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35 protocols using cd4 rm4 5

1

Multiparametric Analysis of Immune Cells

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Flow cytometry and cell sorting were completed on a FACSAria Fusion instrument (BD) and analyzed using FlowJo analysis software (Tree Star). Surface staining was performed at 4°C in the presence of Fc block (2.4G2) in magnetic-activated cell sorting (MACS) buffer (PBS, 0.5% BSA, 2 mM EDTA). Intracellular IRF8 staining was performed using the Foxp3 staining kit (eBioscience 00-5523-00).
The following antibodies were used: CD19 (1D3), CD135 (A2F10.1), MHCII (M5/114.15.2), CD117 (2B8), B220 (RA3-6B2), CD3 (145-2C11), and CD4 (RM4-5) from BD Biosciences; CD3 (145-2C11), CD4 (GK1.5), and MHCII (M5/114.15.2) from Tonbo Biosciences; TER-119 (TER-119), Ly-6G (1A8), B220 (RA3-6B2), CD24 (M1/69), CD115 (AFS98), XCR1 (ZET), CD19 (6D5), CD8α (53-6.7), CD4 (RM4-5), CD11c (N418), and CD3 (17A2) from Biolegend; CD105 (MJ7/18), Siglec-H (eBio440c), CD3 (17A2), CD8α (53-6.7), CD11c (N418), and IRF8 (V3GYWCH) from eBiosciences; and SA-Qdot 605, CD11c (N418), CD317 (eBio927), CD172a (P84), and TCRβ (H57-597) from Invitrogen.
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2

Comprehensive Lymphocyte Immunophenotyping

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Lymph nodes and spleen were disintegrated into single cells as previously described45 (link) and stained for surface markers with the following antibodies: TCR-β (H57-597), B220 (R43-6B2), CD4 (RM4-5), and CD8 (53-6.7), and all were purchased from BD Biosciences (Franklin Lakes, NJ, USA) or eBioscience (San Diego, CA, USA).
Spleen cells were stimulated as previously described46 , and then stained for intracellular cytokines using a Mouse FOXP3 Buffer Set (BD Biosciences). The following fluorochrome-conjugated antibodies were used: CD4 (GK1.5), CD25 (7D4), CD3 (145-2C11), FOXP3 (FJK-16s), RORγt (AFKJ-9), IFNγ (XMG1.2), and IL-17 (eBio17B7), and all were purchased from BD Biosciences or eBioscience.
Data was collected with a FACSCanto instrument (BD Biosciences).
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3

Murine Lung Immune Cell Profiling

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P1 and P21 male and female murine lungs were isolated as described above. Cells were blocked for 30 min with CD16/CD32 (Tonbo Biosciences). For intracellular analyses, cells were stimulated with PMA (50 ng/ml, Sigma-Aldrich), ionomycin (750 ng/mL, Sigma-Aldrich), and GolgiStop (BD Biosciences) for 5 hr, and then surface stained with fluorochrome-conjugated antibodies for 30 min: CD3 (clone: 145–2 C11, BD Biosciences), CD4 (RM4-5, BD Biosciences), and CD8a (clone: 53–6.7, Biolegend). Cells were then permeabilized with FOXP3 Fixation/Permeabilization Kit (BD Biosciences) as indicated by the manufacturer, and stained for TBET (clone: 4B10, Biolegend), GATA3 (clone: L50-823, BD Biosciences), FOXP3 (clone: FJK-16s, eBioscience), RORγt (clone: Q31-378, BD Biosciences), IFNγ (clone: XMG1.2, Biolegend), IL-4 (clone: 11B11, BD Biosciences), IL-10 (clone: JES5-16E3, Biolegend), and IL-17 (clone: TC11-18H10, Miltenyi Biotec) for 30 min. Cells were read using an LSRII flow cytometer using FACSDiva software. Flow data was analyzed using FlowJo (Tree Star Inc). Flow cytometry analysis for this project was done on instruments in the Stanford Shared FACS Facility.
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4

Comprehensive Antibody Panel for T-Cell Analysis

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The following antibodies were used from eBioscience (San Diego, CA) unless otherwise specified: Helios (22F6; Biolegend, San Diego, CA), CD90.1 (H1S51), TCRβ (H57-597; BD Biosciences, San Jose, CA), CD69 (H1.2F3), Vβ5 (MR9-4; BD Biosciences), Foxp3 (FJK16S), CD45RB (C363.16A), CD45.1 (A20), Vα2 (B20.1), CD3ε (eBio500A2), CD152 (UC10-4B9), folate receptor 4 (eBio12A5), CD73 (eBioTY/11.8), Vα2 (B20.1; BD Biosciences), CD25 (PC61.5), and CD4 (RM4-5; BD Biosciences).
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5

Comprehensive Multiparameter Flow Cytometry

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The Cyan ADP flow cytometer (Beckman Coulter, Indianapolis IN) was used for all flow samples. Antibodies for these surface markers were used for flow cytometry: CD3 (145-2C11, BD Bioscience Franklin Lakes, NJ, USA), CD4 (RM4-5, BD Bioscience), anti-CEA CAR (Wi2, Immunomedics Morris Plains, NJ, USA), CD11b (M1/17, BD Bioscience), Ly6C (AL-21, BD Bioscience), Ly6G (1AB, BD Bioscience), PD-L1 (MIH5, BD Bioscience), CD62L (MEL-14, BD Bioscience), CCR7 (4B12, BD Bioscience), CD44 (IM7, BD Bioscience). Intracellular FoxP3 staining was performed with Mouse FoxP3 Permeabilization Kit (BD Bioscience). Single stain and isotype controls were used for each experiment. Analysis of acquired flow samples was performed with FlowJo software (Tree Star Inc., Ashland OR).
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6

