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8 protocols using pan actin

1

Western Blot Analysis of RIPK3 in Cerebella

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Cerebella were lysed in RIPA buffer (50 mM Tris–HCl pH 7.4, 150 mM NaCl, 5 mM EDTA, 1% Triton X‐100, 1% sodium deoxycholate, 0.1% SDS) supplemented with protease cocktail inhibitor (Sigma). Fifty micrograms of proteins were loaded on a 10% sodium dodecyl sulfate–polyacrylamide gel electrophoresis. Proteins were then transferred to Polyvinylidene fluoride membranes (GE Healthcare, Life science). The following primary antibodies were diluted in 5% milk in TBS containing 0.1% Tween‐20: RIPK3 (Cell Signaling, 15828S; 1:1,000), Pan‐Actin (Millipore, MAB1501R, 1:4,000).
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2

Anticancer Agent Evaluation Protocol

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Antibodies were obtained from the following commercial sources: PARP, caspase-3, caspase-8, caspase-9, phospho-Erk, and Erk (Cell Signaling Technology); p-c-Met, c-Met, and FGFR3 (Santa Cruz Biotechnology); pan-actin (Millipore); phospho-stat3-Ser727 and Stat3 (BD Biosciences). propidium iodide, MTT, z-VAD–FMK, PD98059, PD173074, and all of the other chemical reagents were obtained from Sigma. RPMI-1640 medium, Dulbecco's Modified Eagle Medium (DMEM), FBS, penicillin, streptomycin, and all other tissue culture regents were obtained from GIBCO/BRL Life Technologies. Sorafenib (purity ≥ 99%) was purchased from Biovision. Tivantinib (ARQ 197) was purchased from ChemieTek. For in vitro administration, Sorafenib, tivantinib or DE605 (structure and scheme of DE605 synthesis shown in supplemental Fig. S1) were dissolved in DMSO (Sigma) to a concentration of 10 mM and further diluted to appropriate final concentration in RPMI 1640 with 10% fetal bovine serum. DMSO in the final solution did not exceed 0.1% (v/v). For in vivo testing, Sorafenib or DE605 were dissolved in Cremophor EL/ethanol (50:50; Sigma Cremophor EL, 95% ethanol) at 4 × concentration. This 4 × solution was prepared fresh every 4 days. Final dosing concentration was prepared by diluting the 4 × solution to 1× with sterile water. The 1× solution was prepared just before it was given to the mice.
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3

Immunofluorescence Analysis of Endocytic Regulators

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Fibronectin, monastrol and MG132 were purchased from Sigma. Transferrin conjugated to AlexaFluor 568, Phalloidin-568, DAPI, as well as all secondary antibodies used for immunofluorescence were purchased from Molecular Probes. The following primary antibodies were used: EHD1(54 (link)), MICAL-L1 (Novus Biologicals), affinity-purified rabbit polyclonal peptide antibody directed against the C-terminus of EHD2 (VERGPDEAMEDGEEGSDDEA) (AnaSpec), α-tubulin (Molecular Probes), anti-human anticentromere (ACA; Antibodies Inc.), pericentrin, giantin, MKLP1 and PLK1 (Abcam), Pan-actin (Millipore), Rab11 (US Biologicals), Rab35 (Protein Tech), Aurora B (Abnova; generous gift from Dr. Jixin Dong) and EEA1 (Cell Signaling Technologies).
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4

Western Blot Analysis of Muscle Markers

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Samples were lysed in ice-cold radioimmunoprecipitation assay buffer with a protease inhibitor cocktail and a phosphatase inhibitor cocktail (Sigma-Aldrich, St. Louis, MO, USA). A bicinchoninic acid assay kit (Pierce Biotechnology, Waltham, MA, USA) was used to determine the concentrations of proteins. Sodium dodecyl sulfate-polyacrylamide gel electrophoresis was performed to separate the protein samples (30 μg), and the samples were then transferred to a polyvinylidene difluoride membrane (Millipore, Billerica, MA, USA). Subsequently, the membrane was blocked at room temperature for one hour in Tris-buffered saline with Tween 20 (TBS-T), containing 10% skim milk, and probed with primary antibodies (1:1000 dilutions), including calsarcin-2, myogenin (MYOG), myoblast determination protein 1 (MYOD) (Abcam, Cambridge, UK), and pan-actin (Millipore) at 4 °C overnight. The blots were then washed with TBS-T and incubated with horseradish peroxidase-conjugated secondary antibodies (1:5000 dilution) at room temperature for one hour. The protein bands were visualized with Immobilon™ (Millipore). Actin was used as an internal control. The relative signal intensity was determined using ImageJ software.
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5

