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11 protocols using cd16 percp cy5

1

Tetramer-based Identification and Sorting of B Cells

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B cells were eluted from PBMCs using a MACS Human B Cell isolation kit (Miltenyi Biotec). B cells were stained with rGP38 (IbAr10200) that had been tetramerized at 25 nM using Streptactin-PE (IBA Lifesciences) and Streptactin-APC (IBA Lifesciences). B cells were simultaneously stained with rGP38-Streptactin-PE and rGP38-Streptactin-APC tetramers for 1 hour on ice. Cells were washed twice in buffer (PBS, FBS, EDTA). Next, B cells were stained with a panel of antibodies. Donor 1 PBMCs were stained with a cocktail of anti-human CD3 PerCP-Cy5.5 (Biolegend), CD8 PerCP-Cy5.5 (Biolegend), CD14 PerCP-Cy5.5 (Invitrogen), CD16 PerCP-Cy5.5 (Biolegend), propidium iodide (PI) (Invitrogen), CD19 PE-Cy7 (Biolegend), CD27 BV510 (BD Biosciences), IgM BV711 (BD Biosciences), IgD BV421 (Biolegend), IgG BV605 (BD Biosciences), and IgA AF488 (Abcam). Donor 5 and 6 PBMCs were stained with a cocktail of anti-human CD3 PerCP-Cy5.5 (Biolegend), CD8 PerCP-Cy5.5 (Biolegend), CD14 PerCP-Cy5.5 (Invitrogen), CD16 PerCP-Cy5.5 (Biolegend), PI (Invitrogen), CD19 PE-Cy7 (Biolegend), CD20 PE-Cy7 (Biolegend), CD27 BV510 (BD Biosciences), IgM AF488 (Biolegend), and IgD BV421 (Biolegend). B cells were washed twice in buffer and run on a FACS Aria Fusion Cytometer (BD Biosciences). B cells were sorted into Super Script III reaction buffer (ThermoFisher Scientific) in 96-well Costar plates and frozen at −80 °C.
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2

Multiparameter Flow Cytometry Analysis of PBMCs

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Frozen PBMCs were thawed rapidly, washed, and then exposed to antibodies against lineage markers CD3-PerCP/CY5.5, CD19-PerCP/CY5.5, CD14-PerCP/CY5.5 (Biolegend, San Diego, CA), CD16-PerCP/CY5.5 (Biolegend, San Diego, CA), CD56-PerCP/CY5.5 (Biolegend, San Diego, CA), HLA-DR-APC/CY7, CD11c-PE/CY7 (eBioscience, San Diego, CA), CD1c-PE (Biolegend, San Diego, CA), CD40-FITC, CD86-APC, and CD83-APC. PBMCs were incubated for 30 min in the dark at 4 °C. Then, the samples were washed and fixed with 1 % paraformaldehyde. At least 200,000 events were collected from each sample with BD FACS LSRII (BD Biosciences, San Diego, CA), and the data obtained were analyzed with FlowJo (Treestar, Ashland, OR).
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3

Immunophenotyping of Breast Cancer Co-Cultures

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Cocultures were isolated 3 days after establishment. After pooling 6 co-cultures, breast cancer spheroids were extensively washed and trypsinized to obtain a cell suspension. Fc receptors were blocked with Human TruStain FcX™ (Fc Receptor Blocking Solution, cat num. 422301, BioLegend) for 10 min at RT, prior to incubation with the following antibodies: CD3-APC-Cy7, CD4-APC, CD14-BV510, CD15-BV650, CD16-PerCP-Cy5.5, CD56-Pe-Cy7 and CD86-BV786 (all from BioLegend) for 30 min at 4°C in the dark. Cells were washed and fixed in 1% formaldehyde prior to analyzing in the flow cytometer (FACS LSRII, BD Biosciences). Immunophenotyping of different cell subsets were defined based on described expression combinations gated on the live singlet lymphocytes. Data was analyzed using the FlowJo software (BD Biosciences).
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4

