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16 protocols using i control microplate reader software

1

CD-A Release from Hydrogel Scaffold

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To determine the release of CD-A complex from the hydrogel, a calibration curve by plotting the CD-A absorbance (OD) at 472 nm against concentration of the complex (0–15 µM) was established (i-controlTM microplate reader software, TECAN Männedorf, Switzerland). The CD-A release from the scaffold complex was determined as follows: P/D/CD-A scaffolds were immersed in PBS 0.1 M, pH 7.4 at 37 °C, to allow the release of CD-A into the solution. Then, 50 μL of the release solutions were collected at 5, 10, 20, 30, 40, and 60 min. The absorbance of P/D/CD-A release products was recorded at 472 nm, and OD values were reported to the percentage of CD-A concentration based on the calibration curve.
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2

Quantification of Human M-CSF Levels

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Frozen supernatants were first thawed and purified/concentrated using prewashed Amicon® Ultra-2 mL columns (pore size 10 KDa; UFC201024, MilliporeSigma, Burlington, MA) at the maximum recommended centrifuge speed for 30 min at room temperature. Each concentrate was diluted with Assay Diluent B of the human M-CSF ELISA kit (ELH-MCSF-1, RayBio®, Peachtree Corners, GA) and run in duplicates. Absorbance was measured on the Infinite M1000 PRO microplate reader (wavelength 450 nm; Tecan Group Ltd, Mannedorf, Switzerland) using i-controlTM microplate reader software (Tecan, version 1.6.19.2). Raw concentrations, obtained from the human M-CSF standard dilution curve, were adjusted for the concentration factor and total cell number.
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3

Quantification of Human M-CSF Levels

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Frozen supernatants were first thawed and purified/concentrated using prewashed Amicon® Ultra-2 mL columns (pore size 10 KDa; UFC201024, MilliporeSigma, Burlington, MA) at the maximum recommended centrifuge speed for 30 min at room temperature. Each concentrate was diluted with Assay Diluent B of the human M-CSF ELISA kit (ELH-MCSF-1, RayBio®, Peachtree Corners, GA) and run in duplicates. Absorbance was measured on the Infinite M1000 PRO microplate reader (wavelength 450 nm; Tecan Group Ltd, Mannedorf, Switzerland) using i-controlTM microplate reader software (Tecan, version 1.6.19.2). Raw concentrations, obtained from the human M-CSF standard dilution curve, were adjusted for the concentration factor and total cell number.
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4

Cytotoxicity Evaluation of CD-A and Scaffold

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Cell viability was assessed using the MTT assay. To this end, mouse fibroblast cells (3T3) were grown in MEM, supplemented with 10% (v/v) FBS and 1% PSA. Then, the cells were seeded in a 96-well microplate at a cellular density of 1 × 104 cells/well and cultured overnight. After MEM removal, CD-A (1.25 to 5 μM) or P/D/CD-A scaffold release product, MEM (negative control, PC), or 10% DMSO (positive control, NC) were added to the wells. After 24 h incubation in cell culture conditions, the solutions were discarded and the MTT assay was performed. In this regard, the MTT solution (200 μL, 0.5 mg/mL) was added to the cells and incubated for 3 h at 37 °C. Then, 200 μL of isopropanol was added for 20 min. Next, the absorbance was recorded at 570 nm (i-controlTM microplate reader software, TECAN Männedorf, Switzerland). The samples were considered non-toxic if cellular viability was higher than 70% compared to NC (based on the ISO 10993:2009 1-12 regarding the biological evaluation of medical devices).
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5

Assessing PKC Activity in Cell Lysates

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Lysis buffer, made from Tris-buffered saline, Nonidet P 40 Substitute (1%), and SIGMAFAST Protease Inhibitors (used per instructions), was added to each well and plates were placed on ice for 10 min. Cells were scraped and lysate collected in prechilled tubes. Cell lysates were centrifuged at 13,000 x g for 15 min at 4°C and clear supernatants were transferred to new prechilled tubes, snap-frozen on dry ice, and stored at −80°C. Cell lysates were thawed on ice and assessed using a PKC Kinase Activity Assay Kit (used per instructions). An aliquot of each lysate was also assayed with a Bicinchoninic Acid (BCA) Kit for Protein Determination (used per instructions). Sample absorbance (optical density 450 nm or 562 nm, respectively) was recorded using an Infinite M1000 PRO microplate reader (Tecan Group Ltd, Männedorf, Switzerland) run by i-controlTM microplate reader software (Tecan), v1.6.19.2. Raw background-subtracted PKC activity values were normalized to total protein concentration.
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6

