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186 protocols using il 15

1

Cytokine and HDAC Inhibitor Preparation

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Suberoylanilide hydroxamic acid (SAHA) (Sigma-Aldrich), prostratin (Sigma-Aldrich), romidepsin (Selleckchem), panobinostat (Selleckchem), and hexamethylene bisacetamide (HMBA) (Sigma-Aldrich) were dissolved in hybrimax DMSO (Sigma-Aldrich) at the indicated concentrations. IL-7, IL-15, and IL-2 were purchased from R&D Systems and dissolved in sterile PBS. IL-15SA was generated by dissolving IL-15 and IL-15Rα-Fc (R&D Systems) in sterile PBS and combining these in equimolar ratios. Stocks of the above reagents were flash-frozen in single-use aliquots in EtOH dry-ice baths. ALT-803 was obtained from Altor Bioscience Corporation and stored at 4°C.
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2

Evaluating NK Cell Proliferation and Cytotoxicity

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PBMCs collected from NGPB, GPB, NGBM or GBM were labelled with CellTrace CFSE Cell Proliferation Dye (Invitrogen) and placed in culture medium supplemented with IL‐15 (20 ng/mL; R&D Systems) for 7 days, followed by surface staining to test the proliferation of NK cells. Cytotoxicity of purified NK cells from NGPB, GPB, NGBM or GBM was tested by commercial cytotoxicity assays based on lactate dehydrogenase (LDH) detection according to the manufacturer's instructions (Cytotox 96; Promega, Madison, WI).33 Cytotoxicity of NK cells was examined using major histocompatibility complex (MHC) class I‐deficient human erythroleukaemia K562 cell line as targets, at effector‐target ratios ranging from 20:1 to 2.5:1. Meanwhile, PBMCs from NGPB, GPB, NGBM or GBM were also cultured in RPMI with 10% foetal calf serum and 1000 IU/mL interleukin 2 (IL‐2; Beijing Double‐Crane Pharmaceutical Co., Ltd) or IL15 (20 ng/mL; R&D Systems) for 10‐14 hours for both spontaneous, IL‐2‐stimulated or IL‐15‐stimulated NK cytotoxicity assays against K562 cell line at an effector‐to‐target ratio of 5:1 for 5 hours. GolgiStop (0.7 μL/mL) (BD Biosciences) were added after 1 hour. CD107a and IFN‐gamma production by NK cells was measured using the Pharmingen Intracellular Staining Kit (BD Pharmingen, San Diego, CA, USA).
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3

Generating HIV-1-specific T stem cell memory

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Autologous APCs were prepared from the PBMCs of HIV-1-infected individuals after the depletion of CD3+ T cells with human CD3 microbeads (Miltenyi Biotec, Bergisch Gladbach, Germany). Then, APCs were irradiated (10 Gy) and plated (5 × 106 cells/well) in 12-well cell culture plates (Costar™, Corning™, Corning, NY, USA). The irradiated APCs were incubated at 37°C in RPMI 1640 GlutaMAX™-I medium in the presence of SL9, IL9, and TL9 peptides (2 μM). CD8+CD45RA+CD45ROCCR7+CD62L+CD122CD95 naïve T cells (1 × 106) were cocultured with APCs in the presence of IL-21 or IL-15 (20 ng/ml; R&D Systems, Minneapolis, MN, USA). After 7 days, the cells were stimulated with anti-CD3 (2 μg/ml; BD Pharmingen, San Jose, CA, USA), anti-CD28 (1 μg/ml; BD Pharmingen, San Jose, CA, USA), and IL-21 or IL-15 (20 ng/ml, R&D Systems, Minneapolis, MN, USA). CD8+ TSCMs (CD8+CD45RA+CD45ROCD62L+CCR7+CD95+CD122+) were sorted by flow cytometry, from mixed cells (BD FACSAria™ II, BD Biosciences, San Jose, CA, USA). The data were analyzed with FlowJo® (FlowJo, Treestar Inc., San Carlos, CA). Antibodies used for flow cytometry are listed in Supplementary Table II.
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4

Isolation and Stimulation of Human NK Cells

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LRS chambers from eight healthy donors were obtained from Stanford Blood Bank. Available demographic information for this cohort is summarized in table S1 and was previously shown by Strauss-Albee et al. (24 ). Peripheral blood mononuclear cells were isolated using Ficoll-Paque density gradient centrifugation. Each experiment was performed as a single assay, as previously done with this and similar cohorts (24 ). NK cells were purified by magnetic activated cell sorting via negative selection (Miltenyi). NK cells were cultured with either IL-15 (2 ng/ml, PeproTech), IL-2 (300 U/ml, Novartis), a cocktail of IL-12 (10 ng/ml, eBioscience) + IL-15 (2 ng/ml, PeproTech) + IL-18 (50 ng/ml, R&D Systems), or left unstimulated for 2.5 days (unstimulated, IL-2, and IL-15: n= 8; IL-12/IL-15/IL-18: n=6).
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5

