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2 deoxyribose

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2-deoxyribose is a monosaccharide that serves as the backbone of deoxyribonucleic acid (DNA). It is a sugar molecule that lacks an oxygen atom at the second carbon position compared to ribose, the sugar component of ribonucleic acid (RNA). 2-deoxyribose is a key structural component of DNA and is essential for the storage and transmission of genetic information in living organisms.

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11 protocols using 2 deoxyribose

1

Antioxidant Activity Assays Protocol

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Sodium nitrite (NaNO2); sodium carbonate (Na2CO3); sodium hydroxide (NaOH); folin-ciocalteu reagent; 2, 2-diphenlyl-1-picrylhydrazyl (DPPH); aluminium chloride hexahydrate (AlCl3.6H2O); ferric chloride (FeCl3); phenazine methosulphate (PMS); nitro blue tetrazolium (NBT); trichloroacetic acid (TCA); thiobarbituric acid (TBA); ammoniummolybdate; hydrogen peroxide (H2O2); sodium phosphate; sulphuric acid; ethylenediaminetetraacetic acid (EDTA); 2, 2 azo bis, 3-ethylbenzothiozoline-6-sulphonic acid (ABTS); 2-deoxyribose; ascorbic acid; potassium ferricyanide [K3Fe (CN)6]; reduced glutathione (GSH); potassium persulfate (K2S2O8); bovine serum albumin (BSA) and 1,2-dithio-bis nitro benzoic acid (DTNB) were purchased from Sigma Co. (St. Louis, USA). All the solvents i.e. acetonitrile, methanol, acetic acid, dimethylsulfoxide (DMSO), hexane, chloroform, ethyl acetate and butanol were purchased from Sigma-Aldrich, Germany. Chemical standards for quercetin, myricetin, kaempferol, catechin, gallic acid, caffeic acid, rutin and apigenin were of analytical grade.
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2

Antioxidant and Redox Activity Assays

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Thiobarbituric acid (TBA); lipoxygenase from soybean; nitroblue tetrazolium (NBT); reduced form of nicotinamide adenine dinucleotide (NADH) and N-phenylmethazonium methosulfate (PMS) were purchased from Fluka, Biochemika, Sigma-Aldrich, Steinheim, Germany. Linoleic acid sodium salt; 2,2’-azino-bis (3-ethylbenzothiazoline-6-sulphonic acid) diammonium salt (ABTS); 2,2-diphenyl-1-picrylhydrazyl (DPPH); nordihydroguaiaretic acid (NDGA) and 2-deoxyribose were purchased from Sigma-Aldrich, Steinheim, Germany. Trichloroacetic acid was purchased from VWR, Leuven, Belgium. Ferrozine iron reagent hydrate; ethylenediaminetetraacetic acid (EDTA); FeCl2.4H2O, FeCl3; and potassium persulfate were purchased from Acros organics, New Jersey, USA. L(+)-Ascorbic acid and boric acid were purchased from Merck, Darmstadt, Germany. KH2PO4-K2HPO4; FeSO4.7H2O were purchased from Panreac, Barcelona, Spain. H2O2 was purchased from Fisher Scientific, New Jersey, USA. L-α-lecithin of soybean was purchased from CALBIOCHEM, Darmstadt, Germany. Chloroform was purchased from lab-scan, Dublin; Folin Ciocalteu's phenol reagent, was purchased from Panreac Química SA (Barcelona, Spain). Gallic acid; Na2CO3; acetic acid; acetic acid; sodium dodecyl sulfate (SDS); KCl; butanol; butylated hydroxytoluene (BHT); mannitol KCl were purchased from Riedel de Haen (Seelze, Germany).
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3

Hydroxyl Radical Scavenging Assay Protocol

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Hydroxyl radical scavenging activity (HRSA) was determined according to the method of Halliwell and Gutteridge [17 (link)]. The reaction mixture consisted of 100 μl of 50 mM 2-deoxyribose (Sigma-Aldrich, USA), 100 μl of 50 mM hydrogen peroxide (Merck, Germany), 100 μl of 3.2 mM iron chloride (Sigma-Aldrich, USA), and 100 μl of 1 mM disodium EDTA (Sigma-Aldrich, USA), with or without 100 μl of plant extract at various concentrations. Butylated hydroxytoluene (BHT) (Sigma-Aldrich, USA) was used as a positive control. The reaction was triggered by adding 100 μl of 1.8 mM L-ascorbic acid (Ajax Finechem, USA) and incubated at 37 °C for 60 min. The reagent mixture, containing 500 μl of 10% trichloroacetic acid (TCA) (Merck, Germany) and 500 μl of 5% 2-thiobarbituric acid (TBA) (Merck, Germany), was added and boiled in a water bath at 95 °C for 30 min. After cooling at room temperature for 10 min, the absorbance was measured at 532 nm. The assays were performed in triplicate. The percentage of HRSA was calculated by using the following formula, and the results are shown as IC50 values:
%HRSA=AbscontrolAbssampleAbscontrol×100
where Abs control is the absorbance without sample and Abs sample is the absorbance with sample.
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4

