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24 protocols using cd3 buv395

1

Flow Cytometry Immunophenotyping of PBMCs

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PBMCs were stained for 30 min at 4°C with antibodies to BUV395–CD3, BV510–CD8α, PE–cyanin 5 (Cy5)–CD45RA, PE–Cy7–CCR7 (all from BD Biosciences), and Pacific Blue–IL–7Rα (Biolegend,). Stained cells were washed with PBS, fixed for 20 min with 2% paraformaldehyde (Biolegend), and acquired (> ~3 × 105 cells) using an LSRII flow cytometer (BD Biosciences). Flow cytometric data were analyzed using FlowJo software (FlowJo, LLC,).
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2

Multiparametric Immunophenotyping of Human PBMCs

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Human PBMCs were stained with BV421-CD4 (BioLegend, OKT4, CAT# 304222, RRID: AB_2562134), PE/Cy7-CD25 (BioLegend, M-A251, CAT# 356108, RRID: AB_2561975), PE-CD45RA (BioLegend, HI100, CAT# 304108, RRID: AB_314412), PerCP/Cy5.5-CD45RO (BioLegend, UCHL1, CAT# 304222, RRID: AB_2174124), BUV395-CD3 (BD Biosciences, UCHT1, CAT# 563548, RRID: AB_2744387), APC-FOXP3 (Thermo Scientific, PCH101, CAT# 17-4776-42, RRID: AB_1603280), FITC-Ki67 (BD, B56, CAT# 556026, RRID: AB_396302). T cells activation with phorbol-12-myristate 13-acetate/ionomycin (PMA/iono) was performed according to the manufacturer’s protocol (BioLegend, CAT# 423301).
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3

Phenotyping Brain-Resident Immune Cells

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Following dissection, whole brains were mechanically homogenized and passed through a 100-μM sterile filter. Cells were treated with a CNS-Specific Percoll Isotonic solution (Percoll – Cytiva) to remove myelin. Brain cells were stained with BV421-CD4 (BioLegend, OKT4, CAT# 304222, RRID: AB_2562134), PE/Cy7-CD25 (BioLegend, M-A251, CAT# 356108, RRID: AB_2561975), PE-CD45RA (BioLegend, HI100, CAT# 304108, RRID: AB_314412), PerCP/Cy5.5-CD45RO (BioLegend, UCHL1, CAT# 304222, RRID: AB_2174124), BUV395-CD3 (BD Biosciences, UCHT1, CAT# 563548, RRID: AB_2744387), APC-FOXP3 (Thermo Scientific, PCH101, CAT# 17-4776-42, RRID: AB_1603280) and LIVE/DEAD Fixable Green Dead Cell Stain Kit (ThermoFisher Scientific, CAT# L23101P).
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4

Isolation and Characterization of CD4+ T Cells

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CD4+ cells were isolated from bulk PBMCs using the CD4+ T Cell Isolation Kit with MicroBeads for column-based magnetic activated cell sorting (MACS)(Miltenyi Biotech, CAT# 130-096-533). MACS was performed according to the manufacturers protocol. Cells were stained with PE/Cy7-CD25 (BioLegend, M-A251, CAT# 356108, RRID: AB_2561975), PE-CD45RA (BioLegend, HI100, CAT# 304108, RRID: AB_314412), PerCP/Cy5.5-CD45RO (BioLegend, UCHL1, CAT# 304222, RRID: AB_2174124), BUV395-CD3 (BD Biosciences, UCHT1, CAT# 563548, RRID: AB_2744387), and LIVE/DEAD Green Dead Cell Stain Kit (ThermoFisher Scientific, CAT# L23101). Pooled cells from all groups were used to generate the LIVE/DEAD single-color control, all fluorescence minus one (FMO) controls, and unstained controls. Ultracomp eBeads (ThermoFisher Scientific, CAT# 01-2222-41) were stained to generate single color controls. Analysis was performed using FlowJo (Version 10, RRID: SCR_008520). FACs gating strategy is detailed in Supplemental Figure 1.
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5

