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18 protocols using 96 well clear round bottom ultra low attachment microplate

1

3D Spheroid Model for Liver Cancer

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The 3D spheroid model was constructed as previously described [16 (link)]. In brief, different groups of MHCC97H cells [PRIM1 Knockdown, PRIM1 Knockdown/UBE2C overexpression, and negative control (NC)] and HepG2 cells (PRIM1 Knockdown, PRIM1 Knockdown/UBE2C overexpression, and NC) were mixed with Collagen I (Meilun Biotechnology, 5 μg/mL) and plated in the Corning® 96 Well Clear Round Bottom Ultra Low Attachment Microplate (Corning, USA) at the density of 2000 cells/200 μL. At the indicated time point of 1st day, 3rd day and 5th day, the formed spheroid were photographed and volumed. Then, on the 5th day, each group was treated with sorafenib (20 μM) and photographed in another 3 days.
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2

3D Spheroid Cell Invasion Assay

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Transwell® invasion assay and scratch wound invasion assay were performed as a migration assay using Matrigel (diluted to 1:4 with serum-free RPMI) as the intervening invasive barrier. Three-dimensional (3D) invasion assay was performed with the Cultrex 96-well 3D Spheroid Cell Invasion Assay (Trevigen, Gaithersburg, MD, United States) according to the manufacturer’s protocol. In brief, cells (3 × 105) suspended in 50 μL prechilled spheroid formation ECM were added to a Corning 96-well Clear Round Bottom Ultra Low Attachment Microplate (Corning). After centrifugation for 3 min at 200 ×g, cells were incubated to assemble into spheroids. After 3 days, prechilled invasion matrix (50 μL) was added onto the each well and plates were incubated for 1 h at 37°C to enhance gel formation. Culture media with or without indicated concentrations of ISLA were added and then the plates were further incubated in 5% CO2 incubator at 37°C for 5 days. Invasion of cells into surrounding matrix were observed and photographed every 24 h.
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3

Photodynamic Therapy in 3D Spheroids

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KB-8-5-11 spheroids were grown to study the photokilling of Pab-IR700 in 3-D model with a method described previously.22 (link), 23 (link) Briefly, 1×104 of KB-8-5-11 cells in 200 μL medium per well were seeded into Corning 96 well clear round bottom ultra-low attachment microplate (Corning Inc.), and cultured for 5 days. To evaluate the phototoxicity, KB-8-5-11 spheroids were treated with Fab-IR700 or Pab-IR700 (240 nM IR700) for 4 or 24 h. Then the spheroids were rinsed with fresh medium and irradiated with the 690 nm LED light at the light dose of 10 J/cm2. After 24 h, the spheroids were incubated in Calcein AM/PI solution at 37 °C for 30min. After washing, the spheroids were imaged using a Cytation 5 Imaging Reader (BioTeK).
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4

Photokilling of Pab-IR700 in 3D Spheroids

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NCI-ADRRes-GFP spheroids were grown to study the photokilling of Pab-IR700 in 3D model with a method described previously [73 (link)]. Briefly, 1×104 of NCI-ADRRes-GFP cells in 200 μL medium per well were seeded into Corning 96 well clear round bottom ultra-low attachment microplate (Corning), and cultured for 5 days. To examine the penetration of the antibody conjugates, the spheroids were treated with 20 μg/mL of Pab-640R overnight. Subsequently, some spheroids were washed twice with the fresh medium and imaged using a ZEISS LSM 710 confocal microscope. Fluorescence intensity in the confocal images was quantified with ImageJ software. Other spheroids were digested to single cells and were analyzed for cellular fluorescent levels on an LSRFortessa flow cytometer (BD Bioscience).
To evaluate the phototoxicity, NCI-ADRRes-GFP spheroids were treated with Pab-IR700 (20μg/mL) overnight. Then the spheroids were rinsed with fresh medium and irradiated with the LED light at the light dose of 10 J/cm2. After 48 or 96 h, the spheroids were incubated in Calcein AM/PI solution at 37°C for 30 min. After washing, the spheroids were imaged using a Cytation 5 Imaging Reader (BioTeK). In a separate experiment, the growth of the spheroids was monitored with the Cytation 5 Imaging Reader over the next 28 days after Pab-IR700 mediated PDT.
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5

3D Spheroid Cell Invasion Assay

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A scratch wound invasion assay using IncuCyte Zoom and the Transwell invasion assay were used with Matrigel® (BD Biosciences, Franklin Lakes, NJ, USA) diluted 1:4 with serum-free medium as the intervening invasive barrier. In addition, a 3D invasion assay was performed using the Cultrex 96-well 3D Spheroid Cell Invasion assay (Trevigen; Bio-Techne, Minneapolis, MN, USA), according to the manufacturer's protocol. In brief, 3×105 cells were suspended in 50 µl prechilled spheroid formation ECM, added to a Corning 96-well Clear Round Bottom Ultra Low Attachment Microplate (Corning Incorporated), centrifuged at 200 × g for 3 min at room temperature, and then incubated for 3 days to assemble into compact spheroids. Following the addition of 50 µl prechilled invasion matrix, the plates were centrifuged at 300 × g for 5 min at 4°C and incubated for 1 h at 37°C to promote gel formation. Culture medium containing the indicated concentrations of RA was then added into each well and the plates were incubated at 37°C in a 5% CO2 incubator for between 3 and 5 days. Cells that invaded the surrounding matrix were observed using a phase-contrast inverted microscope (magnification, ×100) and images were captured every 24 h.
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6

