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88 protocols using cd19 apc

1

Urine Immune Cell Composition Analysis

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The 33,494 probes mapped to known genes were used to estimate the immune and kidney cell composition of the samples (Fig. 1B). The immune response in silico (IRIS) repository of 1,622 genes, classified by their specific expression in multiple immune cell lineages (27 (link)) and previously described transcript sets of 637 genes for kidney-specific cell lineages (28 (link)), was used to estimate the immune and renal cell composition in urine, respectively. Urine samples from 10 random septic patients were analyzed via flow cytometry using an Life Science Research II flow cytometer (Becton Dickinson, Franklin, NJ). Approximately 50–200 mL of urine was collected and processed within 30 minutes of sample collection. The samples were stained with CD3-AF488 (Number 557694; Becton Dickinson), CD4-AF700 (Number 566318; Becton Dickinson), CD8-BV650 (Number 565289; Becton Dickinson), CD14-PE (Number 561707; Becton Dickinson), CD19-APC (Number 561742; Becton Dickinson), and Sytox Blue (Number S34857; Invitrogen; Thermo Fisher Scientific, Waltham, MA).
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2

Surface Staining of Immune Cells

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For surface staining, single-cell suspensions prepared from the spleens of hu-mice or total blood cells collected in EDTA-coated tubes were stained for surface markers and analyzed on a BD LSRFortessa Beckton-Dickinson). Human CD11c-PacBlue, CD45-AF700, CD45-APC-Cy7, HLA-DR-PeCy7, CD40-PeCF, CD19-PeCy5, CD19-APC, CD19-PacBlue, CD27-APC, IgG-PeCy5, IgG-PercpCy5.5, IgD-FITC, IgM-FITC, CD3-APC-H7, CD3-FITC, CD14-FITC, CXCR5-AF488, and streptavidin-PE were purchased from Becton-Dickinson, whereas human CCR7-PacBlue, CD45RA-FITC, IgM-PacBlue, and ICOS-APC were purchased from Biolegend. Pacific orange-conjugated anti-mouse CD45, PE/Texas red-conjugated anti-human CD4, and the LIVE/DEAD Fixable Aqua (LD7) Dead Cell Stain Kit were purchased from Invitrogen. Data were analyzed using FlowJo software (FlowJo, LLC).
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Flow Cytometry Analysis of Immune Cells in Ischemic Stroke

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Peripheral blood samples were collected from healthy control subjects and ischemic stroke subjects at the time of admission (<72 h after onset). Blood samples were stored in ice-cold tubes containing EDTA prior to flow cytometry analysis. Mononuclear cells were isolated from the whole-blood specimens and stained with fluorescent-labeled antibodies, including CD3-PEcy7, CD4-APC, CD8-FITC, CD19-APC, CD56-PerCP, CD11b-PerCP, CD11c-FITC, CD14-APC, CD16-FITC, and CD74-PE (Becton Dickinson, San Jose, CA). Data were acquired using FACS Caliber (Becton Dickinson, San Jose, CA) and analyzed with Flow Jo 7.6 software.
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Immune cell phenotyping by flow cytometry

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Flow cytometry analysis was performed using a four-color flow cytometer (Becton-Dickinson, American). Immune reconstitution was analyzed using three sets of 4-color antibody panels: CD45-PerCP, CD3-APC, CD4-FITC, CD8-PE; CD4-PerCP, CD25-PE, CD45RO-APC, CD45RA-FITC; and CD10-PE, CD19-APC, CD45-PerCP, and CD34-FITC (Becton-Dickinson, USA). Fifty thousand PBMCs were collected per sample and analyzed using Cell Quest software (Bec-ton-Dickinson). Fluorochrome-conjugated isotype-matched nonspecific mAbs were used as negative controls for each assay.
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5

Isolation of Influenza-specific Plasmablasts

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We collected blood from three individuals (Suppl. Table 1) vaccinated 7 days earlier with the 2010/2011 seasonal trivalent influenza vaccine (Sanofi Pasteur), which consists of 3 strains of inactivated influenza: H1N1 A/California/7/2009, H3N2 A/Perth/16/2009, and B/Brisbane/60/2008. Samples were collected after obtaining informed patient consent and under human subject protocols approved by the Investigational Review Board (IRB) at Stanford University. PBMCs were stained with CD3-V450 (BD 560365), IgA-FITC (AbD Serotec STAR142F or Miltenyi #130-093-071), IgM-FITC (AbD Serotec STAR146F), IgM-APC (BD 551062) or IgM-PE (AbD Serotec STAR146PE), CD20-PerCP-Cy5.5 (BD 340955), CD38-PE-Cy7 (BD 335808), CD19-APC (BD 340437) or CD19-Brilliant Violet 421 (Biolegend 302233), and CD27-APC-H7 (BD 560222). We sorted cells with a BD FACSAria II or III, achieving purities of >80% from the first bulk sort. We gated on CD19+CD20CD27+CD38++IgAIgM cells for the bulk plasmablast sort, and then single-cell sorted them into 96-well PCR plates containing a hypotonic buffer (10mM Tris-HCl pH 7.6) comprised of 2 mM dNTPs (NEB), 5 μM oligo(dT)20VN, and 1 unit/μL of Ribolock (Fermentas), an RNase inhibitor.
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Immune Cell Characterization by Flow Cytometry