Influenza Vaccine-Induced T Cell Responses

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Between October and February during the 2020–2021 influenza season, peripheral blood samples were collected before vaccination and at a mean of 32 days (range: 27–64 days) after vaccination. Peripheral blood mononuclear cells (PBMCs) were prepared from blood on FicollPAQUE gradients. To identify the distribution of T cell subsets, the cells were stained with antibodies to BUV395-CD3, Alexa Fluor 700- or isotype antibodies. For intracellular cytokine staining, PBMCs were incubated for 6 hours with or without a combination of Quadrivalent Influenza Vaccine (Seqirus, Parkville, Australia) and anti-CD28/49d costimulatory antibodies (BD Biosciences) in the presence of Golgiplug (BD Biosciences). Incubated cells were stained with antibodies to BUV395-CD3 and Alexa Fluor 700-CD4 (all from BD Biosciences). Cells were fixed and permeabilized using Foxp3/transcription factor staining buffer set according to the manufacturer’s protocol (Invitrogen, Waltham, MA) and stained with antibodies to APC-Cy7- IFN-γ and APC-TNF-α (Biolegend, San Diego, CA). Cells were analyzed using an LSRII® flow cytometer (BD Biosciences) and FlowJo software (Tree Star, Ashland, OR).
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6

Characterization of Murine Lymphoid Cells

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Draining s.c. LNs (axillary and popliteal) and the spleen were isolated from mice. Spleens were first mashed into a single cell suspension with plain DMEM media (Gibco 11966025), filtered through 70 μM cell strainers, and lysed with ACK lysis buffer (Gibco A1049201). LNs were digested with 1 mg/mL Ca2+ supplemented Collagenase D (Roche 11088866001) for 45 min at 37°C and gently mashed into a single cell suspension, also with DMEM and through 70 μM cell strainers. The cells were resuspended in IMDM media (Gibco 12440053), supplemented with 10% FBS and 1% Penicillin-Streptomycin (Gibco 15140122), and counted using a LUNA automated fluorescent cell counter (Logos biosystems). Cells were seeded at a count of 1x106 - 3x106 per well in 96-well round-bottom plates for subsequent antibody staining for flow cytometry. Antibodies against the following markers were used: CD3 – BUV395 (BD Biosciences 563565), CD8-BUV737 (BD Biosciences 612759), CD4 – BUV496 (BD Biosciences 612952), Foxp3 – FITC (BD Biosciences 560403), CD25 – BV605 (BioLegend 120235), ST2 – BV421 (BD Biosciences 566309), Lag3 – PerCP-Cy5.5 (BD Biosciences 564673), CTLA4 – PE-Cy7 (eBioScience 17-1522-82), IFNγ – APC (BioLegend 505810), TNFα – BV605 (BioLegend 506329), IL-2 – FITC (BioLegend 503806), IL-10 – APC-Cy7 (BioLegend 505036), PD-1 – BV711 (BioLegend 135231), Tim3 – PE (BD Biosciences 566346).
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7

Multicolor Flow Cytometry Panel for T-Cell and Macrophage Immunophenotyping

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For staining T-cells and M1 & M2 cells, 100 µl (approx. one million cells) of PBMCs suspended in PBS were stained for T cells by adding titrated volume of BD Horizon™ surface antibodies i.e., CD3-BUV395 (Cat. 564001), CD4-BV510 (Cat. 562970), CD8-BV605 (Cat. 564116), CD45RA-BB515 (Cat. 564552), CD45RO-APC (Cat. 559865), CD197-BB700 (Cat. 566437), CD16-PE (Cat. 555407), CD56-PE (Cat. 555516), CD19-AF700 (Cat. 566946), and for M1 and M2 cells, CD68-APC (Cat. 562111), CD80-PE (Cat. 557227), CD86-BV510 (Cat. 563461), CD163-BV421 (Cat. 562643), CD206-BB515 (Cat. 564668), to each sample tube and incubated in dark for 15–30 min at room temperature. Following incubation, cells were washed thrice with 2 ml sheath fluid by spinning at 200–300 g for 3–5 min. Finally washed pellet was re-suspended in 500 µl of sheath. 50,000 cells were acquired using BD LSR Fortessa flow cytometer.
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8

