qubit fluorometer  (Thermo Fisher)


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    Name:
    Qubit 4 Fluorometer
    Description:
    The Qubit 4 Flurometer is the latest version of the popular Qubit fluorometer designed to accurately measure DNA, RNA, and protein quantity, and now also RNA integrity and quality, using the highly sensitive Qubit assays. The Qubit 4 Fluorometer was re-engineered to run the Qubit RNA IQ (integrity & quality) assay. The Qubit 4 Fluorometer and RNA IQ Assay Kit work together to accurately distinguish intact from degraded RNA in just two easy steps. For all Qubit assays, the concentration or quality of the target molecule in the sample is reported by a fluorescent dye that emits a signal only when bound to the target, which minimizes the effects of contaminants on the result. The easy-to-use touch-screen menus make it easy to select and run the assays you need, with results displayed in just a few seconds. Key features of the Qubit 4 Fluorometer include: • Fast and highly accurate quantitation of DNA, RNA, and protein in less than three seconds per sample • Measures intact RNA in less than 5 seconds per sample • High levels of accuracy using only 1–20 μL of sample, even with very dilute samples • On-board Reagent Calculator quickly generates Qubit working solution preparation instructions • Stores results from up to 1000 samples • Large 5.7-inch, state-of-the-art color touch screen for easy workflow navigation • Graphical display indicates when samples are in the extended range or out of range • Small footprint saves space on your bench • Exports data to a USB drive or directly to your computer via a USB cable • Ability to personalize your Qubit fluorometer with the assays you run most, add new assays, or even create your own assays with the MyQubit software and web tool • Language of your choice including English, French, Spanish, Italian, German, simplified Chinese, and JapaneseLearn more about the Qubit Fluorometer › The Qubit 4 Flurometer can also be used to directly measure the fluorescence of samples using Fluorometer mode. Additionally, Ion Sphere Particle quality can be evaluated on the Qubit 4 Fluorometer using the Ion Sphere Quality Control Kit prior to performing a sequencing run on the Ion PGM sequencer. Enables more accurate results than with UV absorbance at low concentrations The Qubit 4 Fluorometer is far more sensitive than UV absorbance, which measures anything absorbing at 260 nm, including DNA, RNA, protein, free nucleotides, or excess salts. Moreover, UV spectrophotometry is often not sensitive enough to accurately measure low concentrations of DNA and RNA. With the Qubit fluorometer, your research is enhanced by more accurate measurements because the dyes in the Qubit assay kits fluoresce only when bound to the selected molecule (DNA, RNA or protein) in your sample. This allows you to avoid repeating work due to inaccurate measurements. Fast, simple, and accurate measurement of RNA quality The Qubit RNA IQ assay provides a fast, simple method to check whether an RNA sample has degraded. The assay utilizes two unique dyes: one that binds to large, intact RNA, and another that selectively binds to small, degraded RNA. Together they enable you to quickly assess the quality and integrity of an RNA sample. To use, simply add your samples to the RNA IQ working solution, then measure on the Qubit 4 Fluorometer. Save samples and bench space The thoughtfully designed Qubit 4 Fluorometer requires samples of only 1–20 µL. It is intended for use at room temperature and occupies only a small amount of bench space. The Qubit 4 Fluorometer features advanced optics and data analysis algorithms, and comes equipped with a USB thumb drive and cable for data transfer to Excel software and for software downloads, as well as a universal power supply, four plug adapters, and electromagnetic CE certification. Single sample measurements are a breeze This user-friendly fluorometer is combined with quick and simple assay procedures. Calculations and settings are automatically performed by the instrument. The Qubit assays for use with the Qubit 4 Fluorometer are all performed using the same general protocol, which uses a simple mix-and-read format with incubation times of only two minutes for the DNA and RNA assays. 500 L thin-walled PCR tubes (Cat. No. Q32856) are required. System specifications include: Instrument dimensions: 5.4"(w) x 10" (l) x 2.2" (h) (13.6 cm x 25 cm x 5.5 cm) Weight: 743 g Dynamic range: 5 orders of magnitude Processing time: ≤seconds/sample Light sources: blue LED (max ~470 nm), red LED (max ~635 nm) Excitation filters: blue (430–495 nm), red (600–645 nm) Emission filters: green (510–580 nm), red (665–720 nm) Detectors: photodiodes, measurement capability from 300–1,000 nm Warm-up time: <35 seconds USB thumb drive: 4 GB
    Catalog Number:
    Q33226
    Price:
    None
    Applications:
    DNA & RNA Purification & Analysis|DNA Quantitation|Protein Assays and Analysis|Protein Biology|Protein Quantitation|RNA Quantitation|Nucleic Acid Quantitation
    Size:
    1 fluorometer
    Category:
    Instruments and Equipment, Spectroscopy & Elemental Analysis Instruments & Equipment, Fluorometers
    Buy from Supplier