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The procedure used in this study has been published previously (14 (link),26 (link)). Briefly, the following anti-mouse monoclonal antibodies were purchased from BD Biosciences: Ly6G-peridinin chlorophyll protein (PerCP)-Cy5.5 (1A8; 560602), Ly6C-fluorescein isothiocyanate (FITC) (AL-21; 553104), CD4-allophycocyanin (APC) (RM4-5; 553051), CD25-FITC (7D4; 553071), and CD19-APC (1D3; 550992). The following antibodies were purchased from BioLegend: CD45-FITC (30F-11;103108), CD45-PerCP-Cy5.5 (30F-11;103132), CD45-brilliant violet (BV510) (30F-11;103138), CD11b-APC/Fire750 (M1/70;101262), CD244-Alexa Fluor 647 (2B4;133509), F4/80-phycoerythrin (PE) (BM8;123110), PD-L1-BV421 (10F.9G2;124315), CD8a-APC/Fire 750 (53-6.7;100766), CD8a-PE (53-6.7; 100708), CD127-BV510 (A7R34;135033), CD1d-PE (1B1;123509), and CD5-BV421 (53-7.3;100618). The isolated immune cells were stained in a 96-round-bottom-well plate for 20 min at 4°C and washed with PBS containing 1% bovine serum albumin. Sorting of Ly6G+CD244+ and Ly6G+CD244 cells was conducted on a FACSAria instrument (BD Biosciences). Flow cytometric data were obtained by a FACS Verse instrument (BD Biosciences) and analyzed by FlowJo software (TreeStar, Inc.). CD45-gated cells were analyzed in this study.
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7

Comprehensive Immunophenotyping by Flow Cytometry

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All cells were stained for viability using the Zombie Fixable Viability Kit (Biolegend), incubated with anti-CD16/32 Fc-block (BioXcell), and stained with the indicated antibodies: CD19 APC, CD3 APC-H7 or BV450, CD4 AF700, CD8 V500, CCR7 PE-CF594, CD69 BV785, CCR5 PE, CD103 FITC, (BD Biosciences) CD38 PE-Cy7, CD11c BV711, CD14 BV650, CD45RA BV605 (Biolegend). Stained samples were run on an LSRII flow cytometer, data acquired using FACS DIVA software (BD Biosciences) and analyzed using FlowJo software (TreeStar, Inc., Ashland, Oregon).
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8

Monoclonal Antibody Flow Cytometry Analysis

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Monoclonal antibodies (CD3-FITC, CD19-APC, and annexin V-FITC) were purchased from BD Biosciences (Franklin Lakes, NJ, USA). Appropriate APC, PE, and FITC isotype antibodies were used as negative controls (BD Biosciences). The fluorescent nanoparticle size standard kit was purchased from Spherotech (Lake Forest, IL, USA; Cat. No. NFPPS-52-4K). Elaiophylin was provided by North China Pharmaceutical Group Corporation New Drug R&D center. Stattic was purchased from Sigma-Aldrich.
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9

CFSE-based Lymphocyte Proliferation Assay

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PBMCs (up to 2x107 cells) suspended in RPMI-1640 medium were labeled with 1 μL of 5 mM CFSE solution (Thermo Fisher Scientific, USA) and incubated in dark for 6 minutes at 4°C. Cells were washed twice with PBS and were counted under light microscopy with trypan exclusion method. CFSE-labeled cells were cultured in 48-well flat bottom culture plates (NEST Biotechnology, China) for 120 hours at 37°C in 5% CO2 environment with the absence or existence of 5 µL/mL phytohemagglutinin (PHA, Thermo Fisher, USA). After the incubation, cell-culture supernatants were collected for future analysis and PBMCs were washed with PBS. After washing, PBMCs were re-suspended and 100 μL cell suspension was taken from the respective well (US: unstimulated, PHA: Phytohemagglutinin-stimulated) in 2 separate tubes for flow cytometry. Cells were labelled with anti-CD4-PE/Cy7 (BD Biosciences, USA) and -CD19-APC (BD Biosciences, USA) mAbs and incubated at dark for 20 minutes. After the incubation, cells were washed and re-suspended with FACS buffer. Samples were analyzed by a FACSCalibur flow cytometer running CellQuest software (BD Biosciences, San Jose, USA). The obtained data was evaluated as % proliferation. The proliferation percentages of total lymphocytes, CD4+ T cells and CD19+ B cells were evaluated.
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10

Comprehensive Immune Cell Profiling

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The following antibodies were used in flow cytometry: CD45-V500 (clone HI30), CD3-BV786 (clone OKT3), CD4-Vioblue (clone RPA-T4), CD8-APC780 (clone SK1), CD19-APC, CD15-PerCP-Cy5.5, CD14-ECD, CD16-AF700, CD11b-PE-Cy7, CD209-FITC, CCR5-PC5, CD163-BV605, and major histocompatibility complex, class II, DR (HLA-DR)-PE (all BD). The cells were acquired using an LSRFortessa flow cytometer and FACSDiva software (BD). Data were analyzed using FlowJo software. At least 10,000 cells were acquired for each analysis, and each representative flow plot was repeated more than three times.
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