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7 protocols using chemiluminescent

1

Peptide-receptor binding assay protocol

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Unless otherwise specified, reagents were obtained from commercial sources. LC-MS grade water was purchased from Huberlab (Aesch, Switzerland); methanol and acetonitrile (both HPLC gradient grade) were purchased from VWR (Darmstadt, Germany). Ammonium formate and formic acid were purchased from Sigma-Aldrich (Buchs, Switzerland). Other solvents and reagents were purchased from Merck (Darmstadt, Germany). Fmoc-Arg(Pbf) Wang resin was obtained from Activotec (Cambridge, UK). Amino acids and coupling reagents were purchased from Iris Biotech (Marktredwitz, Germany). Recombinant human receptors and biotinylated human VEGF-A165 were purchased from R&D Systems (Minneapolis, MN, USA). Chemiluminescent, streptavidin-horseradish peroxidase conjugate and DPBS were obtained from Thermo Scientific (Waltham, MA, USA).
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2

Western Blot Analysis of Autophagy Markers

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Cells were lysed using 1% Triton in TBS containing protease and phosphatase inhibitors. Tumors were lysed using 1X RIPA buffer containing protease and phosphatase inhibitors. Equal amounts of total protein were separated by electrophoresis on a 4–12% Bis-Tris gel and transferred to a PVDF membrane (23 (link)). Blots were blocked in 5% BSA, and then probed with antibodies against anti- NURR1 (sc-376984, SCB), anti- ATG 7 (10088-2AP, Proteintech), anti-ATG 12(D88H11, Cell Signaling Technology), anti-LC3BI/II(3868, Cell Signaling Technology), anti-Cleaved PARP (9532S, Cell Signaling Technology) and anti-α-tubulin (Sigma). Chemiluminescent (32106, Thermo Fisher Scientific) signal was captured using a Syngene G-BOX iChemi XT imager (26 (link)).
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3

Immunoblotting Antibody Detection Protocol

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Antibodies used for standard immunoblotting were: anti-p21 (Santa Cruz Biotechnology, sc-469; 1:250), anti- β-actin (Santa Cruz Biotechnology, sc-1616; 1:500), anti-rabbit IgG-HRP (Santa Cruz Biotechnology, sc-2004; 1:5,000), anti-goat IgG-HRP (Santa Cruz Biotechnology, sc-2020; 1:5,000). Signals were detected with “chemiluminescent” (Thermo Fisher Scientific). After the detection of p21, the same blot was stripped and reprobed with the anti-β-actin antibody as a loading control (see Supplementary Fig. 7b for uncropped scans of the blot).
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4

Western Blot Analysis of IDH1 Protein

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Cells were lysed using 1X ice-cold RIPA buffer supplemented with protease and phosphatase inhibitors. Protein concentration was quantified using the Pierce B.C.A. Protein Assay kit (Thermo Fischer Scientific). Equal amounts of whole protein extracts were loaded and separated by electrophoresis on a 4–12% Bis-Tris gel (Life Technologies) and transferred to a PVDF membrane (Thermo Fischer Scientific). Blots were blocked in 5% (wt/vol) non-fat milk and then probed with antibodies against anti-IDH1 (Invitrogen, OTI2H9) and anti-beta-actin (Invitrogen, 15739-BTIN). Chemiluminescent (32106, Thermo Fisher Scientific) signal was captured using a digital imager (Odyssey Infrared Imaging system).
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5

MITF, CYR61, and ID2 Protein Expression

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Cells were lysed using 1% Triton in TBS containing protease and phosphatase inhibitors. Tumors were lysed using 1X RIPA buffer containing protease and phosphatase inhibitors. Equal amounts of total protein were separated by electrophoresis on a 4–12% Bis-Tris gel and transferred to a PVDF membrane. Blots were blocked in 5% BSA, and then probed with antibodies against anti-MITF (MA5-14154, ThermoFisher Scientific), anti-CYR61 (14479, Cell Signaling Technology), anti-ID2 (3431, Cell Signaling Technology), and anti-α-tubulin (Sigma). Chemiluminescent (32106, Thermo Fisher Scientific) signal was captured using a Syngene G-BOX iChemi XT imager.
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6

MITF, CYR61, and ID2 Protein Expression

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Cells were lysed using 1% Triton in TBS containing protease and phosphatase inhibitors. Tumors were lysed using 1X RIPA buffer containing protease and phosphatase inhibitors. Equal amounts of total protein were separated by electrophoresis on a 4–12% Bis-Tris gel and transferred to a PVDF membrane. Blots were blocked in 5% BSA, and then probed with antibodies against anti-MITF (MA5-14154, ThermoFisher Scientific), anti-CYR61 (14479, Cell Signaling Technology), anti-ID2 (3431, Cell Signaling Technology), and anti-α-tubulin (Sigma). Chemiluminescent (32106, Thermo Fisher Scientific) signal was captured using a Syngene G-BOX iChemi XT imager.
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7

Immunoblotting Protein Detection Protocol

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Immunoblotting to detect protein detection was performed using SDS-PAGE as previously described (Lal et al., 2014 (link)). Membranes for immunoblotting were probed with antibodies against anti-phospho-CTD-RNAPII-S2 (04-1571; Millipore), anti-phospho-CTD-RNAPII-S5 (04-1572; Millipore), anti-CDK7 (2916; Cell Signaling Technology), anti-CDK13 (A301-458A; Bethyl), anti-cleaved poly(ADP ribose) polymerase (Asp214; 9541; Cell Signaling Technology), anti-cleaved caspase 3 (Asp175; 9664; Cell Signaling Technology), NRF2 (12721; Cell Signaling Technology), and anti-α-tubulin (Sigma-Aldrich). Chemiluminescent (32106; Thermo Fisher Scientific) signal was captured using a Syngene G-BOX iChemi XT imager.
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