Isolation and Purification of Thiacremonone from Heated Garlic

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Ascorbic acid, xanthine, XO grade I from buttermilk (EC 1.1.3.22), nitro blue tetrazolium (NBT), hydrogen peroxide (H2O2), 2-deoxyribose, ferrous sulfate, ACE, and Hip-His-Leu (HHL) were purchased from Sigma-Aldrich Co. (St. Louis, MO, USA). Water, dichloromethane, and methanol were purchased from J. T. Baker (Phillipsburg, NJ, USA). All other reagents were of analytical grade. Garlic was purchased from the Chungbuk Agriculture and Marine Products Market in Korea in June 2007 and was stored at −20°C. Heat treatment was performed using a temperature- and pressure-controlling apparatus (Jisico, Seoul, Korea). The samples were heated at temperatures of 130°C for 2 h. Thiacremonone was isolated according to the Hwang et al. method (13 ). Heated garlic juice was partitioned consecutively in a separating funnel using ethyl acetate. Isolation of thiacremonone from the ethyl acetate layer of heated garlic juice was subjected to column chromatography on silica gel. The fractions included thiacremonone were purified by preparative reverse phase-HPLC (Discovery® C18 column; 250×10 mm, i.d., 5 μm; Supelco, Bellefonte, PA, USA) on a SP930D solvent delivery pump (Younglin Instrument, Anyang, Korea) equipped with a UV detector, operating at 365 nm, at room temperature, and a flow rate of 3.5 mL/min. The pure thiacremonone was obtained after evaporating the solvents using a rotary evaporator.
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5

Antioxidant Potential Evaluation

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Potassium dichromate (K2Cr2O7) and copper sulphate (CuSO4.5H2O), FeSO4, Griess modified reagent, 2-deoxyribose, 2-thio-barbituric acid, (2,20-azobis(2-amidinopropan) dihydrochloride [AAPH]); sodium nitroprusside (SNP), trichloroacetic acid, hydrogen peroxide, ascorbic acid, acetic acid, and polyoxyethylenesorbitan monolate (Tween 80); dimethyl sulfoxide (DMSO) were purchased from Sigma Co. All other reagents were of analytical grade.
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6

Antioxidant and Free Radical Scavenging Assays

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Ascorbic acid, bovine serum albumin, catalase, coumarine, 2,2’- Azino-bis-3-ethyl benzthiazoline-6-sulphonic acid (ABTS), 2-deoxyribose, GalN, 1,1-diphenyl-2-picrylhydrazyl (DPPH), gallic acid, glutathione(GSH), malonaldehyde, nitro blue tetrazolium, quercetin, thiobarbituric acid etc., were obtained from Sigma-Aldrich (St. Louis, MO, USA) and precoated silica gel plates (Merck, 60F254, 20 cm Χ 20 cm) from Germany. Other chemicals and solvents were AR grade and procured from Merck, India. Biological commercial kits were procured from Cogent (Span Diagnostics Ltd., Surat, India).
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7

Antioxidant Screening of Cell Culture Reagents

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Dulbecco's modified Eagle's medium (DMEM), fetal bovine serum (FBS), phosphate-buffered saline (PBS) and trypsin were purchased from Gibco (Grand Island, NY, USA). Ethylenediaminetetraacetic acid (EDTA), 2,2′-azino-bis (3-ethylbenzothiazoline-6-sulfonic acid), diammonium salt (ABTS), horseradish peroxidase (HRP), 2,2-diphenyl-1-picrylhydrazyl (DPPH), ferric chloride, 2-deoxyribose, nicotinamide adenine dinucleotide (NADH), nitroblue tetrazolium (NBT), phenazine methosulfate (PMS), mercury orange and 2,7-dichlorofluorescein diacetate (DCF-DA) were obtained from Sigma-Aldrich (St. Louis, MO, USA). Trichloroacetic acid (TCA) and 2-thiobarbituric acid (TBA) were purchased from Merck (Darmstadt, Germany) and potassium ferricyanide was obtained from AppliChem (Dresden, Germany). The cell proliferation kit II (XTT) was purchased from Roche Diagnostics (Mannheim, Germany).
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8

Antioxidant and Cytotoxicity Assays in HepG2 Cells

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Doxorubicin, formalin, ketamine (Indus Pharma Lahore), xylazine (Prix Pharmaceutical Lahore), and ether were all utilized as analytical grade chemicals in scientific studies. DPPH, ferric chloride, 2-deoxyribose, NADH, nitroblue tetrazolium (NBT), and phenazine methosulfate (PMS) 3-(4,5-dimethythiazol-2-yl)-2,5-diphenyl tetrazolium bromide (MTT), were purchased from Sigma-Aldrich; Merck KGaA, respectively. The hepatocellular carcinoma (HepG2) cell line was used in this study.
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9

Antioxidant and Free Radical Scavenging Assays

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Trolox, 2,2-diphenyl-1-picrylhydrazyl (DPPH), 2,20-azinobis(3-ethylbenzthiazoline-6-sulfonic acid) (ABTS), thiobarbituric acid (TBA), trichloroacetic acid (TCA), sodium nitroprusside (SNP), 2,20-azobis-2-amidinopropane dihydrochloride (AAPH), 2-deoxyribose and potassium ferricyanide were purchased from Sigma-Aldrich Co. (St. Louis, MO, USA). All chemicals and solvents used were of analytical grade.
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10

Enzymatic synthesis of glucuronic acid derivatives

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Lactate dehydrogenase and pyruvate kinase were purchased from Sigma-Aldrich. Ethanolamine phosphate, d-glucuronate, ATP, NADH, MgCl2, and 2’-deoxyribose were purchased from Sigma Aldrich. Methyl-β-d-glucuronic acid (6) was acquired from Carbosynth. The chemical synthesis of (R/S) serinol phosphate (7) and (S)-serinol phosphate (8) was conducted as described previously (15 (link)). The structures of the substrates and products made for this investigation are presented in Figure 2.
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