Ds 11

Manufactured by DeNovix

Sourced in United States, Japan

The DS-11 is a spectrophotometer designed for quantification and analysis of various biomolecules. It features a compact and portable design and offers accurate and reliable measurements across a wide range of sample types.

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Lab products found in correlation

Trizol reagent, by Thermo Fisher Scientific (16 mentions) Pierce bca protein assay kit, by Thermo Fisher Scientific (12 mentions) Trizol, by Thermo Fisher Scientific (7 mentions) Rneasy mini kit, by Qiagen (5 mentions) Extractrna reagent, by Evrogen (3 mentions) Onestep pcr inhibitor removal kit, by Zymo Research (3 mentions) Magcore, by RBC Bioscience (3 mentions) Agilent 2100 bioanalyzer, by Agilent Technologies (3 mentions) Mmlv rt kit, by Evrogen (3 mentions) Sensifast sybr no rox kit, by Meridian Bioscience (3 mentions) Ultra microspin silica c18 columns, by Nest Group (3 mentions) Reverse transcription kit, by Thermo Fisher Scientific (3 mentions) Nanodrop 1000, by Thermo Fisher Scientific (2 mentions) Tissuelyser 2, by Qiagen (2 mentions) High pure rna isolation kit, by Roche (2 mentions) High capacity cdna kit, by Thermo Fisher Scientific (2 mentions) Rneasy mini kit, by Zymo Research (2 mentions) Primescript rt reagent kit, by Takara Bio (2 mentions) Cfx96 real time pcr detection system, by Bio-Rad (2 mentions) Rotor gene instrument, by Qiagen (2 mentions)

Close spelling variants of this product

DS-11 spectrophotometer (470 citations) DS-11 FX spectrophotometer (87 citations) DS-11 FX (78 citations) DS-11 FX Spectrophotometer/Fluorometer (32 citations) DS-11 Series Spectrophotometer/Fluorometer (20 citations) DS-11 Nanodrop spectrophotometer (17 citations) DS-11 Series Spectrophotometer (16 citations) DS-11 FX Fluorometer (13 citations) DS-11 Series (7 citations) DS-11 FX instrument (5 citations)

152 protocols using ds 11

Protein Reduction, Alkylation, and Tryptic Digestion

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The samples were reduced with 10 mM dithiothreitol at 56 °C for 30 min followed by alkylation with 20 mM iodoacetamide for 30 min at room temperature in the dark. Proteins were precipitated overnight with ice-cold ethanol to a final concentration of 90% at -20 °C.
The samples were centrifuged at 14 000 g for 10 min at 4 °C. The ethanol was removed and the samples were resuspended in 100 mM ammonium bicarbonate and sonicated using a Bioruptor (45 cycles, 30 sec on/ 30 sec off), followed by centrifugation at 14 000 g for 10 min. The supernatants were then transferred to new tubes. Protein concentration was determined using a NanoDrop (DeNovix DS-11) at 280 nm. Samples (30 µg) were digested with trypsin (Promega, Madison, WI, USA) at a ratio of 1:50 w/w (enzyme:proteins) overnight at 37 °C in a total volume of 100 µL. Digestion was stopped using 10 µL of 10% trifluoroacetic acid (TFA). C18 columns (UltraMicroSpin Column C18, SUM SS18V, capacity 3-30 µg, The Nest group Inc., South Borough, were used for sample cleanup
according to the manufacturer's instructions. The samples were dried using a Speed Vac and resolved in 2% ACN/0.1% TFA. Peptide concentration was measured using a NanoDrop (DeNovix DS-11) at 215 nm.

Khademi S.M.H., Sahl C., Happonen L., Forsberg Å, & Påhlman L.I. (2023). The twin-arginine translocation system is vital for cell adhesion and uptake of iron in the cystic fibrosis pathogen Achromobacter xylosoxidans. Virulence.

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Plasma Pool Preparation for Multiomics

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For method setup, a plasma pool was prepared by combining plasma from all available A4, A5 and B4 aliquots (26 A4, 23 A5, and 27 B4 tubes), and 20 A3 aliquots from the first 20 rats of the cohort (96 aliquot tubes in total, plasma volume ~3 ml). For the validation phase, a second plasma pool was prepared using all available B3 aliquots (30 B3 tubes), the remaining 10 A3 aliquots and 20 A2 aliquots from the first 20 rats of the cohort (60 aliquot tubes in total, plasma volume ~3 ml). The remaining A1-A2 and B1-B2 aliquot tubes were preserved for future studies. For creating the plasma pools, frozen aliquots were thawed on ice and the hemolysis of each individual aliquot was measured with the NanoDrop-1000 and Denovix DS-11 spectrophotometers. Thawed plasma from all tubes were pooled and hemolysis in the total plasma pools were again measured with the NanoDrop-1000 and Denovix DS-11. Finally, various volumes of aliquots were taken from the plasma pools for RNA extraction.

