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9 protocols using anti mouse tnf α

1

Comprehensive Immune Cell Profiling

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The following antibodies were used for the present study.
Anti-mouse CD3, clone number 17A2, BioLegend, 05112-40-100, V450;
Anti-mouse CD4, clone number GK1.5, BioLegend, 100434, PerCP/Cyanine5.5;
Anti-mouse CD8, clone number 53-6.7, BioLegend, 100714, APC/Cyanine7;
Anti-mouse CD25, clone number 3C7, BioLegend, 101908, FITC;
Anti-mouse CD69, clone number H1.2F3, BioLegend, 104508, PE;
Anti-mouse CTLA-4, clone number UC10-489, BioLegend, 106305, PE;
Anti-mouse PD-1, clone number 29F.1A12, BioLegend, 135210, APC;
Anti-mouse CD19, clone number 1D3, eBioscience, 12-0193-82, PE;
Anti-mouse CD45, clone number 30F11, BioLegend, 103122, Alexa Fluor 488;
Anti-human CD45, clone number HI30, BioLegend, 304025, PerCP;
Anti-mouse IFNγ, clone number XMG1.2, eBioscience, PE;
Anti-mouse IL-17A, clone number TC11-18H10.1, BioLegend, Alexa Fluor 647;
Anti-mouse IL-13, clone number 13A, BioLegend, PE/Cyanine7;
Anti-mouse Foxp3, clone number MF14, BioLegend, PE;
Anti-mouse TNFα, clone number MP6-XT22, BioLegend, Alexa Fluor 488;
Purified Anti-mouse IFNγ antibody, clone number XMG1.2;
Purified anti-mouse IL-4 antibody, clone number 11B11.
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2

Intracellular Cytokine Staining of T-Cells

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Approximately 2 × 106 cells/well were incubated with respective stimulants and anti-CD49d in 24 well plates at 37 °C, 5% CO2, 100% humidity for 12 hours. Brefeldin A (10 µg/ml) (BD Biosciences, Japan) was added after the first 7 hours followed by a further 5 hours incubation66 (link). Cells were then washed with staining buffer (SB - 2% FCS, 0.05% NaN3 in PBS) twice. To reduce background, cells were treated with FcR block Ab (2µl/1ml in SB) (BD Biosciences) for 5 min at 4 ℃. They were then washed twice with PBS then stained with Fixable viability dye (FVD) eFlour 506 (1 µl/ml) (Invitrogen) for 30min at 4 ℃. Next was two washing steps with SB, then surface staining in 100 µl SB using anti-mouse CD3 (2 µl/100µl), anti-mouse CD4 (1 µl/100µl), anti-mouse CD8 (1 µl/100µl) (Tonbo biosciences) incubated for 30 min at 4 ℃. Surface-stained cells were then fixed and permeabilized using the Fixation/ Permeabilization solution (BD Biosciences) following the manufacturer’s instructions followed by intracellular cytokine staining with anti-mouse IFN-γ (1 µl/100µl) (Invitrogen eBiosciences), anti-mouse IL2 (1 µl/100µl) (Invitrogen eBiosciences) and anti-mouse TNF-α (1 µl/100µl) (Biolegend)67 (link). Cells were analyzed using the Acea NovoCyte 3000 flow cytometer and gated using the NovoExpress 1.3.0 software.
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3

Cytokine Modulation in Gut Immunity

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From 6 to 16 weeks of age, female KCASP1Tg and WT littermate mice were treated with 10 µg/body of anti-mouse TNF-α (BioLegend, San Diego, CA, USA) or IL-1α/β monoclonal antibody (BioLegend) three times per week intraperitoneally (n = 4, respectively). Phosphate-buffered saline (PBS) was injected as a control (n = 5). All the mice were sacrificed at the age of 16 weeks, and the gastrointestinal tract was investigated.
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4

Tumor-Infiltrating Lymphocyte Analysis Protocol

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Tumor-infiltrating lymphocytes were analyzed as previously described36 (link),37 (link). Briefly, 4 days after the last injection, the tumor masses were harvested from euthanized mice and weighed. Then, the tumor tissues were minced and passed through a 70-μm pore filter. The separated single cells were stained with the following antibodies: anti-mouse CD3, anti-mouse CD4, anti-mouse CD8, anti-mouse Foxp3, anti-mouse IFN-γ and anti-mouse TNF-α (BioLegend). Intracellular staining of tumor-infiltrating lymphocytes was conducted according to the manufacturer’s protocol. The staining results were analyzed using FlowJo software (TreeStar Inc.).
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5

