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41 protocols using sodium molybdate

1

Thermoplasma acidophilum Lipid Extraction

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Casamino acids and yeast extract were purchased from Merck A/S (Hellerup, Denmark). The following chemicals were purchased from Sigma–Aldrich (St. Louis, MO, USA): ammonium acetate, acetic acid, glucose, potassium phosphate, methylamine, ammonium sulfate, magnesium sulfate, ferric chloride, manganese(II) chloride, zink sulfate, copper sulfate, vanadyl sulfate, sodium molybdate, sodium tetraborate decahydrate, calcium chloride, and saccharose. Methanol and Chloroform (both HPLC-grade) were purchased from Rathburn (Walkerburn, Scotland). Main polar lipid (Hex-GDGT-PG) from Thermoplasma acidophilum was purchased from Matreya LLC (State College, PA, USA) and internal lipid standard PI 17:0/14:0 and IS PE O-20:0/O-20:0 were purchased from Avanti Polar lipids (Alabaster, AL, USA).
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2

Protein Extraction and Western Blotting

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Tissues were homogenized in lysis buffer (50 mM Tris-HCl pH 7.4, 250 mM NaCl, 0.5% (vol/vol) Igepal with complete protease and phosphatase inhibitors [protease inhibitors: 0.1 μm aprotonin (USB), 0.02 mM leupeptin (USB), 0.01 mM pepstatin (USB), 0.5 mM PMSF (Sigma); phosphatase inhibitors: 2 mM imidazole (Sigma), 1.15 mM sodium molybdate (Sigma), 1 mM sodium orthovanadate (Sigma), 5 nM microcystin (Calbiochem)]. Western blotting was performed with the following antibodies from: Cell Signaling Technology: BAP1 (#13271); Bethyl Laboratories: PBRM1 (A301-591A), Hif-1α (A300-286A); Novus Biologicals: CAIX (AF2344), Hif-2α (AF2997); Santa Cruz Biotechnology: VHL (sc-1534); Millipore: H2A (07-146), Ubiquityl-Histone H2A (05-678); Sigma: Tubulin (T5168); Thermo Fisher Scientific: HRP-conjugated goat anti-mouse IgG (#31430) and HRP-conjugated goat anti-rabbit IgG (#31460); Novus Biologicals: Donkey anti-Goat IgG Secondary Antibody (HAF109).
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3

Synthesis of Tribromobenzene Derivative

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1,3,5‐tribromobenzene (98%), tetrakis(triphenylphosphine)palladium (0) (99%), copper(I) iodide (≥99.5%), trimethylsilyl acetylene (≥98.0%), sodium hydroxide (≥99.0%), methyl alcohol (HPLC, ≥99.9%), hexane (99%), poly (methyl methacrylate), sodium molybdate (≥98.0%), optiPrep density gradient medium were purchased from Sigma‐Aldrich Inc. and used without purifications. The details synthesis processes are in Supporting Information.
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4

Antioxidant and Cytotoxicity Evaluation of Plant Extracts

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Methanol (HPLC or MS grade), ethanol, formic acid, acetic acid, hydrogen peroxide (30% solution), trichloroacetic acid (TCA), Folin–Ciocalteau’s reagent, 2-deoxy-D-ribose, sodium nitrite, sodium nitroprusside, potassium persulfate, sodium molybdate, aluminum chloride (III), ethylenediaminetetraacetic acid (EDTA), ascorbic acid, sulfanilamide, N-(1-naphthyl)ethylenediamine dihydrochloride, 2,2-azino-bis (3-ethylbenzothiazoline-6-sulfonic acid) diammonium salt (ABTS), (±)-6-hydroxy-2,5,7,8-tetramethylchromane-2-carboxylic acid (Trolox), thiobarbituric acid (TBA), and standards of rosmarinic acid, catechin, luteolin, apigenin, and ursolic acid were purchased from Sigma-Aldrich/Merck (Algés, Portugal). Caffeic acid was obtained from Extrasynthese® (Genay, France). Oleanolic acid was obtained from Santa Cruz Biotechnology Inc. (Frilabo; Porto, Portugal). Dulbecco’s Modified Eagle Medium (DMEM), sodium pyruvate, penicillin, streptomycin, versene, L-glutamine, trypsin-EDTA, and foetal bovine serum (FBS) were obtained from Gibco (Alfagene, Invitrogen, Portugal). Alamar Blue® was obtained from Invitrogen, Life-Technologies (Porto, Portugal).
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5

BFG Gas Utilization Protocol

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MV, BV, MB, NBT, PMS, TA, FAD, sodium molybdate, and sodium dithionite were purchased from Sigma-Aldrich (St. Louis, MO, USA). BugBuster® and Ni-NTA resin were bought from Novagen (Billerica, MA, USA) and Qiagen (Valencia, CA, USA), respectively. Pfu polymerase, EcoRI, HindIII, and DpnI were purchased from Enzymonics (Daejeon, Korea). As a CO-containing waste gas from the steelmaking process, BFG was prepared from Seongkwang (Seoul, Korea). Unless otherwise stated, all chemicals were used at the highest grade available without further purification.
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6

