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27 protocols using wash buffer

1

Macrophage Phenotyping and Peptide Binding

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To identify each macrophage phenotype, THP-1 cells were seeded at a density of 8 × 105 cells/well in a 6-well plate and polarized into M0, M1, and M2 macrophages using the aforementioned methods. The cells were washed with phosphate-buffered saline (PBS) and harvested using trypsin-EDTA. The cells were washed using wash buffer (BD Biosciences, San Jose, CA, USA) and stained with antibodies. The following antibodies were purchased from BD Bioscience: human CD86-PE-Cy7 and CD163-APC.
To test peptide affinity, THP-1 cells were seeded at a density of 5 × 106 cells/well in 6-well plates. The cells were polarized as described above. After incubation, cells were washed with PBS and harvested using trypsin-EDTA. The cells were further washed with a wash buffer (BD Biosciences) and stained with 100 nM FITC-conjugated melittin or melittin fragments (Genscript) for 1 h at 4 °C. The cells were washed three times with the wash buffer. All data were analyzed using the FACSLyric system (BD Biosciences) and FlowJo software (Tree star, San Carlos, CA, USA).
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2

Multicolor Flow Cytometry for T-Cell Enumeration

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CD4 and CD8 T Lymphocyte counts were performed using a FacsCalibur (FASCalibur, BD, Biosciences, San Jose, CA, USA). Whole blood was stained using a lyse/wash immunophenotyping procedure. One hundred microliter of peripheral whole blood was added into a polystyrene tube containing 20 μL of a monoclonal antibody cocktail of anti-CD3 Fluorescein isothiocyanate (FITC), anti-CD8 Phycoerythrin (PE), anti-CD45 Peridinin chlorophyll protein coupled to the cyanine dye Cy™ 5.5 (PercCp-Cy5.5) and anti-CD4 allophycocyanin (APC). Cells and antibodies were then incubated in dark for 15 min at room temperature. Thereafter, 2 mL of lysis buffer (BD Biosciences, San Jose, CA, USA) was added to the cells and kept for 10 min in dark at room temperature to allow red cell lyses.
Cells were then washed twice with 2 mL of BD Wash Buffer (Becton Dickinson) and re-suspended in 200 μL of BD Wash Buffer for acquisition with a four-color flow cytometer (FASCalibur, BD Biosciences, San Jose, CA, USA). Data were later analyzed with FlowJo software (Tree Star inc. Ashland, Oregon, USA).
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3

Multicolor Flow Cytometry for T-Cell Enumeration

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CD4 and CD8 T Lymphocyte counts were performed using a FacsCalibur (FASCalibur, BD, Biosciences, San Jose, CA, USA). Whole blood was stained using a lyse/wash immunophenotyping procedure. One hundred microliter of peripheral whole blood was added into a polystyrene tube containing 20 μL of a monoclonal antibody cocktail of anti-CD3 Fluorescein isothiocyanate (FITC), anti-CD8 Phycoerythrin (PE), anti-CD45 Peridinin chlorophyll protein coupled to the cyanine dye Cy™ 5.5 (PercCp-Cy5.5) and anti-CD4 allophycocyanin (APC). Cells and antibodies were then incubated in dark for 15 min at room temperature. Thereafter, 2 mL of lysis buffer (BD Biosciences, San Jose, CA, USA) was added to the cells and kept for 10 min in dark at room temperature to allow red cell lyses.
Cells were then washed twice with 2 mL of BD Wash Buffer (Becton Dickinson) and re-suspended in 200 μL of BD Wash Buffer for acquisition with a four-color flow cytometer (FASCalibur, BD Biosciences, San Jose, CA, USA). Data were later analyzed with FlowJo software (Tree Star inc. Ashland, Oregon, USA).
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4

Cytometric Bead Array for Cytokine Profiling

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Cytometric bead arrays (CBAs, BD Bioscience, Heidelberg, Germany) allow for the simultaneous measurement of up to 30 species-specific (in our study only human-specific) mixed cytokines in sample volumes as low as 50 µL [20 (link),21 (link)]. The results obtained using cytometric-based multiplex bead arrays are comparable to ELISA results [20 (link),45 (link)], and CBAs have been validated on dual-laser flow cytometry platforms, such as the FACSCanto [46 (link)].
For standard curves, lyophilized, human-specific, standardized recombinant cytokines were diluted to 5000 pg/mL with BD assay diluents (BD Bioscience), and were subsequently further diluted 1:1 to 5 pg/mL. For each concentration on the standard curve, 50 µL of the dialysates obtained from the recovery experiments or the initial cytokine solution were incubated with a mixture comprising six human cytokine-specific capture beads (BD Bioscience) for 1 h at room temperature. This assay was followed by incubation with a mixture of six human cytokine-specific detection reagents (BD Bioscience) for 2 h at room temperature in the dark. The beads were washed with wash buffer (BD Bioscience) and centrifuged at 200× g for 5 min. The bead pellets were resuspended in wash buffer and were measured with a FACSCanto dual-laser flow cytometer (BD Bioscience) at 488 nm and 633 nm.
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5