Hepatic Fibrosis Quantification Protocol

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The HFD was purchased from Harlan Laboratories, Inc (Dublin, VA). Oil‐Red‐O staining kit was from Newcomer Supply (Middleton, WI). Trichrome Stain (Masson) Kit and Cholesterol Quantitation Kit were from Sigma‐Aldrich (Louis, MO). Triglyceride Quantification Colorimetric/Fluorometric Kit and Alanine Aminotransferase (ALT or SGPT) Activity Colorimetric/Fluorometric Assay Kit were from BioVision Incorporated (Milpitas, CA). Mouse LIPA/Lysosomal Acid Lipase Sandwich ELISA Kit was purchased from LSBio Lifespan BioSciences, Inc (Seattle, WA). Mouse tumor necrosis factor‐α (TNF‐α) ELISA Kit, interleukin (IL)–6 ELISA, IL‐1 beta ELISA Kit, MCPT‐1 (mMCP‐1) ELISA Kit, and human/mouse transforming growth factor‐β (TGF‐β) 1 ELISA Kit were purchased from eBioscience (San Diego, CA). Anti‐mouse alpha smooth muscle actin (MSC), anti‐mouse F4/80 and anti‐SQSTM1/62 antibodies were from Abcam (Cambridge, MA). The anti‐mouse Ly6G, anti‐mouse Ly6C, anti‐mouse CD11b, anti‐mouse C‐X‐C motif chemokine receptor 2, and anti‐mouse TNF‐α were from BioLegend (San Diego, CA). Anti‐mouse IL12p40 and anti‐mouse Gr‐1 antibody was from eBioscience (San Diego, CA).
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6

Multifaceted Immune Phenotyping by Flow Cytometry

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Cell surface molecular expression and intracellar cytokine production were evaluated using flow cytometry. FITC-conjugated anti-human or anti-mouse CD8, PE-conjugated anti-human Tim-3, or anti-mouse T-bet or GATA-3, PE/CY7-conjugated anti-human CD45RA or IL-10 or TNF-α, or IFN-γ or transforming growth factor (TGF)-β, PerCP/Cy5.5-conjugated anti-human CCR7, APC-conjugated anti-human PD-1 or IL-5, or anti-mouse TNF-α or IL-10, Brilliant Violet 421-conjugated anti-human CD27 or CD107a or Ki67 or IL-4, or anti-mouse IFN-γ or IL-4 (Biolegend) antibodies were used. For intracellular staining, cells were fixed and permeabilized using the Fix/Perm kit (Biolegend). Flow cytometry was performed on a Beckman-Coulter CyAN ADP cytometer and analyzed with FlowJo software (Tree Star, Ashland, OR, USA).
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7

Comprehensive Cell Signaling Analysis

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Acriflavine (A8251), Rapamycin (SML 1657), EGF (Sigma RP 3027), p-EGFR (CST 2234S), p-S6 (CST 4858S), ATP (Sigma A2383), Suramin (Sigma S2671), 2-DG (Sigma D8375), Gefitinib, PMA were obtained from Sigma Aldrich (US). Reagents for ELISA, including anti-mouse IFNγ, anti-mouse TNFα, anti-mouse IL-17A, anti-mouse IL-10 (purified and biotinylated) were obtained from Biolegend (California). Western blot antibodies, anti-human HIF1α, anti-human mTOR, anti-human p70-S6, and anti-human β-actin were purchased from CST (US). Purified anti-mouse HIF1α antibody for immunohistochemistry was purchased from R&D systems (US). Anti-mouse CD3 BV510, anti-mouse γδTCR FITC, anti-mouse Gr1 BV421, anti-mouse CD11b PerCp-Cy5.5 for immunophenotyping were purchased from BioLegend (California). Gentamycin, SS agar (Hi media M108D), LB media, RPMI-1640 (Sigma AL060A; 500ml), L-glutamine (Invitrogen A2916801), Pen/Strep (Thermo Scientific 11360070), Tween 20 (Sigma 9005-64-5), ENZO compound library.
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8

Spleen Immunophenotyping by Flow Cytometry

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The spleen was isolated from experimental mice, then followed by homogenisation for intracellular and extracellular immunostaining procedure as similar as our previous study (Putra et al. 2015 (link)). Several antibodies were used such as anti-mouse CD4, anti-mouse CD8, anti-mouse CD62L, anti-mouse CD25, anti-mouse TNF-α, and anti-mouse IFN-γ (Biolegend). Flow cytometry analysis was accomplished by BD FACS CaliburTM (BD Bioscience).
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9

Cytokine quantification in organ homogenates

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Longitudinally halved stomachs were homogenised (T10 homogeniser, IKA-Werke) in BHI and colony-forming assay performed as described previously. [14] Culture supernatants and organ homogenates (homogenised in PBS or after colony-forming assay) were centrifuged to remove debris prior to quantification of cytokine by ELISA as previously described. [21] Primary antibodies: anti-mouse TNFα (0.1 μg/well; BioLegend), MIP-2 (0.1 μg/well; R&D Systems), IFNγ (0.1 μg/well; BD Biosciences), IL-17A (0.5 μg/well; eBioscience), IL-6 (0.05 μg/well; eBioscience), IL-1β (0.2 μg/well; R&D Systems), IL-10 (0.1 μg/well; BD Biosciences), TGFβ (0.1 μg/well; BD Biosciences) or IL-18 (0.1 μg/well; R&D Systems).
Secondary antibodies: biotinylated anti-mouse TNFα (0.025 μg/well), MIP-2 (3.7 ng/well), IFNγ (0.05 μg/well), IL-17A (0.025 μg/well), IL-6 (0.025 μg/well) IL-1β (0.03 μg/well), IL-10 (0.05 μg/well), TGFβ (0.05 μg/well) or IL-18 (1/2000; same manufacturers as capture antibody). Sample concentration was determined against a standard curve of recombinant cytokine (same manufacturers as antibodies).
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