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1

Antibody Characterization for Cell Signaling

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Anti-ALK, anti-phospho-Akt at serine (Ser) 473 (pAkt), anti-Akt, anti-Slug, anti-Snail, and anti-cleaved caspase 3 antibodies were purchased from Cell Signaling (Danvers, MA, USA). Anti-Sox11 and anti-β-actin antibodies and doxorubicin were obtained from Sigma-Aldrich Chemicals (St. Louis, MO, USA). Anti-N-myc, anti-Twist1, and anti-Histone H1 antibodies were from Abcam (Cambridge, MA, USA). Anti-NF-κB/p65, anti-p27kip1, and anti-bax antibodies were from BD Biosciences (San Jose, CA, USA). Anti-bcl-2 and anti-p21waf1 antibodies were from Dako (Glostrup, Denmark). Anti-cyclin A antibody was from Novocastra (Newcastle, UK). Recombinant human tumor necrosis factor (TNF)-α, transforming growth factor (TGF)-β1, and hepatocyte growth factor (HGF) were purchased from R&D Systems (Minneapolis, MN, USA).
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Western Blot Analysis of Protein Expression

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Whole-cell lysates for western blot analysis were prepared using standard radioimmunoprecipitation assay buffer. In brief, 30 μg protein were separated on 10% acrylamide/bis-acrylamide gels before transfer to polyvinylidene difluoride membranes (Bio-Rad, Hercules, CA, USA) using CAPS buffer (10 mM 3-[cyclohexylamino]-1-propane sulfonic acid, pH 11; 10% methanol). The following primary antibodies were diluted in 5% w/v BSA (Sigma) in TBS-T: 1:1000 anti-Bcl-2 (Dako), 1:1000 anti-cleaved caspase 3 (Cell Signaling Technologies, Danvers, MA, USA), 1:30 000 anti-tubulin (Promega, Madison, WI, USA), 1:1000 anti-VEGFA (vascular endothelial growth factor, Abcam) and 1:1000 anti-NMYC (Abcam). Horseradish peroxidase-labeled secondary antibodies were used (Dako) and detection was carried out with Lumi-Light POD-substrate (Roche, Basel, Switzerland). Quantification of band intensities was performed using Image Lab Software 5.2.1 (Bio-Rad) and adapted to the corresponding loading control.
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Subcellular Fractionation and Phospho-protein Analysis

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Subcellular fractionation was performed using the subcellular protein fractionation kit (Thermo Scientific) according to the manufacturer's instructions. Western blot analysis were performed as previously described in (19 (link)). ASCL1 phospho-status was determined in 8% acrylamide gels polymerised with 20 μM Phos-tag reagent (WAKO) and 40 μM MnCl2. After running and before transfer, phos-tag gels were washed three times, 10 min each with transfer buffer (25mM Tris-HCl, 190mM glycine, 20% methanol) plus 10 mM EDTA, followed by a final wash with transfer buffer. Antibodies used were: anti-ASCL1 (1:250; a kind gift from David Anderson and Francois Guillemot), anti-C-MYC (1:10000; Abcam), anti-N-MYC (1:500; Abcam), anti-H3 (1:5000; Abcam), anti-PARP (1:500; BD) and anti-GAPDH (1:1000; Sigma) or anti α-tubulin (1:5000; Sigma).
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4

EV Protein Characterization by Western Blot

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EVs were lysed with RIPA buffer (Abcam, Inc., Cambridge, UK) containing 60 mg/mL dithiothreitol and SIGMAFAST™ Protease Inhibitor tablets (Sigma-Aldrich, St. Louis, MO, USA) and the protein amounts were quantitated using a Bradford assay. Proteins (20 µg) were separated by 12.5% SDS-PAGE and transferred onto a polyvinylidene difluoride (PVDF) membrane (Millipore Immobilon®-P PVDF Membrane, Merck KGaA, Darmstadt, Germany). After blocking with 5% skim milk, the membrane was incubated with a 1:1000 primary antibody as follows: anti-Alix (#2171; Cell Signaling, Danvers, MA, USA), anti-Hsp70 (ab79852; Abcam plc, Cambridge, UK), anti-Tsg101 (ab125011; Abcam plc.), anti-n-Myc (ab24193; Abcam plc.), or anti-calnexin (#40090; Cell Signaling), at 4 °C overnight. The probed membrane was washed and incubated with 1:1000 anti-rabbit (P0448; Dako, Glostrup, Denmark) or 1:2000 anti-mouse (P0447; Dako) as an appropriate at room temperature for 1 h. The detected protein bands were enhanced by SuperSignal West Pico chemiluminescence substrate (Thermo Scientific) and captured by G:BOX Chemi XRQ (SYNGENE, Cambridge, CB4 1TF, UK).
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