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67 protocols using amicon ultra 0.5 ml

1

Far-UV CD Spectroscopy of Redox-Sensitive Protein

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Far-UV CD spectra of His-Sll1961WT in the reduced and oxidized forms were measured in the buffer containing 20 mM sodium phosphate (pH 7.4) and 150 mM NaCl with and without 3 mM DTT, respectively, at 0.2 mg ml−1 protein concentration adjusted using Amicon Ultra-0.5 mL (MWCO 10 kDa, Millipore). CD spectra were obtained on a J-805 spectropolarimeter (JASCO, Tokyo, Japan) by scanning from 250 nm to 200 nm in a quartz cuvette with a path length of 1 mm. The temperature for measurement was maintained at 25 °C by a thermostat circulating water bath. Mean residue ellipticity was calculated as described previously26 (link), assuming dimer formation of the protein. Fluorescence spectra of His-Sll1961WT were measured as described in Supplementary Text.
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2

Native MS Analysis of SpaPR Complex

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Purified SpaPRSTREP complex was concentrated to 20 μM in PBS/0.04% DDM, and buffer exchanged to 250 mM ammonium acetate, pH 7.5, complemented with 0.01% polyoxyethylene(9)dodecyl ether (C12E9) prior to native mass spectrometry analysis. Buffer exchange was carried out using Amicon Ultra 0.5 ml centrifugal filters with a 100-kDa cut-off (Millipore UK Ltd, Watford UK). Mass measurements were carried out on a Synapt G1 HDMS (Waters Corp., Manchester, UK) Q-ToF mass spectrometer [39 ]. The instrument was mass calibrated using a solution of 10 mg/ml cesium iodide in 250 mM ammonium acetate. 2.5 μL aliquots of samples were delivered to the mass spectrometer by means of nano-electrospray ionization via gold-coated capillaries, prepared in house [40 (link)]. Instrumental parameters were as follows: source pressure 6.0 mbar, capillary voltage 1.40 kV, cone voltage 150 V, trap energy 200 V, transfer energy 10 V, bias voltage 5 V, and trap pressure 1.63x10-2 mbar.
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3

Exosome Labeling and T-cell Interaction

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Purified exosomes derived from HC were labelled using a PKH67 green fluorescent labelling kit (MINI67-1KT, Sigma-Aldrich, MO, USA). Exosomes were incubated with 2 μM of PKH67 and washed using a 100-kDa filter (Amicon Ultra-0.5 mL, Millipore, Darmstadt, Germany) to remove excess dye. A control solution was prepared by the same procedure without exosomes. T cells were incubated with labelled exosomes or control solution for 24 h, followed by an examination using flow cytometer (FACS Canto II, BD Biosciences, NJ, USA) and fluorescence microscopy (BZ-X700, KEYENCE, Osaka, Japan).
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4

Iontophoresis and Microneedle Delivery of rhGH

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To evaluate the effect of molecular charge on rhGH, a permeation study investigating iontophoresis and microneedle treatment was conducted using two different buffers (PBS, pH 7.4 and citrate buffer, pH 4.0) to prepare a liquid rhGH formulation (isoelectric point = 5.27) with two different charges. Buffer exchange was performed using a centrifugal filter device (Amicon Ultra 0.5 mL, Millipore, Burlington, MA, USA) with a 3000-Da molecular weight cut-off. Because rhGH is negatively charged at pH 7.4 and positively charged at pH 4.0, formulations were delivered under cathodal and anodal iontophoresis, respectively. A constant current of 0.5 mA/cm2 was applied for 4 h through an Ag/AgCl electrode to both groups.
Furthermore, to evaluate the effect of current density on rhGH permeation, the permeation study on anodal iontophoresis and microneedle treatment was conducted using three different current densities. Current densities of 0.125, 0.25, or 0.5 mA/cm2 were applied for 4 h through Ag/AgCl electrodes.
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5

Denaturing PAGE for RNA Purification

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Enzymatic reactions were analysed by denaturing PAGE [4–8% polyacrylamide (acrylamide/N, N′-methylenebisacrylamide, 19:1), 7.5 M urea, 25% (v/v) formamide, 89 mM Tris, 89 mM boric acid, 2 mM EDTA]. The RNA samples were mixed with equal amount of 2× formamide loading solution [80% (v/v) formamide, 10 mM EDTA pH 8.0, 0.1 mg/mL xylene cyanol FF, 0.1 mg/mL bromophenol blue], and heated at 90 °C for 3 min before being loaded on the gel. The gels were electrophoresed and stained with SYBR Green II (Lonza) and visualised on a BioRad ChemiDoc XRS+ System (BioRad, Hercules, CA, USA), Luminescent Image Analyser LAS 4000 (Fujifilm, Tokyo, Japan) or FAS-IV Imaging System (Nippon Genetics, Tokyo, Japan). Low Range ssRNA Ladder (New England Biolabs, Ipswich, MA, USA) was used as the size marker. RNAs were also purified by preparative denaturing PAGE. The RNA bands were visualised by UV shadowing, and crushed and extracted with water. The extracts were desalted by centrifugation with Amicon Ultra-0.5 mL or Amicon Ultra-4 mL centrifugal filter unit (Millipore, Billerica, MA, USA), according to the manufacturer’s instructions. The RNAs were then precipitated with sodium acetate (pH 5.2) and 2-propanol.
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6

