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84 protocols using mhcii

1

Blocking Immune Receptors in HIV T-cell Activation

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For TLR and MHC-II blockades, PBMC was pre-treated with 10 μg of either anti-TLR-2 (eBioscience), TLR-4 (eBioscience) or MHC-II (eBioscience) blocking antibodies for 30 min. PBMC were then stimulated with FBCs from 10 HIV + ART-MSM subjects for 4 days and T cell activation was enumerated. For cytokine blockades, PBMC were treated with 10 μg of anti-TNF-α (eBioscience), IFN-γ (eBioscience) or IL-6 (eBioscience) monoclonal antibodies, then stimulated with FBCs and T cell activation was enumerated as above.
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2

Comprehensive Immune Cell Profiling by Flow Cytometry

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Inflammatory cells isolated from blood and tissues were resuspended
in 200 μl FACS buffer (DPBS, 2% FBS and 200 μM
EDTA), blocked with a FcR-blocking Reagent (BD Pharmingen, San Diego, CA,
USA), and divided into 2 tubes. One tube was stained with a surface marker
panel, containing CD3, CD4, CD25 (eBioscience), CD8a, CD44, CD45
(Biolegend), and the intracellular markers Granzyme-B (eBioscience) and
FoxP3 (Biolegend). The second tube was stained for F4/80, MHC-II
(eBioscience), CD86 (BD Biosciences), CD11b, CD11c, NK1.1, Ly6-G, and CD45
(Biolegend). A rat IgG2b κ isotype control was included for CD44,
FoxP3 (Biolegend), and MHC-II (eBioscience). A rat IgG2a κ isotype
was included for the Granzyme-B (eBioscience) and CD86 (BD Biosciences)
staining. For CD25 staining, the IgG1 κ isotype (eBioscience) was
included. In both panels, the fixable viability dye 780 (Invitrogen) was
added to exclude dead cells from the analysis. Extracellular staining was
performed prior to fixing and permeabilizing the samples for staining with
intracellular markers. Samples were analyzed on the LSR-II Flow Cytometer
analyzer in the Beckmann FACS facility (Stanford University).
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3

Tumor Immune Profiling by Flow Cytometry

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The tumor tissues were diced and digested in PBS containing 1 mg/mL collagenase-IV (Worthington Bio, Lakewood, USA), 0.1 mg/mL DNase-I (Roche, Mannheim, Germany) and 2% fetal bovine serum at 37℃ for 1 to 2 hours. Single cell suspension was obtained through 80 mesh-sized cell sieve. To block Fc receptor on immune cells, the cells were incubated with CD16/32 (10 μg/mL, clone 2.4G2, BioXcell) at 4℃ for 10 min before staining. To analyze PD-L1 expression on tumor cells (CD45 for MC-38 and 4T1 tumor cells, and CD19+ for A20 tumor cells) and DCs (CD45+CD11c+MHCII+), the cells were incubated with CD45 (1 µg/mL, Cat. 56-0451-82, eBioscience), CD19 (1 µg/mL, Cat. 115512, Biolegend), CD11c (1 µg/mL, Cat. 15-0114-82), MHC-II (1 µg/mL, Cat. 25-5321-82, eBioscience) and PD-L1 (1 µg/mL, Cat. 12-5982-82, eBioscience) antibodies at 4℃ for 30 min. To analyze tumor infiltration numbers of CD8+ T cells (CD45+CD3e+CD8+) and CD4+T cells (CD45+CD3e+CD4+), the cells were incubated with CD45 (1 µg/mL), CD3e (1 µg/mL, Cat. 25-0031-82, eBioscience), CD4 (1 µg/mL, Cat. 45-0042-82, eBioscience) and CD8a (2.5 µg/mL, Cat. 11-0081-82, eBioscience) antibodies at 4℃ for 30 min. Samples were analyzed via a FACS Calibur (BD Biosciences, USA) or Gallios (Beckman Coulter, USA) flow cytometer.
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4

Visualizing Lymphatic Vessels in Tissues

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To visualize lymphatic vessels within their microenvironment and study specific features that were identified during live imaging, cornea tissues were fixed in 1% paraformaldehyde in PBS pH 7.4 and labeled as previously described using whole mount techniques (Kelley et al, 2013 (link)). Whole mount mouse cornea, pinna, small intestine, trachea was stained with antibodies to LYVE-1 (11-034, AngioBio, Del Mar, CA), CD31 (MAB1398Z, EMD Millipore, Billerica, MA), pHH3 (H9908, Sigma-Alrich, St. Louis, MO), CD11b (13-0112-81, eBioscience), MHCII (13-5321-81, eBioscience), DAPI (Sigma-Aldrich) and the appropriate secondary antibody: using the fluorochromes Alexa488, Alexa555, Alexa633 (ThermoFisher Scientific) and DyLight488 (Jackson ImmunoResearch Laboratories, West Grove, PA). Fixed and labeled whole mounts were mounted in Vectashield H-1000 (Vector Laboratories, Burlingame, CA).
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5

Peritoneal Immune Cell Profiling by Flow Cytometry

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Cell subpopulations in the peritoneal lavage were identified by flow cytometry analysis via staining with fluorochrome-conjugated antibodies against the following antigens: Ly-6G, MHC II, CD11c, F4/80, CD11b, CD86 (eBioscience). For iNOS expression analysis, cells were fixed and permeabilized with Fix/Perm Buffer (BD Biosciences) and stained with mouse anti-iNOS (Santa Cruz Biotechnology) and PE-anti-rabbit IgG (Jackson ImmunoResearch Lab). Samples were acquired using a LSRII flow cytometer (BD) and analyzed with FlowJo software (TreeStar).
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6

