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54 protocols using propidium iodide solution

1

Apoptosis and Cell Cycle Analysis of Transfected Cells

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At 72 h post-transfection, 1 × 106 transfected cells were washed 2 times with cold BioLegend cell staining buffer (420201, BioLegend, San Diego, CA, USA) and resuspended in 100 µL of Annexin V Binding buffer (42220, BioLegend). The whole suspension was then treated with 5 µL of APC Annexin V (640920, BioLegend) and 10 µL of Propidium Iodide solution (421301, BioLegend) and incubated in the dark for 15 min. After that, 400 µL of Annexin V Binding buffer (42220, BioLegend) was added, and the apoptotic cells were measured by BD FACSCalibur™ Flow Cytometer (BD Biosciences, San Jose, CA, USA).
For cell cycle progression, 1 × 106 transfected cells were washed 1 time with cold PBS. Then, 1 mL of cold 70% ethanol was added dropwise to the cell pellet and fixed at 4 °C for 30 min. After that, the fixed cells were collected and resuspended in 1 mL of PBS. The fixed cells were then treated with 50 µL of 100 µg/mL RNase A (Thermo Scientific, Boston, MA, USA), 425 µL of cell staining buffer (420201, BioLegend), and 25 µL of Propidium Iodide solution (421301, BioLegend). Finally, cell cycle profile analysis was measured by using BD FACSCalibur™ Flow Cytometer (BD Biosciences).
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2

Cardiac Cells and Immune Landscape

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Two platforms were used to elucidate the transcriptional changes and cellular landscape of CMs and cardiac immune cells. The hearts collected from mice of different groups were subjected to Langendorff retrograde perfusion by sequential calcium-free solution and enzymatic digestion (0.03 g BSA and 0.03 g collagenase dissolved in 45 mL of Ca2+-free solution). The tissue was blown, filtered, and centrifuged (100× g for 3 min) to obtain a single-cell suspension of CMs. To obtain additional immune cells, five hearts from each group were cut in isotonic PBS (supplemented with 0.5% BSA) and digested with collagenase 4 (Worthington, Cat#: Ls004188) for 45 min at 37 °C. After filtering and red blood cell lysis, the cell suspension was labeled with 1 µL/100 uL CD45-BV421 antibody (BioLegend, Cat#: 103134) and propidium iodide solution (BioLegend, Cat#: 421301) and subjected to fluorescence-activated cell sorting to acquire PI-CD45+ live immune cells. Peripheral immune cells were obtained at different time points by collecting blood from the angular veins of FM mice. The cells were labeled with 1 µL/100 µL of CD45-BV421 antibody (BioLegend, Cat#: 103134) and propidium iodide solution (BioLegend, Cat# 421301) and subjected to fluorescence-activated cell sorting after red blood cell lysis.
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3

Multifunctional Polymer-Based Drug Delivery

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Sodium alginate and gelatin were purchased from Sigma–Aldrich (St. Louis, MO, USA). Dopamine hydrochloride (DA, 98%) and Tris(hydroxymethyl) aminomethane (extra pure, 99.5%) were obtained from J&K scientific Ltd. (Shanghai, China). Methacrylic acid copolymer type C (Eudragit L100-55, MAC) was from yingdemaofeng pharmaceuticals Co. Ltd. (Guangdong, China). Polycaprolactone (PCL), 1-Hydroxybenzotriazole (HOBT), and dimethylformamide (DMF) were purchased from Macklin Chemical Reagent Co. Ltd. (Shanghai, China). Doxorubicin hydrochloride (DOX·HCl), paclitaxel (PTX), and 1-Ethyl-3-(3-dimethlaminopropyl)-carbodiimide hydrochloride (EDCI) were obtained from Aladdin Chemical Reagent Co. Ltd. (Shanghai, China). Dulbecco’s modified Eagle medium (DMEM), penicillin, Trypsin-EDTA solution, and sterilized fetal bovine serum (FBS) were purchased from Solarbio (Beijing, China). Propidium iodide solution was purchased from BioLegend (San Diego, CA, USA). Mouse breast cancer (4T1) cells were obtained from Cyagen (Shanghai, China). Cell Counting kit-8 was obtained from ZomanBio (Beijing, China).
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4

Comprehensive Immune Profiling Protocol

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ViaStain AO/PI Staining Solution (catalog#CS2-0106) was purchased from Nexcelom. Propidium Iodide Solution (catalog#421301) was purchased from BioLegend. CellTrace CFSE Cell Proliferation Kit (catalog#C34554) was purchased from ThermoFisher. LIVE/DEAD Fixable Blue Dead Cell Stain Kit (catalog#L23105) was purchased from ThermoFisher. Anti-mouse CD73 antibody (clone: TY/23, catalog#BE0209), Anti-mouse B7H3 antibody (clone: MJ18, catalog#BE0124), anti-mouse PD-1 antibody (clone: RMP1-14, catalog#BE0146), anti-mouse CTLA-4 antibody (clone: UC10-4F10-11, catalog#BE0032), anti-mouse TIM-3 antibody (clone: RMT3-23, catalog#BE0115), anti-mouse TIGIT antibody (clone: 1G9, catalog#BE0274), anti-mouse LAG-3 antibody (clone: C9B7W, catalog#BE0174), anti-mouse GITR antibody (clone: DTA-1, catalog#BE0063), anti-mouse OX-40 antibody (clone: OX-86, catalog#BE0031), anti-mouse 401BB antibody (clone: LOB12.3, catalog#BE0169), anti-mouse NK1.1 antibody (clone: PK136, catalog#BE0036), anti-mouse CD4 antibody (clone: GK1.5, catalog#BE0003-1), and anti-mouse CD8 antibody (clone: 2.43, catalog#BE0061) were purchased from BioXcell. Anti-human PD-1 (Nivolumab, catalog#A2002) was purchased from Selleckchem. Anti-human CD73 (clone: AD2, catalog#344002) was purchased from BioLegend.
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5

