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8 protocols using anti cd3ε clone 145 2c11

1

Tumor-Draining Lymph Node Immune Profiling

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Tumor draining lymph nodes were extracted two days after the initial light exposure (i.e. day 9) and single cell suspension was prepared with mechanical crushing and filtration (70 μm). The cells were stained with anti-CD45 (clone 30-F11, Thermo Fisher Scientific), anti-CD3ε (clone 145–2C11, Biolegend, San Diego, CA, USA), anti-CD8α (clone 53–6.7, Thermo Fisher Scientific), anti-CD25 (clone PC61, Biolegend), and anti-CD69 (clone H1.2F3, Thermo Fisher Scientific). To exclude the dead cells from the study, the cells were also stained with Fixable Viability Dye (Thermo Fisher Scientific). The cells were then analyzed with FACSLyric (BD Biosciences) and FlowJo software (BD Biosciences).
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2

T Cell Activation Assay

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OT-I Rgs1+/+ T cells were FACS sorted, and 1x105 cells/well were distributed in a 96-U-bottom-well plate in 200μl cell culture media (RMPI 1640 + 2mM L-Ala/L-Glu, 1mM Sodium Pyruvate, 10mM HEPES, 1x MEM non-essential amino acids, 0.5mM 2-β-Mercaptothion, 10% FCS, 40 U/ml Penicillin, 40μg/ml Streptomycin (all Sigma-Aldrich, St. Louis, USA)) and stimulated with distinct cytokines and TCR-crosslinking mAbs. For TCR stimulation, plates were previously coated with anti-CD3ε and anti-CD28 mAb´s (anti-CD3ε: clone 145-2C11, anti-CD28: clone 37.51, both Biolegend, San Diego, USA) for 12h. The cells were treated with recombinant murine IL-2 (50 ng/ml, R&D Systems, Minneapolis, USA), IL-15 (50 ng/ml, Peprotech, London, United Kingdom), IL-33 (100 ng/ml, Peprotech, London, United Kingdom) and/or recombinant human TGFβ1 (50 ng/ml Peprotech, London, United Kingdom). The cells were incubated for 72h, at 37°C in 5% CO2.
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3

Stimulation of Alveolar Macrophages with LPS and Luteolin

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For the experiments described in the manuscript, soluble stimuli were used at the following concentrations: lipopolysaccharide (LPS, InvivoGen) 500 ng/ml, CpG (InvivoGen) 100 nM, IL-1ß (ThermoFisher) 200 ng/ml, anti-CD40 (clone 1C10, Biolegend) 1 µg/ml, PMA (Sigma) 10−7M, ionomycin (Sigma) 1 μg/ml. For plate coating, anti-CD3ε (clone 145-2C11, Biolegend) and anti-CD28 (clone 37.51, Biolegend) were used at a concentration of 2 µg/ml, at and anti-IgM F(ab’)2 (Jackson Immunoresearch Laboratories) at 10 µg/ml. For the stimulation of in vitro cultured alveolar macrophages, cells were collected using 4 mM EDTA in PBS and counted. 1 × 105 cells per well were plated in an untreated 96-well plate overnight and stimulated on the consecutive day with 400 ng/mL LPS and/or 100 µM luteolin (Sigma-Aldrich). At the end of the stimulation supernatant was carefully removed and frozen for ELISA analysis. Cells were detached using 4 mM EDTA in PBS, washed once and stained with 1:4000 SytoxRed in PBS 2% FCS before flow cytometric analysis.
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4

Analysis of Tumor-Draining Lymph Nodes

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One day after NIR-PIT, tumor-draining lymph nodes were removed. Single-cell suspension was prepared from the resected lymph nodes by mechanical crushing and filtration (70 μm cell strainer). The cells were stained with the following monoclonal antibodies: anti-CD45 (clone 30-F11, Thermo Fisher Scientific, Waltham, MA, USA), anti-CD3ε (clone 145-2C11, BioLegend, San Diego, CA, USA), anti-CD8α (clone 53–6.7, Thermo Fisher Scientific), anti-CD25 (clone PC61, BioLegend), anti-CD69 (clone H1.2F3, Thermo Fisher Scientific), and anti-NK1.1 (clone PK136, BioLegend). The cells were also stained with Fixable Viability Dye (Thermo Fisher Scientific) in order to exclude the dead cells from the study. The samples were then analyzed with a cell analyzer (FACS Lyrics and FlowJo software). Each cell population was determined as follows: killer T cell = CD45+/CD3+/CD8+; NK cell = CD45+/CD3−/NK1.1+; NKT cell = CD45+/CD3+/NK1.1+.
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5