Das Gupta S., Ndode-Ekane X.E., Puhakka N, & Pitkänen A. (2020). Droplet digital polymerase chain reaction-based quantification of circulating microRNAs using small RNA concentration normalization. Scientific Reports, 10, 9012.

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Quantifying Gene Expression in DHA-treated K562 Cells

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K562 cells were plated at a density of 4×10⁵/well in 6-well plates and cultured with or without DHA. After treatment with DHA for 24 h or 48 h, total RNA was isolated from cultured cells using RNA extraction kit (DP431, TIANGEN BIOTECH, Beijing, China) and the concentration of total RNA was measured spectrophotometer (DS-11, Denovix, US). cDNA was synthesized using a FastKing RT Kit (with gDNase) (KR116, TIANGEN BIOTECH, Beijing, China). RTPCR was performed using the TransStart^® Green qPCR SuperMix UDG kit (AQ111-01, TRANSGEN BIOTECH, Beijing, China) according to the manufacturer’s protocol. Quantitative RT-PCR was performed on a qTOWER3.0 PCR instrument (Jena, Germany) using two-stage program parameters provided by the manufacturer as follows: 2 mins at 50°C, 10 mins at 95°C, and then 40 cycles of 95°C for 15 s, 60°C for 32 s. Each sample was tested in triplicate using quantitative RT-PCR, and samples obtained from three independent experiments were used for the analysis of relative gene expression data using the 2^−ΔΔCT method. The primers were used in this study were listed in

Supplementary Table S1

. The quantity of each transcript was calculated as described in the instrument manual and normalized to the amount of GAPDH, a housekeeping gene. Where the ΔΔCt= [(Ct_{target gene} - Ct_GAPDH)_{Treatment group} - (Ct_{target gen}e - Ct_GAPDH)_{Control group}].

Gao P., Shen S., Li X., Liu D., Meng Y., Liu Y., Zhu Y., Zhang J., Luo P, & Gu L. (2020). Dihydroartemisinin Inhibits the Proliferation of Leukemia Cells K562 by Suppressing PKM2 and GLUT1 Mediated Aerobic Glycolysis. Drug Design, Development and Therapy, 14, 2091-2100.

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Analyzing IL-1α and 5α-reductase Expression

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According to the kit protocol (Favorgen Biotech Corp., Taiwan), the buffy coat fraction of whole blood cells will be used for total RNA extraction. RNA concentration will be analyzed using spectrophotometer (DS-11, DeNovix) at 260 nm. Purity will be considered as an A260/A280 ratio of about 2 (24). cDNA will be synthesized from high-quality mRNA using a cDNA synthesis kit (GeneAll Biotechnology Co.). Forward and reverse primers are selected after reviewing previous studies (25-27) and checked by primer designing tools (Primer Blast, OLIGO 7 primer analysis software), as shown in table I.
IL-1α and 5α-reductase expression levels will be assessed by SYBR-green real-time PCR detection method using the kit protocol (Yekta Tajhiz Azma, IRAN), and the StepOne real-time PCR system (Applied Biosystems, Foster City, California, USA). GAPDH (glyceraldehyde phosphate dehydrogenase) will be chosen as the housekeeping gene.

Zohrabi T., Hasan Sheikhha M., Jambarsang S., Nadjarzadeh A., Aflatoonian A, & Mozaffari-Khosravi H. (2023). Effect of dietary approaches to stop hypertension, and standard diets with and without curcumin on interleukin-1 alpha, 5-alpha reductase gene expressions, and androgenic and glycemic profile in polycystic ovary syndrome women undergoing in vitro fertilization treatment: A study protocol. International Journal of Reproductive Biomedicine, 21(5), 433-442.

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Protein Quantification Using BCA Assay

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The concentration of total protein in cell lysates was determined using Pierce™ BCA Protein Assay Kit (Thermo Fisher Scientific Inc., USA), according to the producer instruction. The assay uses the ability of proteins to a reduction of Cu²⁺ to Cu¹⁺ in an alkaline medium as well as the selective and sensitive colorimetric detection of Cu¹⁺ by bicinchoninic acid (BCA). The measurement of absorbance was performed at 562 nm using a microvolume spectrophotometer DS-11 (DeNovix^®, Wilmington, DE, USA).

Rok J., Rzepka Z., Maszczyk M., Beberok A, & Wrześniok D. (2021). Minocycline Impact on Redox Homeostasis of Normal Human Melanocytes HEMn-LP Exposed to UVA Radiation and Hydrogen Peroxide. International Journal of Molecular Sciences, 22(4), 1642.

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Placental RNA Extraction and cDNA Synthesis

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Samples of placental tissues were homogenized in liquid nitrogen. The powder was dissolved in 1 ml of Extract RNA Reagent (Evrogen, Russia). All procedures were carried out according to the manufacturer’s protocol. RNA concentration and 260/280 ratio was measured with spectrophotometer DS-11 (DeNovix, USA). For the reverse transcription reaction, 0.5 μg of total RNA was reverse transcribed using MMLV-RT kits (Evrogen, Russia).