Concentration and Characterization of Skin Formulation

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VISCODERM® Skinkò E formulation was concentrated on a polyethylene sulfate membrane with a nominal molecular weight limit (NMWL) of 3 kDa (Amicon Ultra 0.5 mL Centrifugal filter: Ultracel 3 kDa, Millipore). The concentration was diafiltered using 2 volumes of HPW (High Purified Water). Successively, the ultrafiltration (UF) retentate on the 3 kDa centricon tube was recovered and eventually diluted for the hydrodynamic characterization by SEC-TDA; whereas, the permeate 3 kDa was analyzed by uronic acid assay (E.P. ed 5.0: 2.2.25). This last assay quantified the residual HA in the permeate and diafiltered sample that accounted for about the 25% w/w of the initial HA amount. Therefore, the permeate 3 kDa contained all the Skinkò E components and a residual 1,84 mg/mL of HA. This was diluted 1:2, tested as for Skinkò E, and thus, the final concentration of HA in the cell's plate was 3,2 mg/mL for the complete formulation and only 0,92 mg/mL for the permeation. In this case, the HA effect should be reduced with respect to the other compounds present in the formulation.
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7

Synthesis and Characterization of Silver Nanoparticles

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Silver nitrate (AgNO3) was purchased from Kojima Chemicals Co., Ltd. Polyvinylpyrrolidone powder (PVP, average M.W. ~ 29,000), sodium citrate (trisodium salt: dehydrate) (Na3CA, ≥ 99.5%), sodium borohydride (NaBH4, ≥ 98.0%), L-homocysteine (Hcy), L-cysteine (Cys), L-glutathione reduced (GSH), L-lysine (Lys), L-tyrosine (Tyr), L-glutamic acid (Glu), L-asparagine (Asn), L-phenylalanine (Phe), L-methionine (Met), glycine (Gly), L-alanine (Ala), L-histidine (His), L-leucine (Leu), and L-tryptophan (Trp), and human serum (from human male AB plasma) were purchased from Sigma-Aldrich. Hydrogen peroxide (H2O2, 35%) was purchased from Junsei Chemical Co., Ltd. Centrifugal filters (Amicon Ultra-0.5 mL, Ultracel -3 K) were obtained from Millipore. All reagents were used without further purification. The ultrapure water was prepared from a Millipore Q-Gard water purification system (Milli-Q) with a filter membrane of 0.22 µm, which was used for the preparation of aqueous solutions of all the reagents.
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8

Synthesis of Docosahexaenoic Acid-Conjugated SBT-1214

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Synthesis of Docosahexaenoic acid conjugate of SBT-1214 (i.e., DHA-SBT-1214) was performed by ChemMaster International, Inc. (Stony Brook, NY) and DHA-SBT-1214 structure is available on company website and has also been reported previously 7 (link), 29 (link), 30 (link). Following reagents were purchased from the respective vendors. Omega-3 rich fish oil from Jedwards International (Quincy, MA), Protease inhibitors, Gemcitabine (GEM), paclitaxel (PTX) and Tween 80 from Sigma Chemicals, Inc. (St. Louis, MO), Lipoid E80 from Lipoid GMBH (Ludwigshafen, Germany), DSPE PEG2000 from Avanti Polar Lipids, Inc. (Alabaster, AL), Dulbecco’s Modified Eagle Medium (DMEM) and LAL endotoxin quantitation kit from Thermo Scientific (Rockford, IL). Trypsin, Penicillin, and streptomycin were purchased from Invitrogen (Grand Island, NY, USA). Amicon Ultra-0.5ml, Centrifugal filters from Millipore (Cork, Ireland). All other analytical grade reagents were purchased through Fisher Scientific. Female C57BL/6 mice (4–6 weeks old) were obtained from Charles River Laboratories Cambridge, MA).
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9

Exosome Labeling and Purification

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Exosomes were isolated from the cell culture media and serum with total exosome isolation reagent (Thermo Fisher Scientific, MA, USA). The concentration of exosomal proteins was quantified with a BCA Protein Assay Kit (Beyotime, Nanjing, China). The purified exosomes were incubated with 4 μM of PKH67 (MIDI67, Sigma ‐Aldrich, MO, USA) and excess dye was removed using a 100‐kDa filter (Amicon Ultra‐0.5 mL, Millipore, Darmstadt, Germany). These nuclei were then labeled with 4’,6‐diamidino‐2‐phenylindole (DAPI) according to the manufacturer's guidelines (Beyotime).
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10

Preparation of Hydrolyzed β-Lactam Antibiotics

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Hydrolysed forms of the β-lactam antibiotics (ampicillin, cephalexin, and amoxicillin) were prepared by dissolving the drug in KPi buffer (100 mM, pH 7) to form stock solutions (10 mM). To 1 mL of antibiotic stock solution was added 100 μL β-lactamase blend (β-lactamase I (60–1500 IU/mL) and β-lactamase II (6–15 IU/mL)) in KPi buffer (50 mM, pH 7). The solutions were then vortexed and incubated for 48 h at 37 °C. β-lactamase enzymes were then removed from the solution using a centrifugal filter (Amicon® Ultra 0.5 mL, Millipore (UK) Limited, Watford, UK) with a 30 KDa cut-off and the hydrolysed β-lactam recovered. Hydrolysis of the β-lactam was confirmed by high resolution mass spectrometry and 1H NMR.
For use in the assay, serial dilutions of the stock concentration of the hydrolysed β-lactam antibiotics (10 mM) were prepared in KPi buffer (100 mM) at the required pH between 1 nM and 10 mM.
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