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13 protocols using incucyte s3 instrument

1

ARND Inhibits SARS-CoV-2 Pseudovirus Infection

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A549 cells and 293 T-ACE2 cells were seeded in a 96-well plate for 24 h at a cell density of 7000 cells/well and 20,000 cells/well, respectively. Then the medium was replaced with 100 µL of complete medium containing ARND at concentrations ranging from 0.625 to 5 µL/mL and incubation was allowed to proceed for 2 h. The medium containing ARND was then discarded and replaced with the pseudovirus inoculum (in a total volume of 275 µL in each well) for infection to proceed for 2 h. The viral inoculum was then removed, and fresh complete medium (200 µL) was added to the cells and incubation was allowed to proceed for another 72 h.
After pseudovirus infection, the medium in a 96-well plate was removed and replaced with PBS for image acquisition under a 10 × objective using the Incucyte® S3 instrument (Essen Bioscience, Ann Arbor, MI, USA). The images obtained were analyzed using the Incucyte S3 software to calculate the magnitude of the signals of fluorescence. The signal values were normalized by the uninfected cells and infected cells without ARND treatment.
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2

Wound Healing Assay for MIO-M1 Cells

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The migratory ability of MIO-M1 cells treated with the four preparations (FF-S, FD-S, FF-PRP, and FD-PRP) was investigated through a scratch wound assay. For this assay, 104 MIO-M1 cells/well were plated in a 96-well Essen ImageLock plate (Essen Bioscience, Ann Harbor, MI, USA) and cultured in DMEM L-Glutamax (Gibco, Thermofisher Scientific, Waltham, MA, USA) with 5% FBS near 100% confluence. Then, the cell monolayer was scratched using a WoundMaker (Essen BioScience, Ann Harbor, MI, USA) device to simultaneously create wounds in each well, washed in PBS, and treated with 100 µL DMEM L-Glutamax medium containing 5% S-FF, S-FD, PRP-FF, and PRP-FD preparations at 37 °C in an incubator with 5% CO2.
The culture plate was placed in an IncuCyte S3 instrument (Essen BioScience, Ann Harbor, MI, USA) and kept in a dedicated incubator. Then, each wound image per well was automatically recorded with a 10X objective lens every hour for 48 h using the IncuCyte S3/SX1 optical module phase contrast. Images were processed by using the IncuCyte 2019B software to analyze, over time, two integrated measures characterizing the movement behavior. Specifically, the wound confluence was estimated as the wound region area occupied by cells and expressed as a percentage (%), and the wound width was estimated as the distance between wound edges and expressed in micrometers (μm).
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3

Estrogen Receptor Beta Modulates Cell Proliferation

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MDA-MB-231, Hs578T and MDA-MB-468 cells were plated at a density of 1,500 cells per well in 96-well plates in replicates of 8. At the time of plating, cells were transfected with 10 ng per well of both a YFP expression vector (pcDNA6.2 N-YFP-DEST) and either the ERβWT or ERβDBD-Mut expression vector (pcDNA4.0) using FuGENE 6 transfection reagent (Promega). Cells were allowed to adhere overnight and subsequently treated with vehicle control or 1 nM E2. Proliferation of YFP positive cells was monitored over a period of 24 h in an IncuCyte® S3 instrument (Essen Bioscience Inc.). Growth rates were determined by calculating the relative YFP area per confluence area following normalization to time zero (start of treatment).
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4

Wound Healing Assay of Muscle Endothelial Cells

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Muscle microvascular endothelial cells isolated from mouse skeletal muscle were seeded at a density of 2.0 × 104 cells in Incucyte ImageLock 96 well microplate Essen ImageLockTM overnight with HG or NG media to let cells attach to the well. We then used a WoundMakerTM device (4563, Essen Bioscience) containing 96 pins to scratch homogeneous micron-wide wounds through all the cell monolayers. After washing with PBS, 100 μl of fresh serum-free medium with either NG or HG were added to each well. The plates were then placed into the Incucyte S3 instrument (Essen Bioscience) to scan for relative wound width and confluence every 2 h for 48 h total. Data were analyzed through the instrument’s software in accordance with the manufacturer’s analysis manual.
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5