Comprehensive B and T Cell Profiling

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Donor PBMCs was stained with live-dead marker (1:1000; Invitrogen, LIVE/DEAD™ Fixable Near-IR Dead Cell Stain Kit) to gate out the dead cells for 20 min in 4 °C. After washing with FACS buffer, the cells were stained with respective B, T cell marker panel antibodies diluted in FACS buffer (1xPBS, 2% FBS, 0.1% sodium azide) at 4 °C for 30 min. B cell panel: CD19-BV510 (1:40; Biolegend, Cat. No. 363020), CD14-APC-Cy7 (1:50; BD, Cat. No. 557831), CD3-APC-Cy7 (1:125; Biolegend, Cat. No. 317342), CD10-PE-Dazzle594 (1:50; Biolegend, Cat. No. 312228), CD21-APC (1:50; Biolegend, Cat. No. 354906), CD27-BV650 (1:40; Biolegend, Cat. No. 302828), CD38-PE-Cy7 (1:40; Biolegend, Cat. No. 356608), PD-1-BV711 (1:20; Biolegend, Cat. No. 329928), IgD-BUV 737 (1:40; BD, Cat. No. 612798), IgG-PerCP (1:40; BD), IgA-PE (1:40; Miltenyi, Cat. No. 130-114-002). T cell panel: CD14-APC-Cy7 (1:50; BD, Cat. No. 557831), CD19-APC-Cy7 (1:50; BD, Cat. No. 557791), CD3-BUV395 (1:40; BD, Cat. No. 563546), CD4-BUV496 (1:40; BD, Cat. No. 612936), CD8-PE (1:40; BD, Cat. No. 555367), CXCR5-PE-Cy7 (1:100; BD, Cat. No. 624052), CD25-BV421 (1:40; BD, Cat. No. 562442), CD127-FITC (1:20; BD, Cat. No. 557938). The samples were then washed, resuspended in FACS buffer and analysed on BD LSRFortessa flow cytometer (Data availability—Figshare 10.6084/m9.figshare.23549964).
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9

Comprehensive T-cell Immunophenotyping Protocol

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Flow cytometry antibodies used for surface marker staining are listed as follows. Antibodies from BD Biosciences include: CD3‐BUV395 (Clone UCHT1; cat #563 546), CD4‐BV786 (Clone SK3; cat #563 877) and CD8‐PE‐Cy7 (Clone SK1; cat #335 787). Antibodies from Biolegend include: CD3‐FITC (Clone UCHT1; cat #300 406), CCR7‐PE (Clone G043H7; cat #353 204), CD45RA‐APC (Clone HI100; cat #304 112), CD45RO‐Pacific Blue (Clone UCHL1; cat #304 215),CD27‐Pacific Blue (Clone M‐T271; cat #356 413), CD28‐FITC (Clone CD28.2; cat #302 906), CD28‐PE (Clone CD28.2; cat #302 907), CD95‐FITC (Clone DX2; cat #305 605), CD127‐Brilliant Violet 785 (Clone A019D5; cat #351 329), TIM‐3‐Pacific Blue (Clone F38‐2E2; cat #345 041), CD57‐FITC (Clone HNK‐1; cat #359 603), LAG‐3‐Brilliant Violet 785 (Clone 11C3C65; cat #369 321) and human TruStain FcX reagent (Cat #422 302). Antibodies for intracellular staining include granzyme B‐PE (BD Biosciences, GB11; cat #561 142), IFN‐γ‐FITC (Miltenyi Biotec, cat #130‐090‐433), IL‐2‐PE (Miltenyi Biotec, cat #130‐090‐487) and TNF‐α‐APC (Miltenyi Biotec, cat #130‐091‐267).
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10

Comprehensive Immune Cell Analysis

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The following antibodies were used for flow cytometry analysis: CD45-FITC (Cat. # 553079; BD Biosciences), CD3-BUV395 (Cat. # 563565; BD Biosciences), CD4-BUV737 (Cat. # 612761; BD Biosciences), CD8-Percp-Cy5.5 (Cat. # 45-0081-82; eBioscience), CD44-BV711 (Cat. # 103057; Biolegend), CD335-PE/Dazzle594 (Cat. #137630; Biolegend), PD-1-PE (Cat. # 551892; BD Biosciences), Ki67*-BV605 (Cat. # 652413; Biolegend), Granzyme B*-APC (Cat. # 366408; Biolegend), IFN-γ*-BV421 (Cat. # 563376; BD Biosciences), CD11b-PE-Cy7 (Cat. # 101216; Biolegend), F4/80-BV510 (Cat. # 123135; Biolegend), CD206-AF700 (Cat. # 141734; Biolegend), I-A/I-E-BV786 (Cat. # 743875; BD Biosciences), and L/D-efluor780 (Cat. # 65-0865-18; eBioscience).
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