Murine and Human Cytokine Protocol

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Recombinant murine (rm) SCF, IL-1α, IL-3, IL-7, IL-15, FLT3-L, G-CSF, M-CSF, and GM-CSF and recombinant human (rh) SCF, IL-7, IL-15, FLT3-L, GM-CSF and TNFα were purchased from R&D Systems.
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6

Isolation and IL-15 Stimulation of BMMC

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Bone marrow mononuclear cells (BMMC) were isolated by density gradient centrifugation using Ficoll-Paque (GE Healthcare Bio-Sciences, Uppsala, Sweden). Cells (2 × 106/ml) were cultured in 24-well plates (Nunc, Roskilde, Denmark) in RPMI 1640 medium (Invitrogen, Paisley, UK) supplemented with 2 mM l-glutamine (Invitrogen), 10% heat-inactivated fetal calf serum (FCS) (Biochrom AG, Berlin, Germany), 100 U/ml penicillin, 100 μg/ml streptomycin (both antibiotics from Polfa Tarchomin, Warsaw, Poland), 30 μg/ml kanamycin (Sigma, St Louis, MO, USA) and 1 mM HEPES (Invitrogen) for 24 hours. For IL-15 stimulation, BMMC were cultured for an additional 72 hours in the presence of IL-15 (25 ng/ml) (R&D Systems).
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7

Assessing NK Cell Antiviral Activity in Respiratory Cell Models

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NK cells were added to monolayers of Vero or A549ACE2/TMPRSS2 cells, 24 or 48 h p.i. Co-cultures were maintained in LGM-3 medium (Lonza) supplemented with 5% v/v heat-inactivated human AB serum (Sigma), 500 U/ml IL-2 (STEMCELL Technologies), 140 U/ml IL-15 (R&D Systems), and penicillin-streptomycin solution (100 U/ml and 100 µg/ml, respectively) (PAN Biotech GmbH) for 24h. In the case of HAE cultures, NK cells in LGM-3 medium (Lonza) supplemented with 5% v/v heat-inactivated human AB serum (Sigma), 500 U/ml IL-2 (STEMCELL Technologies), 140 U/ml IL-15 (R&D Systems), and penicillin-streptomycin solution (100 U/ml and 100 µg/ml, respectively) (PAN Biotech GmbH) were added to the basolateral side of HAE and maintained for 72 h.
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8

ILC Development Coculture Assay

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OP9-DL1 or OP9 stromal cells were maintained in Minimum Essential Medium α (Lonza) supplemented with 10% FCS. Flow cytometry–purified CD8a int-ILCs or CD94+CD117, CD94CD117, and CD94CD117+ subpopulations (500 cells/well) or CD8a+ int-ILCs (100 cells/well) were cocultured with irradiated OP9 or OP9-DL1 stromal cells (1,500 rad, 5,000 cells/well) in a 96-well plate (Corning) and maintained in culture medium (IMDM supplemented with 10% human serum) or in culture medium containing 25 ng/ml SCF (Miltenyi Biotec), 25 ng/ml IL-7 (Peprotech), 10 U/ml IL-2 (Novartis), and 10 ng/ml IL-15 (R&D Systems) or only IL-15. The phenotype of generated progeny was determined by flow cytometry.
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9

Isolation and Stimulation of Naive B Cells

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Naïve IgM+IgD+ B cells were purified by negative selection using the EasySepTM human naive IgM+IgD+ B cell enrichment kit (19254; StemCell Technologies), following manufacturer’s instructions, from healthy subject PBMCs. IgD+ B cells were isolated from human tonsils by positive selection using biotin-anti-human IgD mAb (clone IA6-2; 348212, Biolegend) and MagniSort™ Streptavidin Positive Selection Beads (MSPB-6003-74, Thermo Fisher Scientific). Naïve IgM+IgD+ B cells were stimulated with CD154 (10 U/ml) or CpG ODN 2395 (1.0 μM; Custom synthesized by Eurofins Genomics) plus nil, IL-2 (20 ng/ml; BioLegend), IL-4 (20 ng/ml; R&D Systems), IL-15 and/or IL-21 (50 ng/ml; R&D Systems). Human B cells were cultured in FBS-RPMI at 37 °C in 48-well plates for 24, 48, 72, 96 and 120 h.
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10

Single-cell profiling of ARV-suppressed PBMCs

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Following in vitro treatment with IL-15 + DMSO (control), IL-15 + HODHBt (both from R&D Systems), or DMSO, PBMCs from 3 ARV-suppressed PWH were resuspended at a density of 1,000 cells/μL in PBS plus 0.04% bovine serum albumin on ice and loaded into the 10x Genomics Chromium Controller with a target capture of about 5,000 cells per condition/donor using the single-cell immune profiling 5′ chip and reagent/gel bead kits according to the manufacturer’s protocol. Barcoded sample libraries were quantified and pooled using Qubit fluorometric quantification (Thermo Fisher Scientific) and Bioanalyzer (Agilent). Libraries were sequenced on an Illumina NovaSeq in a 26 × 8 × 91 bp configuration.
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