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31 protocols using myc 9e10

1

Protein Interaction Analysis with Antibodies

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Antibodies targeting RUNX3 (5G4) and BRD4 (ab128874) were obtained from Abcam (UK). Antibodies targeting FLAG (M2; Sigma, USA), Myc (9E10; Santa Cruz Biotechnology, USA), BRD2 (M01; Abnova, Taiwan), and BRD3 (sc-81202; Santa Cruz Biotechnology) were used for IP and IB.
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2

Western Blot Protein Analysis

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In all, 5 × 106 cells were harvested and homogenized in lysis buffer (20 mM Tris-HCl, pH 7.4, 1 mM EDTA, 150 mM NaCl, 0.5% Nonidet P-40, 0.1% sodium dodecyl sulfate (SDS), 0.5% sodium deoxycholate) supplemented with protease inhibitors (Roche) for 10 min at 4 °C and sonicated (Bioruptor) for 5 min. Equal amounts of total cellular proteins (20 μg), as measured with Bradford reagent (Biorad), were resolved by 10% SDS-polyacrylamide gel electrophoresis, transferred onto nitrocellulose membrane (GE Healthcare), and then probed with primary antibody, followed by secondary antibody conjugated with horseradish peroxidase. The immuno-complexes were visualized with enhanced chemiluminescence kits (GE Healthcare). Antibodies used were: for MYC 9E10, # sc-40 (1:500) from Santa Cruz and for actin Anti-β-Actin AC-74, # A5316 (1:5000) from Sigma Aldrich.
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3

Comprehensive Western Blot Analysis

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Cell proteins were extracted from cells using RIPA buffer (Cell Signaling, Danvers, MA) containing a phosphatase inhibitor (Roche, Indianapolis, IN). Equal amounts of protein were loaded and separated through SDS-PAGE. The proteins were then transferred to a membrane, and the blot was blocked with 10% non-fat milk in TBST. The membranes were probed overnight at 4°C using the following antibodies: PI3 Kinase p110α, p-4E-BP1 (T70), 4E-BP1 (53H11), phosphor-AKT (Ser473), Akt (pan), p-GSK-3-alpha/beta (S21/9) (D17D2), GSK-3alpha/beta (D75D3), p-Tuberin/TSC2 (Ser939), p-beta-catenin (Ser33/34/Thr41), LRP6 (C5C7), p-LRP6 (S1490) (Cell Signaling, Danvers, MA), Myc (9E10) (Santa Cruz Biotechnology, Dallas, TX), FZD7 and β-actin (Sigma-Aldrich, St. Louis, MO). Appropriate antibodies were used for secondary antibody reactions. The ECL Plus Western Blot Detecting System (GE Healthcare, Piscataway, NJ) was employed to detect the presence of antibodies.
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4

Western Blot Analysis of Signaling Proteins

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For westerns, injected embryos were cultured to stage 10 and lysed as in (Lee et al., 2012 (link)) in 5 embryo sets. Proteins were detected using antibodies against the corresponding affinity tag. Myc (9E10; Santa Cruz); Flag (Sigma-Aldrich); HA (gift of R. Lamb, Northwestern University) or Actin (Sigma-Aldrich]); Smad1 (sc-6031-R Santa Cruz); phospho-Smad1 (9511, Cell Signaling Technology); phospho-Smad2 (3101, Cell Signaling). Proteins were detected using secondary antibodies conjugated to HRP and enhanced chemiluminescence (GE Healthcare).
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5

Western Blot Analysis of Cellular Proteins

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Cell lysates were analyzed by western blots as previously described [9 (link)]. Anti-HEXIM1 was generated in the Montano laboratory [16 (link)]. Primary antibodies against p21 (C-19; cat# sc-397), p27 (C-19, cat# sc-528), cyclin D1 (HD11; cat# sc-246), myc (9E10; cat# sc-40), and KDM5B (H-180, cat# sc-67035) were obtained from Santa Cruz Biotechnology. Anti-Nanog was obtained from Cell Signaling Technologies. Anti-GAPDH was obtained from Millipore. Anti-HIF-1α was obtained from Oxy-cell Bioresearch. Anti-PyMT was obtained from Calbiochem.
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6

Lymphocyte Immunophenotyping in Mice

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Lymphocytes were isolated from the various organs of age- and sex-matched mice 3–16 weeks of age. Fluorescence-conjugated anti-CD4 (GK1.5), anti-CD8 (53–6.7), anti-CD5 (53–7.3), anti-CD24 (30-F1), anti-CD25 (PC61.5), anti-CD44 (IM7), anti-CD69 (H1.2F3), anti-CD62L (MEL-14), anti-CD45.1 (A20), anti-CD45.2 (104), anti-IFN-γ (XMG1.2), anti-IL-4 (11B11), anti-IL-2 (JES6-5H4), and anti-Foxp3 (FJK-16s) (eBioscience), Myc (9E10, Santa Cruz) as well as Annexin V and 7-amino-actinomycin D (BD Biosciences) were used. For intracellular cytokine staining, lymphocytes were stimulated for 4 hours with 50 ng/ml of PMA (phorbol 12-myristate 13-acetate) and 1 μM ionomycin in the presence of brefeldin A. Stained cells were analyzed on an LSRII (BD Biosciences) or were sorted on a MoFlo (DakoCytomation; Beckman Coulter).
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7