    Structured Review

    Thermo Fisher qubit fluorometer
    <t>DNA</t> degradation. DNA recovery after bisulfite treatment was determined with the <t>Qubit</t> fluorometer. DNA recovery with the Epigentek kit was 33.2% ± 3.4%, with the Promega kit was 52% ± 3%, with the Diagenode kit was 55% ± 2.6% and with the Qiagen kit was 50.2% ± 2%. The BisulFlash DNA Modification kit was shown to have a significantly decreased average yield with respect to all other kits (FWER
    The Qubit 4 Flurometer is the latest version of the popular Qubit fluorometer designed to accurately measure DNA, RNA, and protein quantity, and now also RNA integrity and quality, using the highly sensitive Qubit assays. The Qubit 4 Fluorometer was re-engineered to run the Qubit RNA IQ (integrity & quality) assay. The Qubit 4 Fluorometer and RNA IQ Assay Kit work together to accurately distinguish intact from degraded RNA in just two easy steps. For all Qubit assays, the concentration or quality of the target molecule in the sample is reported by a fluorescent dye that emits a signal only when bound to the target, which minimizes the effects of contaminants on the result. The easy-to-use touch-screen menus make it easy to select and run the assays you need, with results displayed in just a few seconds. Key features of the Qubit 4 Fluorometer include: • Fast and highly accurate quantitation of DNA, RNA, and protein in less than three seconds per sample • Measures intact RNA in less than 5 seconds per sample • High levels of accuracy using only 1–20 μL of sample, even with very dilute samples • On-board Reagent Calculator quickly generates Qubit working solution preparation instructions • Stores results from up to 1000 samples • Large 5.7-inch, state-of-the-art color touch screen for easy workflow navigation • Graphical display indicates when samples are in the extended range or out of range • Small footprint saves space on your bench • Exports data to a USB drive or directly to your computer via a USB cable • Ability to personalize your Qubit fluorometer with the assays you run most, add new assays, or even create your own assays with the MyQubit software and web tool • Language of your choice including English, French, Spanish, Italian, German, simplified Chinese, and JapaneseLearn more about the Qubit Fluorometer › The Qubit 4 Flurometer can also be used to directly measure the fluorescence of samples using Fluorometer mode. Additionally, Ion Sphere Particle quality can be evaluated on the Qubit 4 Fluorometer using the Ion Sphere Quality Control Kit prior to performing a sequencing run on the Ion PGM sequencer. Enables more accurate results than with UV absorbance at low concentrations The Qubit 4 Fluorometer is far more sensitive than UV absorbance, which measures anything absorbing at 260 nm, including DNA, RNA, protein, free nucleotides, or excess salts. Moreover, UV spectrophotometry is often not sensitive enough to accurately measure low concentrations of DNA and RNA. With the Qubit fluorometer, your research is enhanced by more accurate measurements because the dyes in the Qubit assay kits fluoresce only when bound to the selected molecule (DNA, RNA or protein) in your sample. This allows you to avoid repeating work due to inaccurate measurements. Fast, simple, and accurate measurement of RNA quality The Qubit RNA IQ assay provides a fast, simple method to check whether an RNA sample has degraded. The assay utilizes two unique dyes: one that binds to large, intact RNA, and another that selectively binds to small, degraded RNA. Together they enable you to quickly assess the quality and integrity of an RNA sample. To use, simply add your samples to the RNA IQ working solution, then measure on the Qubit 4 Fluorometer. Save samples and bench space The thoughtfully designed Qubit 4 Fluorometer requires samples of only 1–20 µL. It is intended for use at room temperature and occupies only a small amount of bench space. The Qubit 4 Fluorometer features advanced optics and data analysis algorithms, and comes equipped with a USB thumb drive and cable for data transfer to Excel software and for software downloads, as well as a universal power supply, four plug adapters, and electromagnetic CE certification. Single sample measurements are a breeze This user-friendly fluorometer is combined with quick and simple assay procedures. Calculations and settings are automatically performed by the instrument. The Qubit assays for use with the Qubit 4 Fluorometer are all performed using the same general protocol, which uses a simple mix-and-read format with incubation times of only two minutes for the DNA and RNA assays. 500 L thin-walled PCR tubes (Cat. No. Q32856) are required. System specifications include: Instrument dimensions: 5.4"(w) x 10" (l) x 2.2" (h) (13.6 cm x 25 cm x 5.5 cm) Weight: 743 g Dynamic range: 5 orders of magnitude Processing time: ≤seconds/sample Light sources: blue LED (max ~470 nm), red LED (max ~635 nm) Excitation filters: blue (430–495 nm), red (600–645 nm) Emission filters: green (510–580 nm), red (665–720 nm) Detectors: photodiodes, measurement capability from 300–1,000 nm Warm-up time: <35 seconds USB thumb drive: 4 GB
    https://www.bioz.com/result/qubit fluorometer/product/Thermo Fisher
    Average 99 stars, based on 998 article reviews
    Price from $9.99 to $1999.99
    qubit fluorometer - by Bioz Stars, 2019-09
    99/100 stars