Evaluating Nanoparticle-Mediated Cytotoxicity

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MGC803 human gastric cancer cells (ATCC) were seeded into a 96-well plate at a concentration of 5000 ​cells every well. After 24 ​h, NP or free SAL-DOC solution was added to each well to provide DOC of 10 ​μg/mL and SAL of 7 ​μg/ml in the final concentration. The cell viability was estimated by the Cell-Counting Kit 8 (CCK8) assay. Fluorescence (450 ​nm) was recorded in a microplate reader.
Multicellular tumor spheroids were formed from MGC803 cultured in 96 Well Clear Round Bottom Ultra Low Attachment Microplate (Corning, USA). When the spheroids grew to 200 ​μm in diameter, PECE NPs, NPs, PECE/Free SAL-DOC and Free SAL-DOC were added, and final concentrations were DOC of 10 ​μg/mL and SAL of 7 ​μg/ml in all groups. After incubation for 12 ​h at 37 ​°C, the spheroids were washed, stained using a Viability/Cytotoxicity Kit (Beyotime, China). Confocal microscope (Leica, Germany) was used as Z-stack projects scanning from the top to the middle of the MCTs with 10 ​μm intervals and then presented as maximum intensity projections. To quantify live/dead cells, the total cell area of each dye was measured with ImageJ.
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7

Efficient Cardiomyocyte Differentiation from iPSCs

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To differentiate iPSCs into clumps of cardiomyocytes, we modified a previously reported protocol (38 (link)) to reduce the population of cardiomyocytes before purification. StemPro-34 supplemented with 2 mM l-glutamine, l-ascorbic acid (50 μg/ml), transferrin (150 μg/ml), and 0.4 μM monothioglycerol was used as the basal medium. Briefly, feeder-free iPS-MYH6-GFP cells were suspended in differentiation medium 1 [basal medium supplemented with 0.5% (v/v) Matrigel matrix, 10 μM Y-27632 (Wako), and recombinant human BMP4 (2 ng/ml)] in a 100-mm ultralow attachment culture dish or 96-well clear round-bottom ultralow attachment microplate (Corning). On day 1, an equal volume of differentiation medium 2 [basal medium supplemented with rhBMP4 (18 ng/ml), recombinant human Activin A (12 ng/ml), and recombinant human basic FGF (10 ng/ml)] was added to the dish. On day 3, the medium was replaced with differentiation medium 3 [basal medium supplemented with 0.5% (v/v) Matrigel matrix, 1 μM stemolecule Wnt Inhibitor https://www.reprocell.com/product-catalog/small-molecules/stemolecule-wnt-inhibitor-iwp-3, and recombinant human VEGF (10 ng/ml)]. On day 7, the medium was replaced with differentiation medium 4 [basal medium supplemented with rhVEGF (5 ng/ml)]. After day 10, the medium was replaced with fresh differentiation medium 4 every few days.
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8

Assessing NK Cell Cytotoxicity Against A549-NLR Spheroids

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A549-NLR cells (5000/well) were seeded in a 96-well clear round-bottom ultra-low attachment microplate (Corning, Corning, NY, USA), centrifuged at 130× g for 10 min, and incubated for 3–4 days to form spheroids. NK cells were then added in the presence of Ultra-LEAF isotype or anti-TIGIT antibodies (Biolegend, San Diego, CA, USA). After 7 days of incubation, NK cells were stimulated with PVR or PVR+-K562-GFPLuc cells for 4–6 h in the presence of Brefeldin A (eBioscience, San Diego, CA, USA) and Golgi Stop™ (BD Biosciences, Franklin Lakes, NJ, USA). Samples were harvested and stained with CD56, CD3, and CD107a antibodies, fixed and permeabilized (eBioscience IC Fixation and Permeabilization buffers), and probed with antibodies for IFNγ and TNFα, followed by analysis using flow cytometry.
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9

Evaluating CAR-PM Infiltration in 3D Tumor Spheroids

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MKN45 cells (1000 cells in 200 μL of complete medium) were added to a 96-well clear round bottom ultra-low attachment microplate (Corning, USA). Three-dimensional (3D) tumour cell spheroids were constructed and cultured, and the experiment could be performed when the cell spheroid diameter has proliferated to about 200–300 μm. The experiment was divided into two groups, the HG-CAR-PM group, and the HF-CAR-PM group. The human peritoneal cells were transfected 1 day before the experiment, and the cells of each group were collected, centrifuged, and washed, then added complete culture medium and resuspended to 5 × 104 cells/mL. Aspirate 100 μL of culture medium from each spheroids culture, add PMs from different groups at an effective target ratio of 5:1 to each culture, and incubate for 16 h, and then add tumour cells in each well. The spheres were carefully aspirated into 1.5 mL EP tubes and washed twice with saline to remove free PMs. The washed tumour cell spheroids were placed in a confocal small petri dish and fluorescence confocal microscopy was performed to observe the penetrating infiltration of PMs in the tumour cell spheres. The images were processed using Image J software 1.37.
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10

Generation of PGCLCs from ESCs

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1.5×105 cell/well of ESCs were plated on a 12-well plate and induced into EpiLCs for 48 h as described previously43 (link). The EpiLCs were then cultured under a floating condition by plating 2–3×103 cells per well of a 96-Well Clear Round Bottom Ultra Low Attachment Microplate (Corning, cat#7007) in GK15 medium supplemented with LIF, BMP4 (500 ng/mL), SCF (100 ng/mL), and EGF (50 ng/mL). d4 PGCLCs were purified with a fluorescence-activated cell sorter (FACS) (ARIA II; BD Biosciences) by using anti-SSEA1/CD71-eFluor660 (1:20 dilution; eBioscience, cat #50-8813-41) and anti-ITGB3/CD61-PE antibodies (1:200 dilution; BioLegend, cat #104307).
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