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342 protocols using aria 3

1

Flow Cytometry of Cell Populations

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Primary conjugated antibody (or isotype control) was added into each sample and incubated for an hour at 4°C. Cells were then stained with propidium iodide for 10 minutes (PI, Life Technologies). BD FACSCantoII and BD AriaIII were used to analyze the expression of markers and for cell sorting, respectively. The antibodies used in this study and its dilution condition was shown in Supplementary Table S1. Side Population was analyzed using flow cytometry. The cells were detached from the dishes with Trypsin- EDTA (Invitrogen) and suspended at 1 × 106 cells/mL in PBS solution supplemented with 3% fetal calf serum. These cells were then incubated at 37°C for 90 minutes with 20 g/mL Hoechst 33342 (Sigma), either alone or in the presence of 50 mol/L verapamil (Sigma). After incubation, 1 g/mL propidium iodide (BD Pharmingen, San Diego, CA) was added and then filtered through a 40 μm cell strainer (BD Falcon) to obtain single-suspension cells. Cell analysis was performed using BD AriaIII.
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2

Generating EGFP-expressing human ES cells

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H1 human ES cells were cultured and passed as previously described (Chen et al., 2011 (link)). Cells were maintained in E8 medium (Thermo Fisher Scientific, USA), on matrigel-coated tissue culture plates and split with EDTA. EGFP-positive cells were derived by electroporation of a pUC plasmid encoding the EGFP gene driven by the EF1α promoter. EGFP-expressing clones were generated by sorting single cells into 96-well plates by FACS on a BD Aria III (Becton Dickinson, USA). Clones resistant to gene silencing during differentiation and karyotypically normal (WiCell, WI, USA) were selected for experiments going forward.
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3

Multiparameter Flow Cytometry Analysis

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The following antibodies were used: anti-CD4, CD8α, CD19, CD45.2, CD95, CD138, B220, I-A/I-E, TCRβ, Thy1.2, GL7 (Biolegend, San Diego, CA); and anti-FoxP3 (eBioscience, San Diego, CA). For intracellular FoxP3 staining, we used a fixation/permeabilization kit according to the manufacturer’s instructions (eBioscience). Dead cell exclusion was performed though the addition of DAPI or Ghost Violet (Tonbo Biosciences, San Diego, CA). Samples were evaluated on a BD Fortessa analyzer. In selected cases, sorting was performed on BD Aria III (Becton Dickinson, San Jose, CA). Flow cytometry files were analyzed using FlowJo (TreeStar, Ashland, OR).
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4

Plasmid Construction for Gene Expression

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The Hsp70 and RB1 promoters were cloned by PCR from the genome of PC12 cells, extracted with a Genomic DNA Kit (Tiangen Biotech., China). The plasmids Hsp70-pro(ΔpolyA+) and Hsp70-pro(ΔpolyA) were constructed by replacing the CMV promoters of pEGFP-N1 and pEGFP-N1 (ΔpolyA) with the Hsp70 promoter, using the restriction endonucleases AseI and EcoRI. The Hsp70 and RB1 ORFs were cloned from PC12 cDNA obtained by RT-PCR. The Hsp70 and RB1 ORFs were inserted into Hsp70-pro(ΔpolyA+) using BamHI to generate the Hsp70-pro-Hsp70(ΔpolyA+) and Hsp70-pro-Rb(ΔpolyA+) plasmids. RB1-pro(ΔpolyA+), RB1-pro(ΔpolyA), RB1-pro-Hsp70(ΔpolyA+), RB1-pro-Rb(ΔpolyA+) and RB1-pro-Hsp70(ΔpolyA) were constructed in a similar way. Cloning primers were as follows: Hsp70 promoter sense: 5′-TGGGAGAGGAGAGTGTGTCG-3′, antisense: 5′- GGGCGGAGAAGATCTCGAAG-3′; RB1 promoter sense: 5′-TCTTTGTAGCTGGACCTGGGCCT-3′; antisense: 5′-GGGAGCCAGCGAGCTGTGGAG-3′; Hsp70 ORF sense: 5′-ATGTCGGTGGTGGGCATAGAC-3′; antisense: 5′-ATCAATGTCCATCTCAGGAAGC-3′; RB1 ORF sense: 5′-ATGCCGCCCAAAACCCCCCGAAAAACGGCC-3′; antisense: 5′-AGCATGGATACCTCAAACAAGGAAGAGAAA-3′12 (link). 293T cells were transfected with all types of plasmids and sorted using a BD AriaIII (Becton Dickinson, USA).
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5

Transduction of Regulatory T Cells with Retroviral Vector

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The pMSCV Exp-mCcr4 NM_009916.2 (ns): P2A: EGFP (Vector ID: VB230314-1872tcs) vector was designed and created using VectorBuilder, Inc. (Guangzhou, China). The vector was then packaged into a recombinant MSCV retrovirus using VectorBuilder, Inc. (Guangzhou, China).
The general procedure for Treg cells was transduced as previously described24 (link). Transduction media was prepared with RPMI media with 100 mM HEPES and 10 μg/mL polybrene. We carefully pipetted 100 μL of the virus stock into each well containing 1 mL of the transduction media. The culture was spinoculated at 1,200 g for 90 min at 32 °C. Cells were incubated under standard culture conditions for 4 h, followed by a media change. Treg cells were sorted on days 5 or 6 using a BD Aria III (Becton Dickinson Company, Franklin Lakes, New Jersey).
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Multicolor Flow Cytometry Immunophenotyping

