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839 protocols using spectramax i3

1

Thioredoxin Activity Assay Protocol

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Trx activity was measured according to a previously reported method [24 ] with some modifications. Purified Trx1 protein or cell samples were incubated with the reaction mixture buffer (790 μM insulin, 2 mM EDTA, 2 mM NAPDH, 0.5 μM TrxR in 210 mM HEPES, pH 7.6) at 37 °C for 30 min, then the reaction was terminated by adding the stopping buffer (10 mM DTNB, 8 M guanidine hydrochloride in 0.2 M Tris-HCl, pH 8.0). Absorbance changes at 412 nm were recorded using a SpectraMax i3 plate reader (Molecular Devices, CA, USA).
TrxR activity was determined using a previously established method [25 (link)] with some modifications. Equal volumes of sample and reaction buffer (10 mM EDTA, 0.2 mg mL−1 BSA, 5 mM DTNB, and 240 μM NADPH in 50 mM potassium phosphate, pH 7.4) were mixed at 22 °C. The conversion of DTNB to TNB was recorded at 412 nm every 30 s over a 20 min period using a plate reader (SpectraMax i3, Molecular Devices, CA, USA). Data were corrected for changes detected in the presence of the TrxR inhibitor auranofin (500 nM) added into the reaction system.
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2

In Vitro Hydrolysis Assay of YLG

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About 0.33 µM of ShHTL7 protein was used to conduct in vitro hydrolysis of YLG (1 µM) as a substrate in a total volume of 100 µL of phosphate-buffered saline (1× PBS) containing 0.1% DMSO in 96-well black plate (Greiner Kremsmünster, Austria; Tsuchiya et al., 2015 (link)). The hydrolysis of YLG over time and changes in the fluorescence intensity was measured by SpectraMax i3 (Molecular Devices, San Jose, CA, USA) using an excitation wavelength of 480 nm and detection wavelength of 520 nm and recorded at 10 min intervals for 2 h. YLG in 1× PBS without protein was used as a control. For competitive inhibition of YLG hydrolysis in the presence of the compounds (KK023-N1 or -N2, Triton X-100, and KK094), proteins (ShHTL7, OsD14, ShHTL5, at 0.33 µM final concentration) were co-incubated with different concentrations ranges (20 nM to 50 µM) of both inhibitors for 1 h at room temperature, then 1 µM of YLG was added and incubated for another 1 h. Measurement of the fluorescence was conducted in SpectraMax i3 (Molecular Devices) using the above-mentioned method. The relative fluorescence unit was calculated by subtracting the auto-fluorescence of YLG in the buffer from the fluorescence values of YLG in the presence of a protein. The inhibitory curve and IC50 were determined using https://www.aatbio.com/tools/ic50-calculator website.
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3

Quantifying NADP/H and MDA levels in mouse hippocampus

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Total NADP/H level was determined with a NADP/NADPH assay kit (Abcam, ab65349) following the provided protocol. In brief, 5 WT and 5 mGluR5 KO mouse hippocampi were homogenized in 500 μL extraction buffer and centrifuged at 20.000× g for 5 min at 4 °C. The supernatant was transferred to a 10k Da column (Sartorius Stedim Biotech, Gottingen, Germany) and centrifuged at 4000× g for deproteinization. The unfiltered protein fraction was kept for protein quantification using Bradford colorimetric assay (Bio-Rad, Hercules, CA, USA, 5000006EDU). Cycling reaction mix was added to each sample in duplicate and developed for 3 h. Samples were scanned (optical density at 450 nm) in a SpectraMax i3 (Molecular Devices, San Jose, CA, USA), individual sample background was subtracted and protein concentration was used for normalization.
Total malonaldehyde (MDA) level was determined with a TBARS assay kit (Oxford Biochemical Research, Rochester Hills, MI, USA; FR45). Hippocampi dissected from 7 WT and 5 mGluR5 KO mice were homogenized, centrifuged and filtered as described above. Samples were mixed in duplicate with indicator solution and incubated at 65 °C for 45 min. Samples were scanned (585 nm emission, 532 nm excitation) in a SpectraMax i3 (Molecular Devices), background was subtracted and protein concentration was used for normalization
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Quantification of Radish Microgreen Phenolics

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The total phenolics and flavonoid contents of freeze-dried radish microgreen samples were measured using the methodology implemented previously in our laboratory and described by Tilahun et al. (2022) (link). For total phenolics analysis, ethanolic extract (1 mg mL-1) or standard was mixed with 1 mL of 10% Folin-Ciocalteu’s phenol reagent and 1 mL of 2% sodium carbonate solution. The absorbance at 750 nm was recorded using a microplate reader (Spectramax i3, Molecular Devices, Sunnyvale, CA, USA) after incubation of the samples at ambient temperature for 90 min in the dark. The results were expressed as milligrams of gallic acid equivalents (GAE) per 100 g of sample (mg GAE 100 g-1) after comparison of the measurement to the calibration curve of gallic acid. For total flavonoids analysis, ethanolic extract (1 mg mL-1) of the extract was mixed with 1.5 mL of ethanol, 0.1 mL of 10% aluminum nitrite solution, 0.1 mL of 1-M potassium acetate solution, and 2.8 mL of distilled water. The mixture was stirred and allowed to react for 30 min. Then, the absorbance was measured at 415 nm using a microplate reader (Spectramax i3, Molecular Devices, Sunnyvale, CA, USA). The measurements were compared to a quercetin (QE) calibration curve, and the results were expressed as milligrams of QE per 100 g of sample (mg QE 100 g-1).
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Quantifying Phenolics and Flavonoids in Peach Fruit

