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8 protocols using cd45 pacific orange

1

Immunophenotyping of Mononuclear Cells

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Patient sample mononuclear cells that had undergone Ficoll gradient isolation were immunophenotyped to standard clinical specifications by the OHSU Histopathology Shared Resource laboratory. The following antibodies were used: CD3-FITC (#349201; BD Biosciences, Franklin Lakes, NJ), CD5-PC-Cy7 (#348790; BD Biosciences), CD14-APC-H7 (#643077; BD Biosciences), CD19-V450 (#644492; BD Biosciences), CD33-PerCP-Cy-5.5 (#341640; BD Biosciences), CD45-Pacific-Orange (#MHCD4530; Invitrogen, Carlsbad, CA), CD64-PE (#558592; BD Biosciences), and CSF1R-APC (#347306; BioLegend, San Diego, CA). Surface marker analysis was performed on a BD FACSCanto II flow cytometer and the data were analyzed using FlowJo (FlowJo, LLC, Ashland, OR).
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2

Multiparameter flow cytometric analysis

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For the analysis of OX40L expression, whole blood samples were stained with anti-CD14-PC5, CD16-FITC, CD11c-APC, HLA-DR-PC7, and OX40L-PE mAbs, and red blood cells were lysed with Versalyse (Beckman Coulter). For the analysis of blood Tfh cells, whole blood samples were stained with anti-CXCR5-AF488, CCR6-PE, CXCR3-PC5, CCR4-PC7, CD3-AF700, CD8-APCH7, CD4-Pacific Blue (all from Becton Dickinson), CD45RA-ECD (Beckman Coulter), ICOS-APC (Biolegend) and CD45-Pacific Orange (Invitrogen). Data were collected using a BD LSR II instrument (BD Biosciences) and analyzed with Flowjo software (Tree Star Inc.).
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3

Multicolor Flow Cytometry Analysis

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Following blockade of Fc receptors (FcR blocking reagent, Myltenyi Biotec), cells were labeled with fluorophore conjugated antibodies to the following proteins: human CD31-FITC (BD, mouse), CD34-PerCP (BD, mouse), CD45-Pacific Orange (Invitrogen, mouse), CD11b-PE-Cy7 (BD, mouse), human neuropilin-1-PE (Miltenyi Biotec, mouse), CD133-APC (Miltenyi Biotec, mouse), human VEGFR-1 (Abcam, rabbit), VEGFR-2-PE (R&D, goat), VEGFR-3 (ABBIOTEC, rabbit), CD11c-Pacific Blue (Biolegend, mouse), CD14-PerCP-Cy5.5 (Biolegend, mouse), and CD14-APC (BD, mouse). Unlabeled antibodies used included anti-podoplanin (ABBIOTEC, rabbit followed by a Cy5 goat anti-rabbit or Dylight-488 donkey anti-rabbit, both from Jackson Immunoresearch),and mouse VE-Cadherin (R&D, goat followed by an Alexa-647 donkey anti-goat from Invitrogen). Labeled cells were analyzed using a LSRII flow cytometer (BD Biosciences) equipped with a 610/20 nm filter on the violet detector.
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4

Granulocyte and Monocyte Activation Assay

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Platelet-depleted blood (40 μl) was incubated with E. coli (107/ml) in a rolling incubator at 37°C for 15 minutes. After adding 6.4 μl of the stop solution, the leukocytes were stained with antibodies: CD45-Pacific Orange (catalog no. MHCD4530, Invitrogen™), CD14-PerCP (catalog no. 340585, BD Biosciences), CD15-V450 (catalog no. 48-0158-42, Invitrogen™), CD11b-APC/Fire 750 (catalog no. 101262, BioLegend, San Diego, CA), and CD35-Alexa Fluor 647 (catalog no. 1981978, Invitrogen™) for 15 minutes at 4°C. After lysing the red blood cells with fixative-free lysis buffer (Invitrogen™, catalog no. HYL250), the solution was centrifuged at 250×g, 4°C for 5 minutes. After centrifugation, the supernatant was discarded and the pellet was resuspended in PBSA. The expression of the abovementioned markers was analysed with Attune NxT Acoustic Focusing Cytometer (Thermo Fisher Scientific). Granulocytes were gated as CD15+ population (Supplementary Figure 2), while monocytes were gated as CD15- and CD14+ population (Supplementary Figure 3). The activation of granulocytes and monocytes was evaluated by the expression levels of CD11b and CD35 on their surfaces. Flow data analysis was performed with FlowJo version 10.
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5