Multimarker Phenotyping and Tracking of MSCs

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CD29, CD90, CD105, and CD34 MSC markers were quantified using flow cytometric analysis. Florescent Activated cell sorting (FACS) analysis was used. After brief centrifugation, cells were resuspended in a wash buffer (BD Biosciences, Germany). A total of 300 ml of cell suspension was incubated with antibodies against CD29, CD105, CD34, and CD90 conjugated with Allophycocyanin (APC), Cyanine 5 (CY5), Phycoerythrin (PE), and Fluorescein isothiocyanate (FITC) dyes for 45 min at room temperature. Flow cytometry was performed on a FACS Calibur (BD Biosciences, Germany), and Cell Quest software was used for analysis. Cells are identified by flow cytometry, which was positive for CD29, CD90&CD105, and negative for CD34 (Figure 1).
MSCs cells were harvested and labeled with PKH26 fluorescent linker dye (Elberry et al., 2016 (link)).
The remaining thirty animals were divided into five groups (six rats/group):
Cognitive and behavioral tests were performed twice (at the start of the work and the end of the work before euthanasia during the light phase of the light–dark cycles). Blood samples were collected (from orbital sinuses) to measure the serum fasting blood glucose level and insulin level. After the euthanasia, the brains were extracted for biochemical and histological evaluation of the hippocampus.
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6

Surface and Intracellular Staining Protocol

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For surface staining, 0.5 × 106 cells were incubated with a cocktail of surface antibodies, FC-block (BD Biosciences), and Aqua Fixable viability dye at room temperature (RT) for 20 min. The list of antibodies is provided in Table S2. After washing, cells were fixed and permeabilized with Fixation and Permeabilization Buffers (BD Biosciences) for 15 min at RT, washed twice with wash buffer (BD Biosciences), and incubated with a cocktail of intracellular antibody at RT for 30 min. Cells were run on either BD FACSymphony (BD Biosciences) or BD LSRII (BD Biosciences), and data were analyzed by FlowJo (Tristar).
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7

Quantification of hiPSC-CM Apoptosis

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The rate of apoptosis was examined via flow cytometry analysis (BD, USA) using an AnnexinV/PI Apoptosis Detection Kit (BD, USA) according to the manufacturer's instructions. hiPSC-CMs were first collected on day 30 of differentiation, dissociated employing CardioEasy cardiomyocyte dissociation enzyme (Cellapy, China), filtered softly through a 40-µm cell strainer and fixed with fixation buffer (BD, USA) for 15 min. Fixed cardiomyocytes were next washed with Wash buffer (BD, USA) and incubated with primary antibodies against cTnT (1:100; Santa Cruz Biotechnology) for 30 min at room temperature. The cardiomyocytes were then incubated with a Alexa Fluor 488-conjugated anti-mouse secondary antibody (1:100; Invitrogen) for 30 min. The cardiomyocytes were finally washed and measured via FACS analysis. The analysis was completed by the FlowJo program.
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8

Multiparametric Flow Cytometry Analysis

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Expression of surface molecules was analyzed using the BD LSRFortessa (BD Biosciences, CA, USA) or the CYTEK Aurora (Cytek Biosciences, CA, United States). Data analysis followed the workflow in FlowJo (Tree Star, OR, United States). Cells were stained with diluted antibodies, and Zombie NIR (#423106, BioLegend) was used to distinguish live/dead cells. Staining was performed in wash buffer (BD Biosciences) for 30 min at 4 οC. For multiparametric assays, after exclusion of dead cell by Zombie NIR staining, memory T cells were gated based on expression of CD45RA and CCR7. Using FlowJo software, dimensionality reduction was performed applying uniform manifold approximation and projection (UMAP). FlowJo plugin Phenograph was used for the identification of unique cell populations (cluster) on the resulting UMAP map. Quantified frequencies of each cluster are presented as pie charts. To evaluate intracellular cytokine production, cells were treated with Cell Activation Cocktail (#423301, BioLegend) for 6 h, permeabilized using the BD Cytofix/Cytoperm Kit (#554714, BD Biosciences), stained with specific antibodies, and analyzed by flow cytometry. GolgiStop (#554724, BD Biosciences) was added at the same time to inhibit protein release to the extracellular space. The antibodies used in flow cytometry experiments are listed in Table S3.
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9

Multiplex Protein Quantification Assay

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The capture beads supplied with the kit for the proteins of interest (CBA Flex set numbers; IL-6, 558276; IL-8, 558277; sVCAM-1, 560427; MCP-1, 558287) were vortexed for 15 seconds and diluted 1:100 in bead diluent to make up the bead cocktail. 25μL of the bead cocktail was added to 25μL of sample/standard in a 96-well plate. The plate was mixed on a shaker at 500rpm for 5 minutes before incubating for 1 hour at room temperature. The detector cocktail was prepared in the same way as the bead cocktail, substituting the capture beads for detector antibodies (as per the BD manufacturer’s protocol) and the bead diluent for detector diluent. 25μL of the detector cocktail was then added to the wells and the plate mixed as before and left to incubate at room temperature for 2 hours. After incubation was complete 200μL of wash buffer (BD Biosciences) was added to each well and the plate centrifuged at 1300rpm for 10 minutes at room temperature. The supernatant was discarded and the beads re-suspended in 50μL of wash buffer before being transferred into a tube for analysis.
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10

Multiparametric Immunophenotyping of Cell Subsets

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Cells were incubated with Human TruStainFcX (BioLegend, USA) for 30 min to block the Fc receptors and subsequently stained with CD45-Pacific Blue, CD14-APC, and CD11c-FITC (BioLegend) for 30 min at 4°C. After washing with PBS three times, the cells were incubated with Cytofix/Cytoperm (BD Biosciences) for 20 min at 4°C. After washing with wash buffer (BD Biosciences) three times, the cells were incubated with specific antibodies against MNSFβ for 30 min at 4°C. Then, the cells were incubated with Cyanine Cy™5-conjugated secondary antibodies (Jackson, USA) for 30 min at 4°C. Approximately 100,000 cells were detected using FACS (BD, USA), and the data were analyzed with FlowJo V10.2.
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