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12 protocols using evos fl digital inverted microscope

1

Quantifying Lipid Peroxidation in Myoblasts

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Lipid peroxidation in myoblasts was measured using a dye, C11-BODIPY® (581/591) (Molecular Probes, Eugene, OR, USA), which is a lipid peroxidation sensor that can shift from red to green fluorescence emission upon oxidation of the polyunsaturated butadienyl segment of the fluorophore. Briefly, myoblasts were incubated in 10 μM C11-BODIPY for 30 min. After that, cells were washed with PBS, trypsinized, and reconstituted in PBS and the oxidized BODIPY was quantitated using a flow cytometer (CytoFLEX, Beckman Coulter Pasadena, CA, USA) with the 525/40 bandpass channel while reduced BODIPY was quantitated with 585/42 bandpass channel. The percentage of cells that was positively labeled with either oxidized or reduced BODIPY was obtained and the ratio of these percentages (oxidized/reduced BODIPY) was reported. For observation, the same staining protocol was applied, followed by visualization of the nuclei using Hoechst 33342 (Molecular Probes, Eugene, OR, USA). Cells were then observed under a fluorescent microscope (EVOS FL digital inverted microscope, Thermo Fisher Scientific, USA).
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2

Fluorescence-based ROS Detection in Myoblasts

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ROS generation in myoblasts was determined using two dyes, dihydroethidium (DHE) and 5-(and-6)-carboxy-2′,7′-dichlorodihydrofluorescein diacetate (carboxy-H2DCFDA) (Molecular Probes, Eugene, OR, USA). The fluorescence of DHE indicated oxidation by superoxide anions, while carboxy-H2DCFDA is oxidized by hydrogen peroxide (H2O2), peroxynitrite, or hydroxyl radicals. Superoxide anions may contribute to carboxy-H2DCFDA oxidation albeit to a lesser degree. Briefly, myoblasts were incubated in 20 μM DHE and 40 μM carboxy-H2DCFDA for 45 min. After that, cells were washed with PBS and recovered in medium for 30 min. Then, we measured the intensity of the fluorescence using a flow cytometer (CytoFLEX, Beckman Coulter Pasadena, CA, USA) with the 585/42 bandpass and 525/40 bandpass channels. The percentage of cells that was positively labeled with a particular dye was reported independently. For observation, the same staining protocol was applied, followed by visualization of the nuclei using Hoechst 33342 (Molecular Probes, Eugene, OR, USA). Cells were then observed under a fluorescence microscope (EVOS FL digital inverted microscope, Thermo Fisher Scientific, USA).
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3

Immunofluorescence Staining of DCs

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For immunofluorescence staining of DCs, the murine DC2.4 cell line was used. Cells were plated in clear flat-bottom 96-well plates at a density of 104 cells/well in 200 µl of 10% FBS DMEM (GIBCO), 1% L-glutamine, and 1% penicillin-streptomycin. After 2 d, cells were treated with 20 µg of IgG control or αIFNAR1 antibodies for 30 min. Media were removed from each well using a multichannel pipette, and cells were infected with LCMV-GFP or MHV-GFP (MOI 0.05) in 50 µl of 1% FBS DMEM (GIBCO) for 1 h, gently rocking every 10 min. Media were removed and replaced with 200 µl of 10% FBS DMEM (GIBCO), 1% L-glutamine, and 1% penicillin-streptomycin and incubated at 37°C and 5% CO2 for 72 h. Cells were washed once and fixed with 4% paraformaldehyde (Thermo Scientific). A Vectashield mounting medium containing DAPI (Vector Labs) was added to the wells, and images were acquired using an EVOS FL digital inverted microscope (Thermo Scientific).
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4

Mitochondrial Membrane Potential Assay

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Cells were treated with 1 µg/mL TNF-α and 250 ng/mL cycloheximide for 2 h at 37 °C. In cases where inhibitors or activators were used, they were added at the same time as TNF-α and CHX. Following treatment, cells were prepared for staining by washing off spent media and chemicals from the cells with warm PBS. Cells were spun down at 400× g for 10 min and the cell pellets were resuspended in warm RPMI 1640 + 10% FBS containing 2.5 μg/mL Hoechst 33342 (Millipore-Sigma, Burlington, MA, USA) and 100 μL/1 mL from a 1:100 dilution of JC-1 Assay Reagent (Cayman Chemical Company, Ann Arbor, MI, USA). The cells were incubated for 22 min at 37 °C and centrifuged at 400× g for 10 min. Cell pellets were resuspended in freshly warmed RPMI 1640 + 10% FBS and diluted 1:1 in a 6-well plate to be imaged on the EVOS FL Digital Inverted Microscope (ThermoFisher, Waltham, MA, USA). Cells were analyzed with the included DAPI, GFP, and RFP fluorescence filters and then presented as overlay images. Fluorescence intensity was measured using ImageJ.
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5

GFP Reporter Assay for ARE and NFκB

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Antioxidant response element (ARE)‐ and nuclear factor kappa‐light‐chain enhancer of activated B cells (NFκB)‐green fluorescent protein (GFP) Huh7 reporter cells were generated as described.13 Appropriate response of the respective reporters was determined by stimulation for 48‐72 hours with tert‐butylquinone for ARE reporters and tumor necrosis factor alpha (TNF‐α) for NFκB reporters. Following experimentation, the cells were washed with phosphate‐buffered saline (PBS) and fixed with 4% paraformaldehyde in PBS immediately following SH and 10 minutes following the last hypoxic exposure in IH. The cells were washed again and then incubated with 4',6‐diamidino‐2‐phenylindole diluted 1:10,000 in PBS. GFP fluorescence was then assessed using the EVOS FL digital inverted microscope (Life Technologies, Grand Island, NY). Quantitative assessment of GFP‐positive cells was performed using flow cytometry with the BD FACSCalibur Flow Cytometer (BD Biosciences) calculated using the percentage of positive GFP cells with data analyzed using the Flowing software (version 2.5.1; Turku Centre for Biotechnology, Turku, Finland).
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6