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Cellular phenotyping and sorting were performed on a BD ARIAIII cell sorter (Becton Dickinson, San Jose, CA, USA). The following fluorochrome-labelled mAbs conjugated to FITC, PE, PeCy7, PerCPCy5.5, APC, APC-Cy7, Brilliant Violet 510, Brilliant Violet 605, Pacific Blue and Alexa700 or appropriate isotype controls were used for cell surface staining: CD11b, CD11c, CD45 (clone 30-F1), CD86, CD103, CD140a (clone APA5), CD274 (PD-L1), MHC-class II (I-Ab), GR-1, F4/80, NK1.1, SCA-1 (clone D7), Siglec-F (BD Biosciences, Germany), TER119 and 120G8 (Dendritics, France). The surface staining time was 30 min on ice and cells were washed with staining buffer (1× HBSS, PAA, Germany) at 400 g for 5 min at room temperature (RT) before analysis. The number of acquired events was ≥ 500,000.
The viability of sorted cells was >90 % as indicated by Sytox blue (Life Technologies, Germany) staining. All mAbs were ordered from Biolegend, Germany unless indicated otherwise. Absolute cell counts were determined with AccuCount Fluorescent Particles 7.7 μm (Spherotech, Lake Forest, USA).
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7

Isolation and Characterization of Naive T Cells

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After thawing, PBMCs were stained with CCR7 BV650 (Clone 3D12; BD Biosciences), CD95 FITC (Clone DX2; BD Biosciences), CD27 PE (Clone M-T271; BD Biosciences), CD8 APC (Clone RPA-T8; BD Biosciences), CD4 APC-Cy7 (Clone RPA-T4; BD Biosciences), CD45RA ECD (Clone IM271111; Beckman Coulter), CD57 PB (Clone HCD57; Biolegend), CD49d PeCY7 (Clone 9F10; Biolegend), and eFluor 506 for viability (Biolegend). Naive CD4+ and CD8+ T cells, defined as CD45RA+, CD27+ CCR7+, CD95, CD49d, were sorted on an ARIAIII (Becton Dickinson). DNA and RNA from sorted cells were extracted using AllPrep DNA/RNA Micro kit (Qiagen) according to manufacturer instruction.
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8

Detailed Multicolor Flow Cytometry Panel

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Cell labeling was performed on ice in 1X PBS with 5 mM EDTA and 2% serum. Samples were analyzed for donor chimerism (detectable by CD45.1 or GFP) on an LSRII or AriaIII (Becton Dickinson, San Jose, CA), as described previously [16 (link),17 (link),24 (link),27 (link),29 (link)–32 (link)]. BM HSC and multi-potent progenitor (MPP) populations and BM stromal populations were stained as previously described [16 (link),17 (link)]. Briefly, the steady state populations are characterized as peripheral blood (PB) HSCs: Lin-/CD27+/cKit+/Sca1+/Flk2- [33 (link)], PB MPP: Lin-/CD27+/cKit+/Sca1+/Flk2+, BM HSC: Lin-/cKit+/Sca1+/Flk2-/CD34-, BM MPP: Lin-/cKit+/Sca1+/Flk2+/CD34+, Total VEC: CD45-/Ter119-/CD31+/Sca1+, Sinusoidal VEC (SECs): CD45-/Ter119-/CD31+/Sca1mid/Tie2+; MSC: CD45-/Ter119-/CD31-/Sca1+/CD51+ and OBL: CD45-/Ter119-/CD31-/Sca1-/CD51+. All antibodies were purchased from Biolegend, eBioscience, or BD Pharmingen.
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9

Cell Cycle Analysis by Flow Cytometry

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Cells collected for cell cycle analysis were washed with PBS, and fixed with ice cold 70% EtOH (ethanol). Suspended cells were stored at 4°C, no longer than one week. Prior to flow cytometry analysis ethanol was removed and cells were suspended in 50 µL of fresh PBS solution. In next step RNase digestion (100 ng/mL) were performed at room temperature for 20 min. Next propidi-um iodide (PI) staining (100 ng/mL, Sigma-Aldrich) was prepared in dark environment, 15 min before assessment by flow cytometry. Fluorescence was measured directly on a flow cytometer (Becton Dickinson ARIA III) using the PE (phycoerythrin) configuration (488 nm laser line, LP mirror 566, BP filter 585/42).
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10

Vaspin-Induced Apoptosis Profiling

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Cells exposed to vaspin for 24 h were washed and collected by trypsinization. Cells were centrifuged (0.4 rcf, 3 min) and stained according to the Annexin-V apoptosis assay (Boncel et al., 2017). Cell pellets were dissolved in 50 μl cold Annexin-V labeling buffer and then 2.5 μl of FITC-labeled Annexin-V antibody was added (BioLegend) followed by 10 μl of propidium iodide (PI) solution (100 μg/ml; Sigma). After 20 min in darkness, 250 μl of Annexin-V labeling buffer was added and the samples were incubated on ice and in the dark for 15 min. Flow cytometric analysis (Aria III, Becton Dickinson) using the FITC configuration (488 nm excitation; emission: LP mirror 503, BP filter 530/30) and the PE configuration (547 nm excitation; emission: 585 nm) was performed immediately and at least 10,000 cells were counted. Cells were classified as necrotic (PI positive and Annexin-V negative; late apoptotic (PI positive and Annexin-V positive); early apoptotic (PI negative and Annexin-V positive); or normal (PI negative and Annexin-V negative) [11 (link)].
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