Western Blotting of Cell Signaling Proteins

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Total cell lysates were isolated with radioimmunoprecipitation assay buffer (Sigma-Aldrich) supplemented with protease and phosphatase inhibitor cocktail (Sigma-Aldrich). Nuclear lysates were prepared using NE-PER Nuclear and Cytoplasmic Extraction Reagents (Thermo Scientific). Protein concentrations were quantified by the Bradford assay with Bio-Rad protein assay dye. Absorbances were measured with the Victor3 spectrophotometer at 590 nM (PerkinElmer). Then 20 μg/sample was separated in 4% to 20% PROTEAN TGX gels (Bio-Rad Laboratories) and semidry transferred onto polyvinylidene difluoride membranes. Membranes were probed for total GSK-3β and p-GSK-3β-Ser9 (9832 and 9336, 1:1000; Cell Signaling Technology), β-catenin (610154, 1:1000; BD Transduction Laboratories), p-β-catenin-Ser33/37/Thr41 (9561, 1:1000; Cell Signaling Technology), pan-actin (1:20 000; Millipore), c-Jun and p-c-Jun-Ser243 (9165 and 2994, 1:1000; Cell Signaling Technology), Pit-1 (sc442, 1:200; Santa Cruz Biotechnology), and lamin A/C (sc7293, 1:500; Santa Cruz Biotechnology).
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6

Western Blot Analysis of Protein Expression

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Treated BMDM cells were lysed with RIPA buffer (supplied with cOmplete Protease Inhibitor Cocktail, Merck#11697498001), and protein concentration was determined by Bradford assay. Same protein amounts were loaded onto 4–12% NuPAGE Gels and protein was transferred to PVDF membranes by using Trans-Blot® Turbo Transfer System (Biorad#17001917). Membrane was blocked with 5% milk-TBS, and then incubated with primary antibodies overnight at 4°C. Signal was developed with HRP-conjugated secondary antibodies and Amersham ECL Western Blotting Detection Reagent (Cytiva#RPN2106). Antibody information: mouse Caspase-1 (p20) (AdipoGen#AG-20B-0042-C100), mHDAC6 (homemade), human HDAC6 (CellSignaling#7558), α-tubulin (Sigma-Aldrich #T9026), HA (CellSignaling#3724), pan Actin (Sigma-Aldrich#SAB4502632).
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7

Western Blot Protein Quantification

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For western blotting, 20 μg protein sample was loaded into each lane of a 4 to 12% Bis-Tris polyacrylamide gel followed by a transfer to a polyvinylidene difluoride membrane. Total protein on the membrane was measured a No-Stain Protein Labeling Reagent (Invitrogen) and quantified using ImageJ. Membranes then were blocked using 5% milk in tris-buffered saline (TBS) for 1 h and followed with incubation overnight with following primary antibodies in 5% bovine serum albumin [Puromycin 1:2,000 (Millipore), eEF1A 1:1,000 (clone CBP-KK1 Millipore) GAPDH 1:1,000 (Cell Signaling Technologies), eEF1A2 1:1,000 (Abcam) Pan-Actin 1:1,000 (Sigma), GAPDH 1:1,000 (Cell Signaling Technologies), eEF1B2 1:1,000 (Proteintech), eEF1D 1:1,000 (Abnova), and eEF1G 1:1,000, (Santa Cruz Biotechnology)]. Membranes then were washed three times for 5 min each with TBS 0.2% Tween and followed by incubation with horseradish peroxidase-conjugated secondary antibodies in 5% dry milk for 1 h. Immunoreactive bands were detected using chemiluminescence (Cytiva) using the ProteinSimple imaging system (Bio-Techne). Band intensities were quantified using ImageJ.
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8

Western Blot Analysis of Caspase-1 and HDAC6

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Treated BMDM cells were lysed with RIPA buffer (supplied with cOmplete Protease Inhibitor Cocktail, Merck#11697498001), and protein concentration was determined by Bradford assay. The same protein amounts were loaded onto 4 to 12% NuPAGE Gels and protein was transferred to PVDF membranes by using Trans-Blot Turbo Transfer System (Biorad#17001917). The membrane was blocked with 5% milk-TBS, and then incubated with primary antibodies overnight at 4 °C. The signal was developed with HRP-conjugated secondary antibodies and Amersham ECL Western Blotting Detection Reagent (Cytiva#RPN2106). Antibody information: mouse Caspase-1 (p20) (AdipoGen#AG-20B-0042-C100), mHDAC6 (homemade), human HDAC6 (CellSignaling#7558), α-tubulin (Sigma-Aldrich #T9026), HA (CellSignaling#3724), pan Actin (Sigma-Aldrich#SAB4502632).
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