Quantitative Confocal Imaging of ACE2 Expression

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All qualitative images shown were acquired on a Leica SP5 confocal microscope using Leica imaging software. For quantitative image analysis, three representative images were acquired across all 36 patients on an EVOS FL digital inverted microscope (Life Technologies) for both ACE2/cTnT and ACE2/α‐smooth muscle cell actin (SMA) co‐staining.
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7

Evaluating MART1-Specific T Cell Cytotoxicity

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CD8+ T cells obtained from a healthy HLA-A*02-01 donor were transduced using a lentiviral vector encoding a MART1-specific TCR, which was a generous gift donated by Richard Koya (20 (link)). Primary PC cells isolated as previously described (16 (link),17 (link)), were evaluated for HLA A2 expression using flow cytometry with a commercially validated antibody (Biolegend) and a representative HLA A2-positive line was chosen. 2.5×104 PC cells were seeded in 96 well plates and allowed to adhere overnight in growth medium. Transgenic T cells were added at the indicated effector:target T cell ratio in the presence and absence of the recombinant MART1 peptide (12.5 µM, ProImmune Ltd., Oxford, United Kingdom). Images were collected on an EVOS FL digital inverted microscope (Life Technologies, Carlsbad, CA) and processed with ImageJ (NIH). The CellTracker™ Blue (CMAC) dye was used to label T cells and co-cultures were performed in the presence of SYTOX® Green for live cell imaging (Thermo Fisher Scientific).
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8

Microscopy Characterization of Hydrogels

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Images were taken using an EVOS fl digital inverted microscope (Life Technologies, USA) after 1, 3 and 5 days of incubation. For confocal imaging, the hydrogels were removed from the inserts and placed in chambered cover glasses facing (apical surface) down. PBS was added to prevent the hydrogels from drying during imaging. Confocal images were taken using a Zeiss LSM 510 Meta Confocal Microscope (Zeiss, Germany). The hydrogel samples were dried prior to SEM imaging by successive immersions in 30%, 50%, 70%, 90% and 100% ethanol solutions over a 2-day period. Once dehydrated, the hydrogels were prepared for microscopy using a custom-made critical point drier (CPD) employing supercritical CO 2 . Scaffolds were fixed on aluminum stubs using carbon paste and gold sputtered for 100 sec prior to imaging using an FE-SEM (LEO 1530) unit. Again, experiments were repeated three times for each sample.
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9

In Vitro Angiogenesis Assay

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Primary human foreskin fibroblasts (Promocell) were cultured until confluent in 48-well plates in Q333 fibroblast growth media (PAA Laboratories, Pasching, Austria). 7500 endothelial cells were then seeded per well onto the fibroblasts monolayer in a 1:1 mixture of Q333 and ECGM and left to acclimatize for 24 h. Media was then aspirated and replaced with fresh ECGM±VEGF-A isoform (1.25 nM) as desired; media was replaced every 2-3 days for seven days. Co-cultures were then fixed in 200 µl 10% (v/v) formalin for 20 min and blocked in 5% (w/v) BSA for 30 min at room temperature. Co-cultures were then incubated with 1 µg/ml mouse anti-human PECAM-1 (CD31; Santa Cruz, USA) overnight at 4°C. Cells were washed three times with PBS before incubation with an anti-mouse Alexa Fluor 594 conjugate (Invitrogen) for 3 h at room temperature. Wells were then washed three times with PBS. Endothelial tubules were visualized by immunofluorescence microscopy using an EVOS-fl inverted digital microscope (Life Technologies, Paisley, UK). Five random fields were imaged per well. Both the number of branch points and the total tubule length was then quantified from each photographic field using the open source software AngioQuant (www.cs.tut.fi/sgn/csb/angioquant) and values averaged. For a more detailed method please see Fearnley et al., (2014b (link)).
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10

Co-culture of HUVECs and Primary Fibroblasts

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Primary human foreskin fibroblasts (Promocell) were cultured to confluency in 48-well plates in Q333 fibroblast growth medium (PAA Laboratories, Pasching, Austria). Then 6500 HUVECs were seeded onto the fibroblast monolayer in a 1:1 mixture of Q333 and ECGM and left for 24 h. Medium was then removed and replaced with fresh ECGM ± VEGF-A as desired; medium was replaced every 2–3 d for 7 d. Cocultures were then fixed in 200 μl for 20 min and blocked in 1% (wt/vol) BSA for 30 min at room temperature. Cocultures were then incubated with 1 μg/ml mouse anti-human PECAM-1 (CD31; Santa Cruz Biotechnology, Santa Cruz, CA) overnight at room temperature. Cells were washed three times with PBS before incubation with donkey secondary antibody anti-mouse Alexa Fluor 594 conjugate (Invitrogen) for 2–3 h at room temperature. Wells were then washed three times with PBS. Endothelial tubules were then visualized by immunofluorescence microscopy using an EVOS-fl inverted digital microscope (Life Technologies). Five random fields were imaged per well. Both the number of branch points and the total tubule length were then quantified from each photographic field using the open source software AngioQuant (www.cs.tut.fi/sgn/csb/angioquant) and values averaged. For a more detailed method see Fearnley et al. (2014 (link)).
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