Assessing PKC Activity in Cell Lysates

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Lysis buffer, made from Tris-buffered saline, Nonidet P 40 Substitute (1%), and SIGMAFAST Protease Inhibitors (used per instructions), was added to each well and plates were placed on ice for 10 min. Cells were scraped and lysate collected in prechilled tubes. Cell lysates were centrifuged at 13,000 x g for 15 min at 4°C and clear supernatants were transferred to new prechilled tubes, snap-frozen on dry ice, and stored at −80°C. Cell lysates were thawed on ice and assessed using a PKC Kinase Activity Assay Kit (used per instructions). An aliquot of each lysate was also assayed with a Bicinchoninic Acid (BCA) Kit for Protein Determination (used per instructions). Sample absorbance (optical density 450 nm or 562 nm, respectively) was recorded using an Infinite M1000 PRO microplate reader (Tecan Group Ltd, Männedorf, Switzerland) run by i-controlTM microplate reader software (Tecan), v1.6.19.2. Raw background-subtracted PKC activity values were normalized to total protein concentration.
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7

Quantifying Protein Levels via Bradford Assay

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To ensure equal loading of samples in SDS-PAGE, protein concentrations were determined via Bradford assay. Standard samples (5ul of known BSA protein concentration in serial dilution ranging from 0-2mg/ml) and 5ul of experimental protein samples were loaded in duplicate into a 96-well plate along with 250ul Bradford reagent (Sigma, Cat: B6916). Absorbance was measured at 570nm using a Tecan infinite 5200 pro plate reader and iControl TM Microplate Reader Software. A standard curve was plotted from the standard samples of known protein concentration (conc. vs absorbance). The protein concentration of the experimental samples was determined by subtracting the absorbance from a blank control absorbance value, and then dividing by the slope of the standard curve.
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8

siRNA-mediated Cytotoxicity Assay

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For siRNA viability assay, 25 µL transfection medium containing 0.1 µL siRNAs/negative siRNA, 0.4 µL HiPerFect and 24.5 µL medium serum-free was incubated for 10 min at RT and added onto [1–5]×104 cells/well with 175 µL culture medium after seeding. For treatment viability assay, 2,500 cells/well were seeded in 96-well plate with 100 µL medium overnight and treated with the absence or presence of increasing concentrations of cisplatin (0.1, 1, 5, 10, 50, 100 µM) (Hexal AG, Holzkirchen, Germany) or pemetrexed (0.00632, 0.0125, 0.025, 1.5625, 3.125, 6.25, 12.5, 25, 50 µM) (Sigma-Aldrich, Taufkirchen, Germany) for indicated time as specified in the results. Cell proliferation was determined by MTS assay (Promega, Madison, WI, USA) according to the manufacturer’s protocol. Briefly, cells were incubated with 20 µL of CellTiter 96 Aqueous One Solution Reagent at 37 °C, 5% CO2 for 2 hours and 96-well plates were measured on a Tecan Reader Infinite 2000 using the i-control™ Microplate Reader Software at 490 and 650 nm.
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9

Cell Viability Evaluation via MTT Assay

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Cell viability was assessed using MTT assay. Briefly, HUVEC density of 2.104 cells/well was seeded and cultured overnight. Cells were treated with different samples: CD-NA and CD-SA (0–5 μM), any antioxidant (culture medium MEM, negative toxicity control, NTC), or 10% DMSO (positive toxicity control, PTC) during 24 h or 48 h. Afterwards, all solutions were washed and cells were incubated during 3 h at 37°C with 200 μL of MTT solution (0.5 mg/mL). Then, all wells were washed out of MTT solution and 200 μL of isopropanol were added for 20 min to solubilize the formazan crystals. The optical density was recorded at 490 nm (i-control microplate reader software, TECAN Männedorf, Switzerland). Not cytotoxicity of samples was considered if cellular viability was >70% of the control (based on the ISO 10993 : 2009 regarding the biological evaluation of medical devises).
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10

Quantifying Lipid Peroxidation Inhibition

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C11-BODIPY581/591 is a fluorescent fatty acid analogue which allows the quantification of lipid peroxidation by indirect measure of mitochondrial ROS production [43 (link)]. Upon free radical-induced oxidation, its fluorescent properties shift from red to green [44 (link)]. Ninety-six well plates containing the cells were washed with PBS, before addition of C11-BODIPY (5 μM, during 30 min). Cells were incubated with 5 μM of CD-NA and CD-SA for 1 h, under light protection. Lipid peroxidation was initiated by addition of Cumene hydroperoxide (CumOOH, 50 μM). Fluoresce was monitored at red λex/λem = 590/7, 632/45 nm and green λex/λem = 485/14, 520/10 nm (i-control microplate reader software, TECAN Männedorf, Switzerland). Percent of CD-A cellular lipid peroxide activity inhibition was calculated relative to the positive control fluorescence intensity (PC; CumOOH without antioxidant).
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