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5 protocols using gapdh

1

Verifying Immune Protein Expression

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Two of the identified immune-related proteins, Cyclophilin A (CypA) and Cofilin 1 (Cof1), that were included in the list of proteins contributing to the separation of the TDI-treated group and AOO-treated group in the PCA were verified via Western blotting in B lymphocytes obtained from a new, independent set of similarly treated TDI- and AOO-treated mice (n = 10/group). Briefly, proteins were loaded and separated on 4–12% Bis/Tris Midi-gels (Invitrogen, Merelbeke, Belgium) and subsequently transferred to a PVDF membrane (iBlot, Gel Transfer Stack, Invitrogen). Membranes were blocked (1–2 h, 5% blocking agent, GE Healthcare) and incubated overnight with primary antibody (LSP-1: 1/1000, goat Ab, Santa Cruz Biotechnology; CypA: 1/1000, mouse Ab, Santa Cruz Biotechnology; GAPDH, internal standard, 1/200000, mouse Ab, Dako). Following secondary Ab incubation (LSP-1: 1/50000, donkey anti-goat IgG, Santa Cruz Biotechnology; Cof1 and GAPDH: 1/100000, goat anti mouse IgG, Dako) protein bands were visualized using chemiluminescence detection (Supersignal West Dura, Thermo Scientific) on ECL hyperfilm (GE Healthcare). The protein bands were semiquantitatively evaluated by densitometry (ImageQuant TL v2009, GE Healthcare).
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2

Anti-CD26 Antibody YS110 Characterization

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The humanized anti-CD26 antibody YS110 was constructed from the anti-CD26 mouse monoclonal antibody 14D10 coding sequence as previously described [11 (link)] and normal human IgG1 (Southern Biotech, Birmingham, AL) was used as a control. Rabbit monoclonal antibody to cyclinB1, p21cip/waf1, cdc2, phospho-cdc2 (Tyr15), cdc25c, phospho-cdc25c (Ser216), Erk1/2, phospho-Erk1/2(Thr202/Tyr204), p38MAPK, and phosphor-p38MAPK (Thr180/Tyr182) were from Cell Signaling Technology Inc. (Danvers, MA) and the mouse monoclonal antibody against β-actin or Glyceraldehyde 3-phosphate dehydrogenase (GAPDH) was from DAKO (Glostrup, Denmark). The goat anti-CD26 polyclonal antibody and MEK 1/2 inhibitor U0126 was from Cell Signaling Technology Inc. (Danvers, MA).
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3

Rat Kidney Cell Culture Protocol

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Normal rat kidney cells (NRK-52E), a tubular epithelial cell line derived from rat kidney, were directly purchased from the Japanese Collection of Research Bioresources (JCRB No. IFO50480, Osaka, Japan). Both mannitol and urea for adjusting the osmolarity in the medium were purchased from FUJIFILM Wako Pure Chemical (Osaka, Japan). Y-27632, ROCK (Rho-associated protein kinase) inhibitor, was also obtained from FUJIFILM Wako Pure Chemical. Antibodies for α-SMA, vinculin, E-cadherin, and GAPDH were purchased from DAKO (Glostrup, Denmark), Invitrogen (Carlsbad, CA), abcam (Cambridge, MA), and Cell Signaling Technology (Danvers, MA), respectively.
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4

Antibodies and Inhibitors for Protein Analysis

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Polyclonal antibodies to KIT (western), MAPK, GAPDH and HSP90 were purchased from Dako (Carpinteria, CA), Life Technologies (Carlsbad, CA), Proteintech Group Inc. (Rosemont, IL) and Santa Cruz Biotechnology (Santa Cruz, CA), respectively. All phospho-antibodies, polyclonal antibodies to AKT and the monoclonal antibody to S6 were purchased from Cell Signaling Technology (Beverly, MA). Monoclonal mouse antibodies to KIT (co-IP) and CK2 (Santa Cruz Biotechnology, CA), CDC37 (Abcam Biotechnology, Cambridge, MA) and β-actin (Sigma-Aldrich, St. Louis, MO) were used. Anti-mouse normal IgG was purchased from Cell Signaling Biotechnology. CX4945 (CX) and imatinib (IM) were purchased from Selleck (Houston, TX) and LC Laboratories (Woburn, MA, USA), respectively. Lentiviral CK2 shRNA constructs were purchased from The RNAi Consortium (TRC, Cambridge, MA, USA). Crystal violet and propidium iodide solution were purchased from Sigma-Aldrich. Protein A, Protein G beads, Lipofectamine and Plus reagent were purchased from Invitrogen (LIFE Technologies, USA). Puromycin and polybrene were purchased from Sigma (St. Louis, MO, USA).
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5

Western Blot Protocol for MRTF-B Protein Analysis

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Proteins were extracted from HTFs using 2 × SDS sample buffer (100 mM Tris HCL pH 6.8, 4% SDS, 20% glycerol, 200 mM dithiothreitol and 0.2% bromophenol blue). Equal amounts of protein were loaded onto and run on 4–12% NuPAGE Bis-Tris protein gels (Novex, Life Technologies). The gels were transferred onto nitrocellulose blotting membranes (Amersham, Life Sciences), and blocked in 3% non-fat milk in PBST (PBS 0.1% Tween) for 60 minutes. The membranes were then incubated overnight at 4 °C in primary antibody (MRTF-B, C-19 sc-47282, 1:1000, Santa Cruz; GAPDH, G9545, 1:3000, Sigma). The next day, the membranes were washed three times for 10 minutes each in PBST, and incubated for 1 hour at room temperature in secondary-labelled antibody (MRTF-B: Anti-goat HRP immunoglobulins, 1:2000, Dako; GAPDH: Anti-rabbit HRP immunoglobulins, 1:5000, Dako). The membranes were then washed with PBST three times for 10 minutes each, treated with ECL solution (Amersham, Life sciences) for 5 minutes, and scanned on an Odyssey IR Imager (LI-COR). MRTF-B protein silencing was also measured using densitometric analysis and GAPDH as loading control.
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