Evaluating PBMC Cell Composition for Quality Control

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To determine if there was a different cell composition in PBMC samples that passed or failed quality control measures, we stained an aliquot of PBMCs from 11 sequential CoFAR6 samples immediately after PBMC isolation and prior to knowledge of assay results for assessment of cell subset composition by flow cytometry prior to culture. PBMCs were stained with a cocktail of 12 antibodies, shown in Table 1 to identify cell subsets in samples that were deemed to pass or fail quality control. Supplementary Figure 1 shows gating strategy to identify cell subsets, which was based on a publication by Hensley-McBain et al (Hensley-McBain et al., 2014 (link)).
To quantify neutrophils following granulocyte depletion, cells were stained with CD45 Pacific Orange (Invitrogen, Carlsbad, CA) and CD16 APC-H7 (Biolegend, San Diego, CA) and cells identified by scatter and CD16 staining.
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6

Multiparametric PBMC Immunophenotyping

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To determine percentages of T helper lymphocytes, T cytotoxic lymphocytes, natural killer cells, B cells and monocytes, 50,000 PBMCs were stained for 15 min at room temperature in tube A containing staining buffer (PBS, containing 0.2% BSA, 0.1% sodiumazide, pH 7.8) with CD45-Pacific Orange (Invitrogen, Carlsbad, CA, USA) 1:80, CD3-PercP-Cy5.5 (BD Biosciences, San Jose, CA, USA) 1:16, CD4-Pacific Blue (BD Biosciences) 1:200, CD8-PC7 (Beckman Coulter, Brea, CA, USA) 1:80, CD19-APC (BD Biosciences) 1:80, CD14-APC-H7 (BD Biosciences) 1:16, CD56-PE (Cytognos, Salamanca, Spain) 1:40 and CD15-FITC (BD Biosciences) 1:400.
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7

Flow Cytometry Characterization of Adherent Cells

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Adherent cells at passage 3 were dissociated and resuspended in flow cytometry staining buffer (R&D Systems, Minneapolis, MN, USA) at a final cell concentration of 1 × 106 cells/mL. For surface markers characterization, the following fluorescent monoclonal mouse anti-human antibodies were used: CD73 APC (eBioscience™, Thermo Fisher Scientific, San Diego, CA, USA), CD90 BV510 (BD Biosciences, San Jose, CA, USA), CD105 PE-Cyanine7 (eBioscience™), CD14 PE (eBioscience™), CD34 APC-eFluor 780 (eBioscienceTM), and CD45 Pacific Orange (Thermo Fisher Scientific), as published elsewhere [29 (link)]. Cells were washed twice with 2 mL of flow cytometry staining buffer and resuspended in 500 μL of flow cytometry staining buffer. Fluorescence was evaluated by flow cytometry in Attune NxT flow cytometer (Thermo Fisher Scientific). Data were analyzed using Attune NxT software (Thermo Fisher Scientific).
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8

Mesenchymal Stem Cell Characterization

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Adherent DPSCs at passage 3 were dissociated and resuspended in flow cytometry staining buffer (R&D Systems, Minneapolis, MN, USA) at a final cell concentration of 1 × 106 cells/mL. For characterization of surface markers, the following fluorescent monoclonal mouse anti-human antibodies were used: CD29 APC (Thermo Fisher Scientific, San Diego, CA, USA), CD73 APC (eBioscience™, Thermo Fisher Scientific), CD90 BV510 (BD Biosciences, San Jose, CA, USA), CD105 PE-Cyanine7 (eBioscience™), CD14 PE (eBioscience™), and CD45 Pacific Orange (Thermo Fisher Scientific). Cells were washed twice with 2 mL of flow cytometry staining buffer and resuspended in 500 μL of flow cytometry staining buffer. Fluorescence was evaluated by flow cytometry in Attune NxT flow cytometer (Thermo Fisher Scientific). Data were analyzed using Attune NxT software (Thermo Fisher Scientific).
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