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6 protocols using c myc

1

Western Blot Analysis of c-Myc and Hsp60

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Proteins for western analysis were isolated according to a protocol by Foiani (31 ). Western analysis was performed according to standard protocols. The primary antibodies for c-Myc (Clontech) and Hsp60 (Abcam) were used according to the manufacturer's protocol. Hsp60 served as a reference protein. As secondary antibody, we used a HRP-coupled antibody (Santa Cruz Biotechnology). Proteins were detected by chemiluminescence. Quantification was performed using Image Lab (BioRad).
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2

Antibody Profiling for Cellular Signaling

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The following antibodies were used: pIGF-IRY1131 (3021), pALKY1604 (Y664 in NPM-ALK; 3341), pAKTS473 (4051), and Ikaros (5443) (Cell Signaling Technology, Danvers, MA); IRS-1 (ab40777), AKT (ab8805), NPM (ab52644), and MZF1 (ab64866) (Abcam, Cambridge, MA); IGF-IR (396700; Life Technologies, Grand Island, NY); pIRS-1S639 (sc-22300; Santa Cruz Biotechnology, Santa Cruz, CA); ALK (M719501-2; Dako, Carpinteria, CA); c-Myc (631206, Clontech Laboratories, Mountain View, CA); IGF-I (05–172; Millipore, Billerica, MA); and β-actin (A-5316; Sigma).
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3

Protein Analysis in Extracellular Vesicles

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The primary antibodies were at the dilution of 1:1000, including HNRNPU (16365–1-AP, ProteinTech Group, China), HA (51064–2-AP, ProteinTech Group, China), c-Myc (s1826, Clontech, Japan), Alix (2171S, Cell Signaling Technology, USA), CD9 (13174S, Cell Signaling Technology, USA), Ubiquitin (10201–2-AP, ProteinTech Group, China), β-actin (4970S, Cell Signaling Technology, USA). The goat anti-rabbit IgG/Alexa fluor 647 (BS-0295-G, Bioss, China) was at the 1:200 dilution. The second antibodies goat anti-rabbit IgG(H + L) HRP (FMS-Rb01, Fcmacs) and goat anti-mouse IgG (H + L) HRP (S0002, Affinity) were in 5000 diluted concentrations. GW4869 was purchased from MedChemExpress (Monmouth Junction, NJ, USA).
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4

Identifying USP16 and c-Myc Interactions

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Short hairpin RNA (shRNA) sequences are listed in Additional le 1: Table S1. These sequences were cloned into the pLKO.1 vector, while Flag-tagged USP16 and c-Myc were cloned into the pLVX vector (Clontech 632187). Plasmids were transfected into HEK293FT cells using PEI 25K (23966-1; Polysciences, Warrington, PA, USA) according to the manufacturer's instructions. Stable transformants of PC3 and DU145 cells were isolated in standard medium supplemented with puromycin (5 μg/mL) (Sigma-Aldrich, St. Louis, MO, USA) for 7 days.
Reagents and primary antibodies MG132(52801ES08) and CHX (40325ES03) were purchased from Yeason (Shanghai, China). The following antibodies were used for western blotting: USP16 (A5861; Abclonal), c-Myc (GTX103436; GeneTex), β-actin (sc-47778; Santa Cruz Biotechnology). Antibodies used for immunohistochemistry: USP16 (HPA021140; Sigma-Aldrich), Ki67 (sc-15402; Santa Cruz), c-Myc (#ab32072, Abcam). Antibodies used for immunoprecipitation and immuno uorescence: Flag (#30503ES60, Yeason), USP16 (HPA021140; Sigma-Aldrich), c-Myc (13987S, Cell Signaling Technology).
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5

Profiling Oncogene Expression in Liver Cancer

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Total RNA was isolated from HuH-7, HepG2, SNU-449 and SNU-387 cells treated for 48 h using Trizol Reagent (Invitrogen; Carlsbad, CA, USA), and then reverse transcribed using Prime Script Reagent RT Kit (Takara Biotechnology Co.; Dalian, China) following the manufacturer's protocol. The PCR-primers for FOXO3a, ZEB1, CyclinD1 and v-myc avian myelocytomatosis viral oncogene homolog (c-Myc) were designed and purchased from Takara. The sequences are as follows:

FOXO3a: (forward: 5-TGCGTGCCCTACTTCAAGGATAA-3; reverse: 5-ACAGGTTGTGCCGGATGGA-3)

ZEB1: (forward: 5-CTTGAACGTCACATGACATCACATA-3; reverse: 5-TCTTGCAGTTTGGGCATTCATA-3)

CyclinD1: (forward: 5-TACCGCACAACGCACTTTC-3; reverse: 5-AAGGGCTTCAATCTGTTCCTG-3),

c-Myc: (forward: 5-GCAGCTGCTTAGACGCTGGA-3; reverse: 5-CGCAGTAGAAATACGGCTGCAC-3).

RT-PCR was performed using ABI 7900 Prism HT (Applied Biosystems Inc.; Shanghai, China) followed by melting curve analysis. FOXO3a, ZEB1, CyclinD1 and c-Myc mRNA expression was normalized to β-actin (forward: 5-TGGCACCCAGCACAATGAA-3; reverse: 5-CTAAGTCATAGTCCGCCTAGAAGCA-3).
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6

Immunoblotting Antibodies Catalogue Reference

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Antibodies used in this study were ABCC2/ MRP2 (catalogue number MAB4150; Millipore, Burlington, MA), RAB11A (mouse) (catalogue number 610656; BioScience, Franklin Lakes, NJ), RAB11A (rabbit) (catalogue number ab128913; Abcam, Cambridge, MA), myosin Vb (catalogue number NBP1-87746; Novus), FLAG (catalogue number F3165; Sigma-Aldrich, St Louis, MO), UNC45A (rabbit) (catalogue number HPA039228; Merck, Kenilworth, NJ), UNC45A (mouse) (catalogue number ADI-SRA-1800-F; Enzo Life Sciences, Farmington, NY), beta-tubulin (catalogue number T4026; Merck), c-myc (catalogue number 631206; Takara, Kusatsu, Japan), ezrin (catalogue number SC58758; Santa Cruz Biotechnology, Dallas, TX), beta-actin (catalogue number A5441; Sigma-Aldrich), syntaxin-3 (catalogue number ab133750; Abcam), and munc18-2 (catalogue number ab103976; Abcam). Fluorescently labeled phalloidin (catalogue number A22284) was from Invitrogen.
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