Apoptosis Assay with Rigosertib using Flow Cytometry

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Cells were treated for 3 days with 100 nM rigosertib or DMSO in standard cell culture medium. Subsequently, cells were washed twice with cold cell staining-buffer (BioLegend, cat# 420401) and resuspended in Annexin V binding buffer (BioLegend, cat# 422201) at a concentration of 1 × 106cells/mL. Aliquots of 50 µL of the cell suspension were transferred to test tubes and 2.5 µL of Annexin V Alexa Fluor 647 (BioLegend, cat# 640943) and 5 µL of propidium iodide solution (BioLegend, cat# 421301) were added. Cells were gently vortexed and incubated for 15 min at RT in the dark. Finally, 200 µL of Annexin V binding buffer (BioLegend, cat# 422201) was added to each sample and cells were analysed on a BD LSR Fortessa Cell analyser (BD Biosciences) using the BD FACS Diva Software (BD Biosciences, v.7). Results were analysed with the FlowJo software (v.5).
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6

Flow Cytometry Antibody Panel for Immune Cell Characterization

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All antibodies for flow cytometry were 1:200 dilution. CD4 PE: BioLegend: 100408, BD Biosciences: 563106, CD8α BioLegend:100722, CD44 BD Biosciences:103011, I-Ab (MHC II) BioLegend:116416, CD40 BD Biosciences: 561846, CD80 BD Biosciences: 565820, CD86 BioLegend:105008, CD62L BD Bioscience:560507, CD11c BioLegend:117310, CD11b: BioLegend: 101263, 101206, PDCA1 BioLegend:127008, CD3 BioLegend:100311, TNFα Biolegend:506306, IFNγ Biolegend:505805, IL17 Biolegend:506917, Foxp3 eBioscience,17–5773-80B, CD19 BioLegend:115508, LEAF Purified anti-mouse CD3 Biolegend:100314, LEAF Purified anti-mouse CD28 BioLegend:102112, Propidium iodide solution BioLegend:79997, Fc block 2.4G2 cell supernatant ATCC: HB-197; RRID: AB_2103740.
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7

Annexin V and PI Staining of Treated Cells

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Approximately 7.5 × 105 cells (MelDuWi) and 1.0 × 106 cells (PriFri2 and sRGO2) were seeded in 25 cm2 cell culture flasks. After 24 h of incubation, the medium was replaced with medium containing either BBS or NVX-207 at their respective double IC50 concentration (measured after 96 h). Following 24 and 48 h of incubation, cells were harvested by mild trypsinization and washed twice with PBS buffer (containing Mg2+ and Ca2+). Cells (1.0 × 106) were resuspended in AnnexinV binding buffer (BioLegend®, San Diego, US) to a concentration of 1.0 ‧ 106 cells/mL. Approximately 100,000 cells were stained with propidium iodide solution (3 mL, 1 mg/mL) and FITC AnnexinV solution (5 mL, BioLegend®) for 15 min in the dark at room temperature. After the addition of Annexin V binding buffer (400 mL), the suspension was analyzed using the Attune® FACS machine (Life Technologies). After gating for living cells, the data from detectors BL-1A and BL-3A were collected. A total of 20,000 events were collected from each sample and technical duplicates were measured.
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8

Cell Cycle Analysis of iPSCs

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Cell cycle stage distribution in response to inhibitor was measured
as described (Nagpal et al., 2013 (link)).
Equal numbers (1 × 105) of DC patient iPSCs were plated
and 24 hrs later treated with 1μM BCH001 versus DMSO as vehicle
control. 72 hrs post-treatment cells were harvested and fixed using 70%
ethanol (in Dulbecco’s phosphate-buffered saline, Corning; 21031CVR)
at 4 °C overnight. For analysis, fixed cells were washed twice with
1X PBS (phosphate-buffered saline) followed by treatment with 1% RNase A
solution (Sigma, R6148) and staining with propidium iodide solution (0.5
mg/ml, BioLegend, 421301) and flow cytometry using BD LSR Fortessa (BD
Biosciences). Cell cycle analysis was done using Watson (Pragmatic) model
with FlowJo software.
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9

Annexin V Apoptosis Assay in MyC-CaP Cells

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WT and LMPTP KO MyC-CaP cells were seeded into a six-well plate in 10% FBS media. After 2 days, the cells were trypsinized and collected in the original cell media. The cells were washed with PBS and suspended in 100 μl of annexin V binding buffer before staining with 5 μl of Pacific Blue annexin V solution and 5 μl of propidium iodide solution (BioLegend). After incubating in the dark at room temperature for 15 min, 400 μl of annexin binding buffer was added to each sample. Samples were analyzed for cell fluorescence by flow cytometry using a Bio-Rad ZE5 flow cytometer, and the data were processed using FlowJo software.
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10

Cell Cycle Analysis by Flow Cytometry

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A total of 1 × 104 cells was trypsinized and harvested. Fix the cells in cold 70% ethanol by adding dropwise to the pellet with mild voltexing for overnight at -20 °C. Centrifuged at 2000rpm for 5 minutes and discard the supernatant. Resuspend the fixed cells in PBS and centrifuged at 2000rmp for 5 minutes for two rounds of washes. To ensure that only DNA is stained, treat cells with 50 μl of 100 μg/ml Ribonuclease A (Sigma Aldrich, 10109169001). Add 425 μl of Cell staining buffer (BioLegend, 420201) and 25 μl of Propidium Iodide solution (BioLegend, 421301). Cell cycle distribution was analyzed using BD FACSCanto II flow cytometer and FCS Express 7 software.
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