Comprehensive Lung Cell Characterization

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Lung tissue was harvested as indicated and single cell suspension were prepared using a metal mesh. Absolute cell numbers were counted with a Neubauer chamber. Single-cell suspensions of the lungs respectively collected BAL fluid cells were incubated with CD16/CD32 Fc block (clone 93, BioLegend, 101310) to inhibit unspecific antibody binding. For flow cytometry, cells were stained with the following antibodies: anti-B220/CD45R (clone RA3-6B2, eBioscience, 45-0452), anti-CD3ε (clone 145-2C11, BioLegend, 100320), anti-CD11b (clone M1/70, BioLegend, 101206), anti-Ly-6G (clone 1A8, eBioscience, 17-9668), anti-CD45 (clone 30-F11, BioLegend, 103137), anti-CD11c (clone N418, Biolegend, 117333) and anti-SiglecF (clone E50-2440, BD, 562681). To exclude dead cells from the analysis, the samples were labeled with the Fixable Viability Dye eFluor 780 (eBioscience, 65-0865).
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6

Comprehensive Lung Cell Characterization

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Lung tissue was harvested as indicated and single cell suspension were prepared using a metal mesh. Absolute cell numbers were counted with a Neubauer chamber. Single-cell suspensions of the lungs respectively collected BAL fluid cells were incubated with CD16/CD32 Fc block (clone 93, BioLegend, 101310) to inhibit unspecific antibody binding. For flow cytometry, cells were stained with the following antibodies: anti-B220/CD45R (clone RA3-6B2, eBioscience, 45-0452), anti-CD3ε (clone 145-2C11, BioLegend, 100320), anti-CD11b (clone M1/70, BioLegend, 101206), anti-Ly-6G (clone 1A8, eBioscience, 17-9668), anti-CD45 (clone 30-F11, BioLegend, 103137), anti-CD11c (clone N418, Biolegend, 117333) and anti-SiglecF (clone E50-2440, BD, 562681). To exclude dead cells from the analysis, the samples were labeled with the Fixable Viability Dye eFluor 780 (eBioscience, 65-0865).
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7

T Cell Activation and Cytokine Analysis

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24 h before use, a 96-well flat bottom plate was incubated with wells containing either 10ug/ml of anti-CD3ε (clone 145-2C11, Biolegend), or 1 × PBS at 37 degrees. After 24 h, the plate was washed with 1X PBS, and then incubated with T Cell Medium (RPMI, Glutamine, antibiotic–antimycotic solution, FCS, and 2-mercaptoethanol) for 10 min at 37°. After this, the T Cell Medium was removed, and 1 million T cells from the spleens and bone marrow of wild type mice prepared by Step 2 were added to each well and incubated for 2 h at 37°. After the stimulus, 10 ng of pre-warmed Brefeldin A was added to each well, and the plate was incubated for an additional 4 h at 37°. After this, the cells were prepared for intracellular cytokine staining as described in Step 5.
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8

Flow Cytometric Analysis of Immune Cells

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The primary antibodies used for flow cytometry were as follows: anti‐F4/80 (clone BM8, BioLegend), anti‐CD11c (clone N418, BioLegend), anti‐MHC II (clone 10‐3.6, BioLegend), anti‐PDCA1 (clone 927, BioLegend), anti‐Gr1 (clone RB6‐8C5, BioLegend), anti‐CD4 (clone GK1.5, BioLegend), anti‐CD8a (clone 53‐6.7, BioLegend), anti‐IFN‐γ (clone XMG1.2, BioLegend), anti‐CD44 (clone IM7, BioLegend), anti‐CD80 (clone 16‐10A1, BioLegend), anti‐CD62L (clone MEL‐14, BioLegend), anti‐CD11b (clone M1/70, BioLegend), anti‐CD86 (clone GL‐1, BioLegend), anti‐I‐A/I‐E (clone M5/114.15.2, BioLegend), DC Marker (clone 33D1, BioLegend), anti‐Siglec‐H (clone 551, BioLegend), anti‐CD3ε (clone 145‐2C11, BioLegend), anti‐CD19 (clone 6D5, BioLegend), anti‐Ly‐6G (clone 1A8, BioLegend) and anti‐CD335 (clone 29A1.4, BioLegend). Mononuclear cells were isolated from the spleen and draining lymph nodes. A total of 1 × 106 cells were incubated with 1·5 mg mL−1 antibody for 30 min at 4°C. For intracellular staining, cells were fixed and permeabilized using fixation/permeabilization buffer (eBioscience) for 30 min at 4°C. The cells were then washed and stained for 30 min at 4°C with antibodies diluted with permeabilization buffer. The cell suspensions were analysed on an LSRII flow cytometer (BD Biosciences), and the data were analysed using FlowJo.
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