Cell Cycle Dynamics in ERβ Mutant

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MDA-MB-231-ERβWT and -ERβDBD-Mut cells expressing the Cell Cycle Red/Green marker (described above) were seeded in 96-well plates and treated with dox 24 h prior to indicated treatments. Following addition of treatments, plates were placed in the IncuCyte® S3 instrument (Essen Bioscience Inc.) and imaged once every 2 h for 36 h on the phase, red fluorescent, and green fluorescent channels. The percent of cells in each phase were calculated according to the manufacturer’s recommendations.
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6

Characterizing Cell Viability and Confluence

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Cells were treated with siRNA (3 pmol) against SMARCA4, SMARCA2, SMARCC1, SMARCC2 or with a scrambled control for 24 h. LNCaP and C4-2 cells were then seeded in Poly-L-Lysine coated 96-well plates (2000 cells/well) and WCM154 cells were seeded in a collagen-coated 96-well plates (5000 cells/well). Cell viability was determined after 24, 48, 72, and 96 h with a Tecan Infinite M200PRO reader using the CellTiter-Glo® Luminescent Cell Viability Assay according to manufacturer’s directions (Promega). Cell confluence was determined using the Incucyte S3 instrument and the IncuCyte S3 2018B software (Essen Bioscience, Germany). Values were calculated as x-fold of cells transfected with siRNA for 0 h.
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7

Matrigel-based Wound Healing Assay

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96-well ImageLock plates (Essen Bioscience; 4379) were coated with 10% Corning Matrigel growth factor reduced basement membrane matrix (Merck; CLS356231) diluted in complete media overnight at 37  °C. PDAC cells were seeded into the Matrigel-coated plates (35,000 cells in 100 μL complete media per well) and left to adhere overnight at 37  °C. The monolayer of cells was then wounded with the Woundmaker tool (Essen Bioscience; 4563) and washed twice with media to remove unwanted cell debris. Subsequently, 50 μL of 50% Corning Matrigel growth factor reduced basement membrane matrix (CLS356231) diluted in complete media (with or without 5 mM diethyl succinate treatment (Merck; 112402) was overlaid onto the wounded monolayer and left to polymerize for 1 h at 37  °C. After 1 h, 100 μL complete media (with or without drug treatment) was added into each well and plates were imaged every hour for 4 d using the IncuCyte S3 instrument (Essen Bioscience). Results are presented as the time point at which the wound confluence of the samples is 50% (Tmax1/2).
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8

Cell Viability and Confluence Analysis

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Cells were seeded in a 6 well (400 000) and treated according to assay conditions over night.
Cells were then seeded in Poly-L-Lysine coated 96-well plates (8000 cells/well, n=3 per condition) and WCM154 cells were seeded in a collagen-coated 96-well plates (5000 cells/well, n=3 per condition). Remaining cells were used for U6atac KD control via qRT-PCR.
Cell viability was determined after 24, 48, 72, and 96 h with a Tecan Infinite M200PRO reader using the CellTiter-Glo® Luminescent Cell Viability Assay according to manufacturer's directions (Promega, G9243). Viability values were calculated as x-fold of cells transfected with siRNA for 0 h. Cell confluence (n=4 per condition) was determined using the Incucyte S3 instrument and the IncuCyte S3 2018B software (Essen Bioscience, Germany). Values were calculated as x-fold of timepoint 0 and then as fold-change in confluency as compared to siScrambled treated controls.
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9

Cytotoxicity Evaluation of Peptides

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The cytotoxicity of the peptides N4-P10 and N4-P10S on the NIH:OVCAR5 cells was monitored for 72 h as a function of fluorescence intensity over time after treatment with 250 nM IncuCyte® Cytotox Green in the IncuCyte® S3 instrument (Sartorius, Ann Arbor, MI, USA). As a positive control for cytotoxicity, 2 µg/mL puromycin was used.
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10

Automated Spheroid Imaging and Analysis

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Single spheroids were imaged with an IncuCyte S3 instrument (Sartorius). The area and fluorescence intensities of the images were measured using the IncuCyte Spheroid Software Module (Sartorius). Data are reported as spheroid fluorescence intensity integrated across the spheroid area (for tumor cells expressing a fluorescent protein) or as spheroid area. For the spheroid invasion assay, a mask based on the invading cell area was created automatically with the IncuCyte Spheroid Software Module. Multispheroids were scanned using a Zeiss Axio Observer Z1 microscope. The spheroid area was quantified manually in QuPath (74 (link)) (v0.3.0), and fluorescence intensity was measured using QuPath’s intensity feature plug-in. The spheroids were detected in the EGFP/FITC channel using a set pixel size of 1.26 μm.
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