Isolation and Characterization of CD4+ T Cells

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Participant recruitment and informed consent were performed under Institutional Review Board (IRB)-approved protocols at the US National Institutes of Health (NIH) and University of Washington. Peripheral blood mononuclear cells (PBMC) were isolated from whole blood by density gradient centrifugation. PBMC were incubated with Fcγ-receptor-blocking reagent for 10 minutes and stained with LIVE/DEAD Aqua stain, CD3-APC-H7 (BD Biosciences; Cat# 641406), CD4-BV785 (BioLegend; Cat# 317442), CD8-PacBlue (Invitrogen; Cat# MHCD0828), CD14-BV650 (BioLegend; Cat# 301836), CD16-PerCP/Cy5.5 (BioLegend; Cat# 302028), CD19-BV605 (BD Biosciences; Cat# 562653), CD20-BV570 (BioLegend; Cat# 302332), CD27-Alx700 (BioLegend; Cat# 302814), CD32-PE (BioLegend; Cat# 303206); CD45RO-ECD (Beckman Coulter; Cat# IM2712U), CD123-PE/Cy5 (BD Biosciences; Cat# 551065), and TCRγδ-APC (BD Biosciences; Cat# 555718). CD4+ T cells were isolated by fluorescence-activated cell sorting (FACS) on a FACSAria (Becton Dickinson) using previously described protocols32 (link).
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5

Multicolor Flow Cytometry Panel for Macrophages and T Cells

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Cells were collected and washed once in buffer (PBS, 1% FBS (Biochrom), 0.5% Sodium azide (Carl-Roth)). The supernatant was discarded completely and 50 µL staining solution in buffer containing all labeling antibodies was added and incubated for 30 min at 4 °C. Subsequently, the suspension was washed once with buffer and suspended in buffer containing 1% Paraformaldehyde (PFA, Carl-Roth) and analyzed the next day. The following antibodies were used for macrophage staining: CD163-Fitc (1:20, BioLegend, San Diego, CA, USA), CD80-PE (1:20, BioLegend), CD16-PerCPCy5.5 (1:200, BioLegend), CD206-APC (1:100, BioLegend), CD14-APCCy7 (1:100, BD, Franklin Lakes, NJ, USA), HLA-DR-PeCy7 (1:400, BioLegend), Life/Dead-V510 (1:100, Thermo-Fisher). Following antibodies were used for T cell staining in the proliferation setup: CD8-PE (1:50, Miltenyi Biotec), CD4-APC (1:100, BioLegend), CD3-APCCy7 (1:100, BioLegend).
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6

Neutrophil Oxidative Burst in ACLF

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100μL of whole blood samples from HBV-related ACLF, patients with chronic hepatitis B (CHB) or healthy controls (HC) were pre-incubated with suPAR(50 ng/mL, R&D, USA) or PBS for 45 min at 37 °C in 5% CO2. Next, all samples were incubated with heat-inactivated E. coli (8 × 107 cfu/mL) in 96-well plates for 30 min. Then the cells were harvested for CD16-percp-cy5.5 (Biolegend, USA) staining and oxidative burst assessment using an ROS assay kit (Genecopoeia, MD, USA) and were analyzed by a LSRFortessa cytometer (BD bioscience, USA) according to the manufacturer’s instructions. Neutrophils were indicated as CD16+.
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7

Circadian Protein Profiling in Whole Blood Leukocytes

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For whole blood samples, leukocyte populations were stained with CD3-APC-Cy7 (Biolegend, California, USA, 317342), CD14-BV421 (Biolegend, 301830), and CD16-PerCP-Cy5.5 (Biolegend, 301828) . Cells were fixed with FIX (Nordic-MUbio, Netherlands, GAS-002) and stored in staining buffer (PBS + 2%FBS) overnight at 4°C. On the next day, all samples were contemporaneously permeabilized using PERM (Nordic-MUbio, Netherlands, GAS-002). Samples were then blocked with human TruStain FcX ™ Fc Receptor Blocking Solution (Biolegend, 422302), and circadian proteins were stained intracellularly using the following primary antibodies: NR1D1 (Abcam, United Kingdom, ab174309), REV ERB beta (Novusbio, Colorado, USA, NBP2-19576), BMAL1 (Novusbio, NB100-2288), CLOCK (Mybiosource, California, USA, MBS4750976), ROR alpha (Thermo Fisher Scientific, Massachusetts, USA, PA1-812), ROR beta (Novusbio, NBP1-82532), and ROR gamma-PE (R&D Systems, Minnesota, USA, IC6006P). The secondary donkey anti rabbit-PE antibody (Biolegend, 406421) was used for detection. Samples were measured on a BD FACSCanto II flow cytometer and analyzed as FI-FMO using FlowJo 10.8.1. Afterwards, Z-scores were calculated and normalized to TP 0 of the healthy control.
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8