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The total phenolics and flavonoids contents of freeze-dried peach fruit samples were measured in triplicate using the methodology implemented previously in our laboratory and described by Baek et al. (11 (link)). For the total phenolics analysis, ethanolic extract (1 mg ml–1) or standard was mixed with 1 ml of 10% Folin–Ciocalteu’s phenol reagent and 1 ml of 2% sodium carbonate solution. The absorbance was measured at 750 nm using a microplate reader (Spectramax i3, Molecular Devices, Sunnyvale, CA, United States) after incubation of the samples at ambient temperature for 90 min in dark. A comparison of the measurement to the calibration curve of gallic acid was made, and the results were expressed as milligrams of gallic acid equivalents (GAE) per gram of sample (mg GAE g–1). For total flavonoids analysis, ethanolic extract (1 mg ml–1) of the extract was mixed with 1.5 ml of ethanol, 0.1 ml of 10% aluminum nitrite solution, 0.1 ml of 1-M potassium acetate solution, and 2.8 ml distilled water. The mixture was stirred and allowed to react for 30 min. Then, the absorbance was measured at 415 nm using a microplate reader Spectramax i3, Molecular Devices, Sunnyvale, CA, United States). The measurements were compared to a quercetin (QE) calibration curve, and the results were expressed as milligrams of QE per gram of sample (mg QE g–1).
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6

CGRP Quantification in Plasma Samples

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Affinity sorbent (A19482, SPI Bio, Bertin Pharma) was used with a pool of different sources of plasma to prepare CGRP-free plasma. The samples were then analyzed using a commercially available CGRP kit (Catalogue No. A05482, SPI Bio, Bertin Pharma), following the manufacturer’s procedures. The concentration of CGRP was measured using Ellman’s Reagent to detect the enzymatic activity of the acetylcholinesterase, where the intensity of the yellow color formed was proportional to the amount of CGRP present in the sample (Castillo-Silva et al., 2019 (link)). The absorbance was read at 405 nm on SpectraMax I3 (Molecular Devices, San Jose, California, United States). The absorbance was read at 405 nm on a SpectraMax I3 (Molecular Devices, San Jose, California, United States). The absorbance values of the standards were used to plot a standard curve, from which the absorbance values of experimental samples were interpolated to determine their concentrations. This test was performed in mice plasma taken on the seventh-day post-stress induction.
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Evaluating Cell Viability in 2D and 3D Cultures

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The cell viability in 2D culture was assessed by Cell Counting Kit-8 (Dojindo Molecular Technologies, Inc.) according to the manufacturer’s instructions. Briefly, SW480 cells were cultured with various concentrations of XAV939 for 72 h. Subsequently, 10 μL of CCK8 reagent was incubated with cells for 3 h, and then the absorbance at 450 nm was measured using a Spectramax® i3 (Molecular Devices). To determine the cell viability in 3D culture, a CytoSelect™ 96-Well Cell Transformation Assay (Cell Biolabs, Inc.) was performed according to the manufacturer’s instructions. Briefly, SW480 cells were embedded in 0.4% soft agar and treated with various concentrations of XAV939 for 6 days. The cells were then lysed and incubated with CyQuant GR dye. The fluorescence is proportional to the number of cells and was read using a Spectramax® i3 (Molecular Devices) with a 485/520-nm filter.
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8

Medulloblastoma Cell Viability Assay

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Medulloblastoma cells were plated onto the matrigel-coated 6 well plates. 7 days post irradiation cells were stained with 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) reagent (Fisher Scientific). MTT was dissolved in isopropanol and relative absorbance was quantified at 570nm in a plate reader (i3 SpectraMax, Molecular Devices). Percentage of viable cells was calculated as a quotient of relative absorbance of an irradiated sample and un-irradiated control sample.
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9

Cytotoxicity Assay for Engineered Cells

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To evaluate cytotoxicity, 5 × 104 luciferase engineered cells (NALM-6, SK-OV-3, LOX-IMVI, OVCAR-3) were co-cultured with T cells in a white flat bottom 96-well plate (Corning) at indicated effector:target for 6 or 24 h at 37 °C. After co-culture, 0.15 mg/mL D-Luciferin (Perkin Elmer, Waltham, MA) was added per well and luminescence was measured using a i3 SpectraMax (Molecular Devices, Sunnyvale, CA) across all wavelengths. Tumor cell viability was calculated as: ((Emission − Background)/(Tumor cell alone − Background)) × 100%. Each condition was tested in duplicate or triplicate.
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10

Evaluating Pre-adipocyte Viability with CMRO6

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Pre-adipocytes (3T3-L1, ATCC-173, Manassas, VA, USA) at a density of 1 × 104/well were seeded in 96-well cell culture plates containing 10% FBS-DMEM 30-2002 medium (FBS-ATCC 30-2020 and DMEM ATCC 30-2002, Manassas, VA, USA) and incubated at 37 °C, 5% CO2 for 24 h. After 24 h, the cells were treated with different concentrations of CMRO6 (0.98 µg/mL–500 µg/mL) for another 24 and 48 h under normal cell culture conditions. After that, 10µL of EZ-cytox reagent (DoGenBio, Seoul, South Korea # EZ-1000) was added to each well and incubated for 30 min to 60 min, and optical intensity was measured at a 450 nm (i3 Spectramax (Molecular Device, San Jose, CA, USA [15 (link)].
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