Skin Allograft Immune Profiling by Flow Cytometry

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Flow cytometric analysis of skin allograft, draining lymph node (DLN) and spleen was performed, and each leukocyte population was quantified. CD4 (RM4-5, #100559, 1:400), CD8 (53-6.7, #100734, 1:400), CD69, CD25 (PC61.5, #12-0251-81B, 1:400), Foxp3 (FJK-16s, #11-5773-82, 1:300) and Annexin-PE (51-65875X) were purchased from BD Biosciences, San Jose, CA. For intracellular cytokine staining, cells were stimulated ex vivo with phorbol 12-myristate 13-acetase (PMA, 50 ng/ml) and ionomycin (500 ng/ml) in combination with GolgiStop for 4 hours, then permeabilized and stained with fluorochrome conjugated antibodies against IFNγ. Cells were run on FACSCanto II (BD Biosciences, Franklin Lakes, NJ). Data were analyzed using FlowJo software.
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7

Multiparametric Flow Cytometry Analysis

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All flow cytometric analyses and sorting were performed on a BD FACS Aria II cell sorter. Antibodies used were CD4 (RM4-5, BD Biosciences), CD8a (53-6.7, eBioscience), B220 (RA3-6B2, Biolegend), CD11b (M1/70, BD Biosciences), Ly6G/C (RB6-8C5, Biolegend), Ter119 (TER-119, Biolegend), Sca1 (D7, Biolegend), MPL (AMM2, Immuno-Biological Laboratories), CD41 (MWReg30, BD Biosciences), CD150 (TC15-12F12.2, Biolegend), cKit (2B8, Biolegend), CD34 (RAM34, eBioscience), IL7R (A7R34, eBioscience), Flt3 (A2F10, eBioscience), CD16/32 (93, eBioscience) and CD105 (MJ7/18, Biolegend). Streptavidin (eBioscience) was used to resolve biotinylated antibodies and propidium iodide was added prior to analysis to identify live cells.
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8

Immunohistochemical Analysis of Lymphoid Tissues

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Immunohistochemistry was performed as described (15 (link)). Briefly, freshly isolated LNs or spleens were fixed in newly prepared 4% paraformaldehyde (Electron Microscopy Science) overnight at 4 °C on an agitation stage. Spleens or LNs were embedded in 4% low melting agarose (Invitrogen) in PBS and sectioned with a vibratome (Leica VT-1000 S) at a 30 μm thickness. Thick sections were blocked in PBS containing 10% fetal calf serum, 1 mg/ml anti-Fcγ receptor (BD Biosciences), and 0.1% Triton X-100 (Sigma) for 30 minutes at room temperature. Sections were stained overnight at 4 °C on an agitation stage with antibodies directed at B220 (RA3–6B2, BD Biosciences), CD4 (RM4–5, BD Biosciences), CD169 (3D6.112), CD21/35 (4E3), CD45.1 (A20), CD45.2(104) all from BioLegend, Ki67 (SolA15, ThermoFisher), and LYVE-1 (223322, R & D Systems). Stained thick sections were microscopically analyzed using a Leica SP8 confocal microscope equipped with an HC PL APO CS2 40× (NA, 1.30) oil objective (Leica Microsystem, Inc.) and images were processed with Leica LAS AF software (Leica Microsystem, Inc.) and Imaris software v.9.0.1 64× (Bitplane AG). The intensities of fluorescent signals in regions of interests (ROI) were measured by LSA AF Lite software (Leica Microsystem).
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9

Isolation and Flow Cytometry of Murine Intestinal Lamina Propria Cells

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The following antibodies were purchased from eBioscience: IFNγ (XMG1.2), CD90.1 (H1S51), CD69 (H1.2F3), CD45RB (C363.16A), CD45.1 (A20), Vα2 (B20.1), IL-17A (eBio17B7), CD8α (eBioT4/11.8), CD25 (PC61.5), CD3ε (eBio500A2), and RORγ(t)-PE (B2D). Antibodies purchased from BD Biosciences were: TCRβ (H57-597), Vβ5 (MR9-4), CCR6 (140706), IL-17A (TC11-18H10), Vα2 (B20.1), and CD4 (RM4-5). Dead cells were identified using the fixable Aqua dead cell staining kit (Invitrogen). The following biotin-conjugated antibodies (eBioscience) were used for negative selection in conjunction with anti-biotin and anti-APC microbeads (Miltenyi Biotec): CD8α (53-6.7), Ly-6G (RB6-8C5), F4/80 (BM8), TER-119 (TER-119), CD11b (M1/70), NK1.1 (PK136), CD11c (N418), CD19 (eBio1D3). Isolation of LP cells and flow cytometry was performed as previously described (18 (link)).
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10

Multiparameter flow cytometry analysis

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Single cell suspensions were stained with a viability dye, followed by incubation with purified rat anti-mouse CD16/CD32 (mouse BD Fc Block, clone 2.4G2) as previously described (22 (link)). Cells were then stained for 25 min at 4°C in the dark using antibodies targeting the following markers: CD69 (H1.2F3, Biolegend), CD4 (RM4-5, BD Biosciences), CD11a (2D7, BD Biosciences), and CD44 (IM7, Tonbo), (MEL-14, Biolegend). Cells were then washed and prepared for flow cytometry analysis. Data was acquired using a BD LSR-II instrument, configured with 488 (blue), 633 (red), 407 (violet), and 532 (green)-nm lasers. Data were analyzed using Flowjo software (FlowJo, LLC), version 10.
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