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4 protocols using bez235

1

Monoclonal and Polyclonal Antibodies for Protein Analysis

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Monoclonal antibody to p53 and polyclonal antibodies to EGFR, MET, and AXL were from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Monoclonal antibodies to AKT1 and S6, and polyclonal antibodies to AKT, AKT2, and AKT3 were from Cell Signaling Technology (Beverly, MA, USA). Antibodies to MAPK, MDM2, and p21 were from Zymed/Invitrogen Laboratories (Invitrogen life Technologies, Carlsbad, CA, USA). All phospho-specific antibodies were from Cell Signaling Technology. Polybrene, puromycin, and antibody to β-actin were from Sigma-Aldrich (St Louis, MO, USA). Lentiviral shRNA constructs were from The RNAi Consortium (TRC, Cambridge, MA, USA), and included AXL: 5′-GCTGTGAAGACGATGAAGATT-3′; AKT1: 5′-CGCGTGACCATGAACGAGTTT-3′ (shRNA1), 5′-CGAGTTTGAGTACCTGAAGCT-3′ (shRNA2), 5′-CTATGGCGCTGAGATTGTGTC-3′ (shRNA3); and AKT2: 5′-CTTCGACTATCTCAAACTCCT-3′ (shRNA1), 5′-CAAGGTACTTCGATGATGAAT-3′ (shRNA2); and AKT3: 5′-AGAAACCTCAAGATGTGGATT-3′ (shRNA1), 5′-TGGCACACACTCTAACTGAAA-3′ (shRNA2).
Gefitinib, LY294002, U0126, GDC0941, and everolimus (RAD001) were obtained from LC Labs (Woburn, MA, USA). PHA-665752 was from Tocris Biosciences (St Louis, MO, USA). BEZ235 was from Axon MedchemBV (GZ Groningen, the Netherlands). All inhibitors were reconstituted in DMSO.
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2

Compound Preparation for Cell Signaling

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Reagents were from Sigma (St. Louis, MO) unless noted. Iodoacetate, lactate, pyruvate, and cycloheximide stocks were prepared in water. Rotenone, oligomycin A, and AICAR were dissolved in DMSO. BEZ235 (Axon Medchem, Reston, VA), Torin-1 (Tocris Bioscience, Bristol, UK), Torin-2 (Selleck, Houston, TX), BKM120 (Axon Medchem), GDC0941 (Axon Medchem), Gefitinib (Axon Medchem), MK2206 (Selleck), PD 0325901 (Sigma and Selleck), and Rad001 (SU2C PI3K Dream Team Mouse Pharmacy, which obtains compounds from Shanghai Haoyuan Chemexpress; [Elkabets et al., 2013 (link)]) were dissolved in DMSO. For GF titration, EGF (Peprotech, Rocky Hill, NJ) and insulin (Sigma) were diluted in PBS and added at indicated concentrations.
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3

Inhibitor Optimization for Cell Signaling

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Rapamycin (gift from Dr. Blenis), BEZ235 (Axon-Medchem) and Torin1 (Tocris-Bioscience) were dissolved in DMSO and used at indicated concentrations. BEZ235 was used at 0.5μM except where noted differently. SB203580/SB202190 (Cell Signaling Technologies) were used at 5μM concentration, and cells were pre-incubated with the inhibitor 24h. UO126 (Sigma) was used at 10μM. MK2206, BKM120, GDC0941 (Selleck) were all used at 250nM. All antibodies are described in supplemental materials.
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4

Cell Line Characterization and MUC1 Quantification

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Detailed description can be found in Supplemental Materials and Methods for: cell line cultures conditions; antibodies and gRNA sequences used; MS instrument settings; in vivo PET imaging Cell lines, SILAC labeling, and reagents Human breast cancer cell lines SKBR3, BT474, BT549, and MDA-MB-231; human non-small cell lung cancer cell lines H292 and HCC827; and HEK-293T were obtained from American Type Culture Collection (ATCC). SUM149 cells were a gift from Prof. W.T.A. van der Graaf (Medical Oncology, Radboud University Nijmegen Medical Centre, Nijmegen, The Netherlands). Stable isotope labeling of cell lines (SILAC) was done using RPMI or DMEM-high glucose media with normal Arg and Lys (light) or Arg 10 and Lys 8 (heavy) (Silantes). Human MUC1 shedding was measured using a standardized MUC1 human ELISA kit (EHMUC1; Thermo Scientific), mouse MUC1 was measured using a MUC1 mouse ELISA kit (E-EL-M2604; Elabscience). MUC1 has a reported serum half-life of ~7 days 47 . The following inhibitors were used: EGFR inhibitors erlotinib (LC Laboratories; Axon Medchem), gefitinib (Axon Medchem), lapatinib (LC Laboratories), afatinib (Tocris); JAK2 inhibitor BMS-911543 (Selleckchem); PI3K inhibitor BEZ235, AKT inhibitor MK2206, mTORC1/2 inhibitor everolimus, ERK inhibitor FR18024, MEK1 inhibitor AZD6244 (Axon Medchem).
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