Reagent Procurement for Cell Culture Assays

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NS-398 was purchased from Alexis Deutschland GmbH (Grünberg, Germany). Aprotinin, Δ-glycerophosphate, ethylenediaminetetraacetic acid (EDTA), leupeptin, lovastatin lactone, luminal, mevastatin, p-coumaric acid, phenylmethylsulfonyl fluoride (PMSF), (R)-mevalonic acid lithium salt, sodium molybdate and sodium orthovanadate were obtained from Sigma-Aldrich (Taufkirchen, Germany). 4-(2-hydroxyethyl)-1-piperazineethanesulfonic acid (HEPES) was from Ferak (Berlin, Germany). Dimethyl sulfoxide (DMSO), dithiothreitol (DTT), glycerol, p-nitrophenylphosphate, sodium chloride, sodium dodecylsulfate (SDS) and sodium fluoride were from AppliChem (Darmstadt, Germany) and GW9662 and Nonidet® P-40 from Enzo Life Sciences (Lörrach, Germany). Lovastatin hydroxy acid, sodium salt, was provided from Toronto Research Chemical (Toronto, Canada) and Triton® X-100, acetonitrile (LC-MS grade) and trifluoroacetic acid (analytical grade) from Roth (Karlsruhe, Germany). Penicillin-streptomycin was from Invitrogen (Darmstadt, Germany). Dulbecco's Modified Eagle's medium (DMEM) with 4 mM L-glutamine and 4.5 g/L glucose was from Lonza (Cologne, Germany). Phosphate-buffered saline (PBS) and fetal calf serum (FCS) were obtained from PAN Biotech (Aidenbach, Germany).
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7

FLAG-Tagged Protein Purification Protocol

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After 24 h of incubation, all the plates were placed on ice. The medium was removed, and the cells were washed twice with ice cold PBS. After washing, 600 μl of ice-cold lysis buffer (25 mM Tris-HCl, pH 7.4, 150 mM NaCl, 1% NP-40, 1 mM EDTA, 5% glycerol) supplemented with protease and phosphatase inhibitors: PMSF, cOmplete Mini EDTA free Protease Inhibitor Coctail (Roche), Sodium molybdate (Sigma-Aldrich) and Sodium Orthovanadate (Sigma-Aldrich) was added. After 5 min of incubation with periodic mixing, the lysates were transferred to a microcentrifuge tube and centrifugated at 13000 x g for 15 min at 4 °C. The obtained soluble fractions were incubated for 2 h on ice with 20 μl of EZview™ Red ANTI-FLAG M2 Affinity gel (Sigma-Aldrich) pre-equilibrated with TBS buffer (50 mM Tris-HCl, 150 mM NaCl, pH 7.4). After incubation, the gel was washed four times with 500 μl of TBS buffer. Finally, the gel was incubated with 100 μl of elution buffer (TBS buffer supplemented with 100 μg/ml FLAG peptide, Sigma-Aldrich) for 30 min on ice. The eluted proteins were collected for further analysis.
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8

Pyrrole-Based Conductive Polymer Synthesis

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Chemicals used in this study included pyrrole (Py) monomer (98%), sodium salicylate (99.5%), sodium molybdate (98%), and sodium chloride (99.5%), all purchased from Sigma-Aldrich. Pyrrole monomer was purified by distillation prior to use and stored at a low temperature, protected from light. Graphene oxide (GO) was obtained from the Vietnam Academy of Science and Technology.
Commercial low-carbon steel was purchased from TISCO Company, Thai Nguyen, Vietnam. The composition (wt%) was 0.10% C, 0.5 Mn, 0.04 P, and 0.05 S.
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9

Biomimetic Graphite-Based Bioassays

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Graphite was purchased from Alfa Aesar (325 mesh, Thermo Fisher Scientific, Waltham, MA, USA). Bombyx mori cocoons were provided by the Miaoli District Agricultural Research and Extension Station, Council of Agriculture, Executive Yuan of the ROC. H2O2 (30%) was purchased from Merck Millipore (Billerica, MA, USA). HRP (Type VI, ≥250 units/mg solid, MW ~ 44.1 kDa), dopamine hydrochloride (MW = 153.18 Da), 1,10-phenanthroline (MW = 180.2 Da), potassium permanganate (MW = 158.03 Da), sodium nitrate (MW = 84.99 Da), sodium nitrite (MW = 68.99 Da), and sodium molybdate (MW = 205.92 Da) were bought from Sigma Aldrich (St. Louis, MO, USA). An MTS assay kit for in the biocompatibility test was purchased from Promega (Madison, WI, USA). The Bradford reagent for the protein assay was purchased from Bio-RAD Corp (Hercules, CA, USA).
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10

Phosphoproteomic Analysis of Cell Signaling

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Modified trypsin was from Promega (Madison, WI). Urea, Tris-HCL, ammonium bicarbonate (NH4HCO3), sodium fluoride (NaF), dibasic potassium phosphate (K2HPO4), sodium ortho-vanadate, sodium molybdate, beta-glycerophosphate, DL-dithiothreitol, thymidine, nocodazole and iodoacetamide were from Sigma-Aldrich (St. Louis, MO). HPLC-MS grade acetonitrile (ACN), acetone, trifluoroacetic acid (TFA) and water were from Honeywell Burdick and Jackson (Morristown, NJ). Methanol and SepPak C18 solid phase extraction cartridges were from Fisher (Pittsburgh, PA). High purity formic acid was from EMD (Gibbstown, NJ). Lactic acid was from Lee Biosolutions, Inc (St. Louis, MO). TiO2 beads were from GL Sciences (Tokyo, Japan). Dulbecco’s modified Eagle’s medium (DMEM), PBS, and penicillin-streptomycin were from Invitrogen (Carlsbad, CA). Hyclone fetal bovine serum (FBS), BCA protein assays, SOLAμ HRP desalting plates, and TMTzero Reagent (TMT0; hereafter “TMT”) were purchased from ThermoFisher Scientific (Pittsburgh, PA). HEPES free acid was from Amresco (Dallas, TX). Protease inhibitor tablets were from Roche (Basel, Switzerland). Calyculin A was from TOCRIS (Bristol, UK). Lysyl endopeptidase (Lys-C) was from Wako (Osaka, Japan).
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