Vishnyakova P.A., Volodina M.A., Tarasova N.V., Marey M.V., Tsvirkun D.V., Vavina O.V., Khodzhaeva Z.S., Kan N.E., Menon R., Vysokikh M.Y, & Sukhikh G.T. (2016). Mitochondrial role in adaptive response to stress conditions in preeclampsia. Scientific Reports, 6, 32410.

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Quantitative Analysis of Melanocyte Gene Expression

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The total RNA was extracted from melanocytes using TRIzol Reagent. Next, melanin polymers were removed from RNA extracts by the use OneStep™ PCR Inhibitor Removal Kit (Zymo Research, Irvine, CA, USA). The total amount of RNA was measured using a microvolume spectrophotometer DS-11 (DeNovix^®, Wilmington, DE, USA). Quantitative RT-PCR analysis was performed using SensiFAST™ SYBR No-ROX kit (Meridian Bioscience, Cincinnati, OH, USA) and specific primers for MITF, TYR and GAPDH genes (Sigma-Aldrich Inc., Germany). The primer sequences were presented in Table 1. The measurement was made using LightCycler^® 480II (Roche, Penzberg, Germany) according to the following reaction parameters: 45 °C for 10 min, 95 °C for 2 min, 45 cycles of 95 °C for 5 s, 60 °C for 10 s, 72 °C for 1 min and the final extension for 10 min at 72 °C. The mRNA levels were calculated using the 2^−ΔΔCt method. The obtained results were normalized using GAPDH expression and converted into expression level relative to the control.

Rok J., Rzepka Z., Kowalska J., Banach K., Beberok A, & Wrześniok D. (2021). Molecular and Biochemical Basis of Minocycline-Induced Hyperpigmentation—The Study on Normal Human Melanocytes Exposed to UVA and UVB Radiation. International Journal of Molecular Sciences, 22(7), 3755.

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Protein Quantification using BCA Assay

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The concentration of total protein in cell lysates was determined using Pierce™ BCA Protein Assay Kit (Thermo Fisher Scientific Inc., USA), according to the producer instruction. The assay is based on the ability of protein to reduction of Cu²⁺ to Cu¹⁺ in an alkaline medium as well as the selective and sensitive colorimetric detection of Cu¹⁺ by bicinchoninic acid (BCA). The measurement of absorbance was performed at 562 nm using a microvolume spectrophotometer DS-11 (DeNovix, Wilmington, DE, USA).

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Mouse Intestinal RNA Extraction and qRT-PCR

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RNA was extracted from the colon of the untreated and treated mice groups using the RNeasy Maxi kit (Cat no. 75162, QIAGEN, Hilden, Germany) according to the manufacturer’s instructions. Pure eluted mouse intestinal RNA concentrations were calculated using a nano-drop instrument (DS-11, DeNovix. Wilmington, DE, USA) and subjected to amplification and quantification using Verso SYBR Green 1-Step qRT-PCR Master Mix (Cat no. AB-4104/C, Thermo Fisher Scientific) reagents. Supplementary Table 1 shows the specific primers used for amplification and relative ratio quantification of our target gene transcripts (Tlr2, Ifng, Il4, Il13, Il10, and Tp53) and the β-actin gene (ACTB), which was utilized as the housekeeping reference gene. Each PCR sample was adjusted to a final volume of 25 µL, and the concentration of each RNA sample was approximately 500 ng/total volume. The PCR profiles of the current target gene expression have previously been described in ElHadad et al., 2019 (link), El Hadad et al., 2019 (link).

Hadad S.E., Alsolami M., Aldahlawi A., Alrahimi J., Basingab F., Hassoubah S, & Alothaid H. (2021). In vivo evidence: Repression of mucosal immune responses in mice with colon cancer following sustained administration of Streptococcus thermophiles. Saudi Journal of Biological Sciences, 28(8), 4751-4761.

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Total RNA Extraction from Tissue and Blood

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Total RNA was extracted from tissue and whole blood samples by RNeasy Mini Kits (Qiagen, LLC) in accordance with previously published methods^{52 (link)} which were modified from the TRIzol Reagent User Guide and RNeasy Mini Handbook. Immediately following collection, tissue and whole blood samples were stored in TRIzol or TRIzol LS reagent, respectively. Samples were stored refrigerated overnight to allow pathogen inactivation prior to being transferred to − 80 °C until RNA extraction was completed. Prior to extraction tissues were homogenized by TissueLyser II (Qiagen). Whole blood samples were not homogenized. RNA quantity and purity were assessed by NanoDrop 1000 (Fisher Scientific) or DS-11 + (DeNovix) spectrophotometer.

Reynolds E.S., Wooldridge J.T., Stevenson H.L, & Thangamani S. (2023). The Lone Star tick, Amblyomma americanum, salivary factors exacerbate the clinical outcome of Heartland virus disease in a small animal model. Scientific Reports, 13, 13304.

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