambers and crystal violet were from Beyotime Corporation (China).
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2

Evaluating Combination Therapy Potential

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Olaparib (PARP1 inhibitor, AZD2281), Rapa and CQ were from Sigma-Aldrich (St Louis, MO, USA). Icotinib (Ico) was provided by Betta Pharmaceutical Co., Ltd. (Hangzhou, China). Both Gef and Ico are first-line choice of EGFR sensitivity mutation and have similar clinical efficacy in NSCLC, however, compared with Gef, Ico has lower IC50 value, shorter half-life and lower adverse drug reactions. Antibodies against p62 and PARP1 were from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Antibodies against mTOR, LC3, LC3II, β-tubulin and β-actin were from Abcam (Cambridge, MA, USA). CCK-8 assay, crystal violet, loading buffer, and RIPA assay were from Beyotime Institute of Biotechnology (Haimen, China).
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3

Western Blot Analysis of NLRP3, Caspase-1, and SGK1

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Colon tissue samples or cell samples or supernatant samples were split in ice using RIPA assay (Beyotime). Total proteins were quantified using BCA assay (Beyotime) and were electrophoresed on 10% SDS-acrylamide gels. Western blotting was performed as previously described [24 (link)], using the following antibodies: NLRP3 (sc-66846, 1:500, Santa Cruz, USA); caspase-1 (c-1780, 1:500, Santa Cruz, USA); SGK1 (1:1000, Abcam) and β-actin (BS6007MH, 1:5000, Bioworld Technology, Inc.)
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4

Molecular Mechanisms of PARP1 Inhibition

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Dulbecco's modified Eagle's medium (DMEM) and fetal bovine serum (FBS) were from Invitrogen (Carlsbad, CA, USA). Olaparib (PARP1 inhibitor AZD2281), rapamycin (Rapa), hydroxychloroquine (CQ), penicillin, streptomycin and dimethyl sulfoxide (DMSO) were from Sigma‐Aldrich (St Louis, MO, USA). Antibodies against BDH1, p62 and PARP1 were from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Antibodies against BDH1, mTOR, LC3, LC3II, β‐tubulin and β‐actin were from Abcam (Cambridge, MA, USA). COMET Assay kit (R&D Systems; Trevigen), CCK‐8 assay, crystal violet, loading buffer and RIPA assay were from Beyotime Institute of Biotechnology (Haimen, China).
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5

Colon Tissue IL-22 and IL-22BP Analysis

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Colon tissue samples were acquired and lyzed using RIPA assay (Beyotime Institute of Biotechnology, Haimen, China). Protein was quantified using a BCA kit (Beyotime Institute of Biotechnology). A total of 10 µg protein was used per sample to measure the levels of IL-22 (cat. no EH027-96; ExCell Bio, Shanghai, China) and IL-22BP (cat. no. EK2506; Nanjing Senberga Biotechnology Co., Ltd., Nanjing, China) using ELISA kits.
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6

Western Blot Analysis of Inflammatory Markers

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Colon tissue samples or cell samples or supernatant samples were split using RIPA assay (Beyotime) in ice. Total proteins were quantified using BCA assay (Beyotime) and were electrophoresed on 10% SDS-acrylamide gels. Total proteins were transferred to nitrocellulose membranes and membranes were blocked with 5% non-fat milk in TBS for 1 h at 37° C. Membranes were incubated with p-AMPK (ab23875, abcam), AMPK (ab32047, abcam), Nrf2 (ab62352, 1:1000, abcam), GSDMD (ab219800, 1:1000, abcam), NLRP3 (sc-66846, 1:500, Santa Cruz, USA), caspase-1 (sc-1780, 1:500, Santa Cruz, USA), and β-Actin (BS6007MH, 1:5000, Bioworld Technology, Inc.) at 4° C overnight. The membranes were incubated with horseradish peroxidase-conjugated secondary antibodies (sc-2004 or sc-2005, 1:5000, Santa Cruz, USA) for 1 h at 37° C after washing with TBST for 15 min. Protein was measured using an enhanced chemiluminescence system (ECL, Beyotime) and analyzed using an Image Lab 3.0 (Bio-Rad Laboratories, Inc.).
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7

Western Blot Analysis of Oxidative Stress Markers

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Tissue samples or cell samples or supernatant samples were splitted using RIPA assay (Beyotime) in ice. Total proteins were quantified using BCA assay (Beyotime) and were electrophoresed on 10% SDS-acrylamide gels. Total proteins were transferred to nitrocellulose membranes, and membranes were blocked with 5% nonfat milk in TBS for 1 h at 37°C. Membranes were incubated with AdipoR1 (ab50675, 1 : 2000, abcam), AMPK (ab32047, 1 : 2000, abcam), p-AMPK (ab133448, 1 : 1000, abcam), TXNIP (ab188865, 1 : 2000, abcam), NRF2 (ab62352, 1 : 2000, abcam), HO-1 (ab52947, 1 : 2000, abcam), sOD2 (ab68155, 1 : 2000, abcam), GPX4 (ab41787, 1 : 2000, abcam), GSDMD (ab209845, 1 : 2000, abcam), NLRP3 (sc-66846, 1 : 500, Santa Cruz, USA), caspase-1 (sc-1780, 1 : 500, Santa Cruz, USA), IL-1β (sc-12742, 1 : 500, Santa Cruz, USA), and β-actin (BS6007MH, 1 : 5000, Bioworld Technology, Inc.) at 4°C overnight. The membranes were incubated with horseradish peroxidase-conjugated secondary antibodies (sc-2004 or sc-2005, 1 : 5000, Santa Cruz, USA) for 1 h at 37°C after washing with TBST for 15 min. Protein was measured using an enhanced chemiluminescence system (ECL, Beyotime) and analyzed using an Image Lab 3.0 (Bio-Rad Laboratories, Inc.).
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8

Western Blot Analysis of Oxidative Stress Markers

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Brain samples were transferred into ice-cold RIPA assay (Beyotime Institute of Biotechnology; Shanghai, China) containing a cocktail of protein phosphatase and proteinase inhibitors. Samples were collected at 15,000 × g at 4°C for 10 min. The supernatant was assayed using a Bio-Rad Bradford Protein Assay kit (Bio-Rad Laboratories, Inc., Hercules, CA, USA). Protein (50 µg) was separated using 8–10% SDS-PAGE and blots were blocked in buffer solution containing 5% milk and 0.1% Tween-20 in PBS, following transfer onto polyvinylidene fluoride membranes. Membranes was then blotted for 2 h at room temperature with antibodies targeting inducible nitric oxide synthase (iNOS; 1:4,000; Sigma-Aldrich; Merck KGaA), Nrf2 (1:4,000; Sigma-Aldrich; Merck KGaA), HO-1 (1:4,000; Sigma-Aldrich; Merck KGaA) or β-actin (1:4,000; Sigma-Aldrich; Merck KGaA) at 4°C overnight. Membranes were washed with TBST for 15 min and incubated with goat anti-rabbit HRP secondary antibody (1:3,000; HA-1001-100; Hangzhou Hua'An Biotechnology Co., Ltd., Hangzhou, China) for 1 h at 37°C. Protein expression was detected using an enhanced chemiluminescence kit (Beyotime Institute of Biotechnology, Shanghai, China) and quantified using Bio-Rad Image Lab 3.0 (Bio-Rad).
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