Characterization of ERK5 Signaling Pathway

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Cell culture reagents were purchased from Invitrogen and Sigma. Compounds 25 and 26 (ERK5-IN-1) were originally provided by Professor Nathanael Gray and Dr. Jinhua Wang, Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, USA then latterly compound 26 was purchased from Selleckchem. AX15836 and JQ1 are from Tocris. BIX02189 is from Selleckchem. Anti-HA antibody for immunoblots was provided by the Babraham Institute Monoclonal Facility40 (link),41 (link) and anti-HA (12CA5) antibody for immuno-fluorescence68 (link) was from Roche/Sigma. Phospho-ERK5 TEY (3371) antibody was from Cell Signaling Technology40 (link),41 (link). Phospho-T733 and phospho-S754 ERK5 antibodies were a kind gift from Dr. Atanasio Pandiella, University of Salamanca, Spain16 (link). Anti-Flag antibody (M2) is from Sigma69 (link). Anti-MEK5 antibody (AB3184) is from EMD Millipore22 (link), anti-lamin A/C (636)70 (link), ERK5 (C-7)26 (link) and myc (9E10)71 (link) antibodies are from Santa Cruz and anti-MEK1/272 (link), phospho-T359 RSK73 (link) and total RSK74 (link) from Cell Signaling Technology. Secondary antibodies were from BioRad40 (link),41 (link).
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8

Comprehensive Protein Analysis Protocol

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Total protein isolation and Western blotting analyses were done as described previously [32 (link)] with specific antibodies against the following antigens: pIGF-1R/IR (Y1131), IR, pEGFR (Y845), Src, pSrc (Y416), pp70S6K, p70S6K, pmTOR, mTOR, pAkt, Akt, pERK1/2 (p42/44), MEK1/2, ERK, tubulin (Cell Signaling Technology, Danvers, MA, USA); PARP, pFAK (Y397), and FAK (BD Biosciences, San Jose, CA, USA); Actin, IGF-1R (C-20), EGFR (1005), and Myc (9E10) (Santa Cruz Biotechnology, Santa Cruz, CA, USA); TYMS (Invitrogen, Carlsbad, CA, USA).
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9

Protein Expression Analysis by Western Blot

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Cell protein was extracted from cells using RIPA buffer (Cell Signaling, Danvers, MA) with phosphatase inhibitor (Roche, Indianapolis, IN). Equal amount of protein was loaded and separated by SDS-PAGE. After the protein was transferred onto a membrane, the blot was blocked with 5% non-fat milk in TBS and probed overnight at 4°C using the following antibodies: WNT5B (Sigma-Aldrich, St. Louis, MO), Cyclin E (M20), TOM20 (F-10), Myc (9E10), AIF (E-1), MCL1 (S-19) (Santa Cruz Biotechnology, Santa Cruz, CA), Caspsae-3, Caspase-8,PGC-α, Cyclin D1 (Cell Signaling, Danvers, MA) and β-actin (Bio-Rad, Hercules, CA). Appropriate antibodies were used for secondary antibody reaction. Signal was detected by the ECL Plus Western Blot Detecting System (GE Healthcare, Piscataway, NJ).
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10

Western Blot and Flow Cytometry Analysis

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The following Abs were used for Western blot analyses or flow cytometry analysis: p53 (DO-1, Santa Cruz), p21 (DSC60, Cell Signaling Technology, Danvers, MA), β-actin (AC-15, Sigma-Aldrich, St. Louis), His (Invitrogen), GST (B-14, Santa Cruz), HA (F-7, Santa Cruz), HA (C29F4, Cell Signaling Technology), Myc (9E10, Santa Cruz), Ab against mouse DD1α (MH5A, BioLegend), Ab against human PD-1 (J116, eBioscience), Ab against human PD-L1 (M1H1, eBioscience), CTLA4 (C-19, Santa Cruz), ICOSL (LifeSpan BioSciences), Ab against human CD14 APC (61D3, eBioscience), Ab against mouse F4/80 APC (BM8, eBioscience), Ab against mouse CD45R/B220 (RA3–6B2, eBioscience), Ab against human CD4-APC (OKT4, eBioscience), Ab against mouse CD4-APC (RM4–5, eBioscience), Ab against human CD8-APC (SK1, eBioscience) and Ab against mouse CD8a+-APC (53–6.7, eBioscience). Rabbit polyclonal and mouse monoclonal Ab against DD1α was raised against human DD1α (amino acids 33–311) as an immunogen. Beads immobilized with Abs against HA (Roche) or Myc (9B11, Cell Signaling) were used for immunoprecipitations. Recombinant human PD-1–Ig, mouse PD-1–Ig, human PD-L1–Ig, mouse PD-L1–Ig, and control Ig proteins were from R&D Systems.
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