Isolation and Characterization of Immune Cells

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Iscove's modified Dulbecco's medium, FBS, glutamine, penicillin/streptomycin, HEPES, G418, and PBS were purchased from Euroclone (Pero, Italy). Primer pairs were obtained from Primm Biotech (Milano, Italy). Dispase and DNase I were obtained from Gibco-Life Technologies (Monza, Italy) and Roche Applied Science, respectively. Goat serum was purchased from Vector Laboratories (Burlingame, CA, USA). Flow cytometry antibodies were purchased as follows: CD11b and Gr1 from Miltenyi Biotec, Bergisch Gladbach, Germany; CD11c, CD80, MHCII, CD4, CD8, CD25, CD44, and Foxp3 from eBioscience, San Diego, CA, USA. All other reagents were purchased from Sigma-Aldrich (Saint Louis, MO, USA).
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7

Immunostaining of Liver Tissue Sections

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Liver frozen sections (6 μm) were prepared and immunostained for α-smooth muscle actin levels (α-SMA, fibroblast, 1:750, F3777, Sigma-Aldrich), CD4-positive T cells (CD4, 1:90, 553043), CD8-positive T cells (CD8, 1:100, 01041D), CD68-positive macrophages (CD68, 1:100, 137002, BioLegend, San Diego, CA), and MHC class-II-positive areas (MHC II, 1:350, 556999) (all from eBioscience, San Diego, CA). Quantitative data of CD4+ T-cell numbers, CD8+ T-cell numbers, MHC class-II- and CD68-positive areas were taken and analyzed via color measurement using the software Image-Pro Plus 6.0.
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8

Immunoblot analysis of alpha-synuclein and immune markers

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Hemibrains were homogenised in RIPA buffer (SDS-PAGE) or non-denaturing lysis buffer (native PAGE), as previously described [34 (link)]. For immunoblot analysis, 10 μg of total protein per lane was loaded on 4–15% gels (Bio-Rad) and blotted onto polyvinylidene difluoride membranes (Bio-Rad). To determine the effects of vaccination on the levels of alpha-synuclein, MHCII and Fc-gamma receptor, blotted samples from immunised SNCA-OVX mice were probed with the rabbit MJFR1 antibody against human a-syn (Abcam, 1:1000), MHCII (eBioscience, 1:500) and Fc-gamma receptor CD16/32 (Abcam, 1:500). Overnight incubation at 4°C was followed by incubation in goat anti-rabbit secondary HRP antibody (Bio-Rad, 1:5000) for 1–2 h at room temperature, and visualisation with enhanced chemiluminescence (Millipore). Beta-actin was used as a loading control. To examine which species of a-syn are recognised by antibodies produced after immunisation, 0.1 μg of recombinant a-syn and a-syn oligomers were loaded on 4–15% SDS-PAGE gels and analysed by immunoblot using vaccination-elicited antibodies as primary antibody (1:500) and goat anti-mouse HRP antibody (Bio-Rad, 1:5000) as secondary antibody. The monoclonal antibody SYN211 (Abcam, 1:5000) served as positive control.
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9

Phenotypic Characterization of Cells

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Cells were detached from culture dish using HyQtase and blocked with Fc (CD32/16) at RT for 15 min, followed by incubating with primary antibodies conjugated with fluorescence at 4 °C for 30 min in darkness [37 (link)]. The cells were then assessed using BD FACS Canto II, and the data was analyzed using FlowJo software (TreeStar). Analyses included CD117 (Abcam, Cat. ab5506, 1:10), Sca1 (BioLegend, Cat. 108111, 1:50), CD73 (BioLegend, Cat. 127209, 1:50), CD90.2 (BioLegend, Cat. 105307, 1:50), CD105 (BioLegend, Cat. 120407, 1:50), CD34 (BioLegend, Cat. 128611, 1:50), CD31 (BioLegend, Cat. 102407, 1:50), CD45 (BioLegend, Cat. 103111, 1:50), CD11b (BioLegend, Cat. 101207, 1:50), MHC I (eBioscience, Cat. 17-5957-80, 1:50), and MHC II (eBioscience, Cat. 17-5957-82, 1:50).
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10

Multiparametric Flow Cytometry Analysis

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Ears were collected and processed as described54 (link). All cells were first pre-incubated with anti-mouse CD16/CD32 for blockade of Fc γ receptors, then were washed and incubated for 40 min with the appropriate monoclonal antibody conjugates in a total volume of 200 μl PBS containing 2 mM EDTA and 2% (vol/vol) bovine serum. DAPI (Invitrogen) was used to distinguish live cells from dead cells during cell analysis. Stained cells were analyzed on a FACS Canto or LSRII machine using the Diva software (BD Bioscience). Data were analyzed with FlowJo software (TreeStar). The following fluorochrome-conjugated anti-mouse antibodies were used at indicated dilutions: CD103 (2E7, 1:200), CD11c (N418, 1:200), CD24 (30-F11, 1:200), CD11b (M1/70, 1:200), MHC-II (M5/114.15.2, 1:400), CD45 (30-F11, 1:200), CD64 (X54-5/7.1, 1:200), Ly6C (HK1.4, 1:200), TCRb (H57-597, 1:200), CD3 (145-2C11, 1:200), TCRgd (EBIOGL3, 1:200), B220 (RA3-6B2, 1:200), CD49b (DX5, 1:200) and FCeR1 (MAR-1, 1:200) were from eBioscience; Siglec-F (E50-2440, 1:200), Ly6G (1A8, 1:200), CD117 (2B8, 1:200), CD8 (53-6.7, 1:200), and CD4 (GK1.5, 1:200) were from BD Bioscience.
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