Quantifying Cytokine Production in PBMCs

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Frozen PBMCs were thawed rapidly, washed, and then stimulated with 10 μM R848 (Invitrogen, Carlsbad, CA) for 22 h [25 (link)]. Brefeldin A was added 10 h prior to the end of the incubation period. PBMCs were exposed to antibodies against lineage markers CD3-PerCP/CY5.5, CD19-PerCP/CY5.5, CD14-PerCP/CY5.5 (Biolegend, San Diego, CA), CD16-PerCP/CY5.5 (Biolegend, San Diego, CA), CD56-PerCP/CY5.5 (Biolegend, San Diego, CA), HLA-DR-APC/CY7, CD11c-PE/CY7 (eBioscience, San Diego, CA), CD1c-PE (Biolegend, San Diego, CA) for 30 min in the dark at 4 °C. Each tube receiving 250 μL of Cytofix/Cytoperm solution was vortexed gently, and incubated for 20 min in the dark at 4 °C. The samples were then washed, exposed to antibodies against IL-12, incubated for 30 min in the dark at 4 °C, and fixed with 1 % paraformaldehyde. At least 200,000 events were collected from each sample with BD FACS LSRII, and the data obtained were analyzed with FlowJo.
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9

Isolation and Characterization of CD4+ T Cells

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Participant recruitment and informed consent were performed under Institutional Review Board (IRB)-approved protocols at the US National Institutes of Health (NIH) and University of Washington. Peripheral blood mononuclear cells (PBMC) were isolated from whole blood by density gradient centrifugation. PBMC were incubated with Fcγ-receptor-blocking reagent for 10 minutes and stained with LIVE/DEAD Aqua stain, CD3-APC-H7 (BD Biosciences; Cat# 641406), CD4-BV785 (BioLegend; Cat# 317442), CD8-PacBlue (Invitrogen; Cat# MHCD0828), CD14-BV650 (BioLegend; Cat# 301836), CD16-PerCP/Cy5.5 (BioLegend; Cat# 302028), CD19-BV605 (BD Biosciences; Cat# 562653), CD20-BV570 (BioLegend; Cat# 302332), CD27-Alx700 (BioLegend; Cat# 302814), CD32-PE (BioLegend; Cat# 303206); CD45RO-ECD (Beckman Coulter; Cat# IM2712U), CD123-PE/Cy5 (BD Biosciences; Cat# 551065), and TCRγδ-APC (BD Biosciences; Cat# 555718). CD4+ T cells were isolated by fluorescence-activated cell sorting (FACS) on a FACSAria (Becton Dickinson) using previously described protocols32 (link).
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10

Macrophage Polarization in Human Aortic Tissue

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Purified human monocytes were thawed and cultured in complete RPMI at a density of 2 × 106 cells per well of a 6-well plate containing 50 ng/mL macrophage colony-stimulating factor (M-CSF; Miltenyi Biotec) for 7 days. Differentiated macrophages (M0) were harvested with a cell scraper and washed with PBS. In 200 µL complete RPMI, 1 × 105 cells were seeded directly onto the intimal surface of the CFC or IFC human aortic tissue punch which had been frozen and rewarmed as described above. To ensure direct contact of the macrophages with the tissue the punch was held to the bottom of the 48-well plate with a small ring cut from a silicone tube (Ismatec/Cole-Parmer, Wertheim, Germany). After 2-day co-cultures at 37 °C, macrophages were harvested from the tissue surface with Accutase (Gibco/Thermo Fisher Scientific) and stained with the human specific antibodies CD163-FITC (1:20), CD80-PE (1:20), CD16-PerCPCy5.5 (1:200), CD206-APC (1:100), HLA-DR-PECy7 (1:400) (all BioLegend), CD14-APCCy7 (1:100) (BD Biosciences) and a viability marker in the V450 channel (1:1000) (LIVE/DEAD® Fixable Violet Dead Cell Stain Kit; Invitrogen/Thermo Fisher Scientific). FACS staining and measurement was performed as described above.
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