    Images

    1) Product Images from "Bisulfite Conversion of DNA: Performance Comparison of Different Kits and Methylation Quantitation of Epigenetic Biomarkers that Have the Potential to Be Used in Non-Invasive Prenatal Testing"

    Article Title: Bisulfite Conversion of DNA: Performance Comparison of Different Kits and Methylation Quantitation of Epigenetic Biomarkers that Have the Potential to Be Used in Non-Invasive Prenatal Testing

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0135058

    DNA degradation. DNA recovery after bisulfite treatment was determined with the Qubit fluorometer. DNA recovery with the Epigentek kit was 33.2% ± 3.4%, with the Promega kit was 52% ± 3%, with the Diagenode kit was 55% ± 2.6% and with the Qiagen kit was 50.2% ± 2%. The BisulFlash DNA Modification kit was shown to have a significantly decreased average yield with respect to all other kits (FWER
    Figure Legend Snippet: DNA degradation. DNA recovery after bisulfite treatment was determined with the Qubit fluorometer. DNA recovery with the Epigentek kit was 33.2% ± 3.4%, with the Promega kit was 52% ± 3%, with the Diagenode kit was 55% ± 2.6% and with the Qiagen kit was 50.2% ± 2%. The BisulFlash DNA Modification kit was shown to have a significantly decreased average yield with respect to all other kits (FWER

    Techniques Used: Modification

    2) Product Images from "Bisulfite Conversion of DNA: Performance Comparison of Different Kits and Methylation Quantitation of Epigenetic Biomarkers that Have the Potential to Be Used in Non-Invasive Prenatal Testing"

    Article Title: Bisulfite Conversion of DNA: Performance Comparison of Different Kits and Methylation Quantitation of Epigenetic Biomarkers that Have the Potential to Be Used in Non-Invasive Prenatal Testing

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0135058

    DNA degradation. DNA recovery after bisulfite treatment was determined with the Qubit fluorometer. DNA recovery with the Epigentek kit was 33.2% ± 3.4%, with the Promega kit was 52% ± 3%, with the Diagenode kit was 55% ± 2.6% and with the Qiagen kit was 50.2% ± 2%. The BisulFlash DNA Modification kit was shown to have a significantly decreased average yield with respect to all other kits (FWER
    Figure Legend Snippet: DNA degradation. DNA recovery after bisulfite treatment was determined with the Qubit fluorometer. DNA recovery with the Epigentek kit was 33.2% ± 3.4%, with the Promega kit was 52% ± 3%, with the Diagenode kit was 55% ± 2.6% and with the Qiagen kit was 50.2% ± 2%. The BisulFlash DNA Modification kit was shown to have a significantly decreased average yield with respect to all other kits (FWER

    Techniques Used: Modification

    3) Product Images from "Barcoding blood meals: New vertebrate-specific primer sets for assigning taxonomic identities to host DNA from mosquito blood meals"

    Article Title: Barcoding blood meals: New vertebrate-specific primer sets for assigning taxonomic identities to host DNA from mosquito blood meals

    Journal: PLoS Neglected Tropical Diseases

    doi: 10.1371/journal.pntd.0006767

    Mean (±SEM) DNA concentration (nM) of PCR products, measured by Qubit fluorometer, of the six template categories (Mammalia, Aves, Reptilia, Amphibia, Mosquito, negative control [No DNA]) by three primer combinations (Mod_RepCOI_F + Mod_RepCOI_R, VertCOI_7194_F + Mod_RepCOI_R, Mod_RepCOI_F + VertCOI_7216_R). Tukey’s HSD test detected pairwise differences between mean DNA concentration for each primer combination and host class. Significant differences between groups are indicated by letters. Mean DNA concentration of groups that have the same letter are not significantly different from each other, while mean DNA concentration of groups that do not share a common letter are significantly different. Comparisons were considered significant if P < 0.05. Error bars represent standard error of the mean.
    Figure Legend Snippet: Mean (±SEM) DNA concentration (nM) of PCR products, measured by Qubit fluorometer, of the six template categories (Mammalia, Aves, Reptilia, Amphibia, Mosquito, negative control [No DNA]) by three primer combinations (Mod_RepCOI_F + Mod_RepCOI_R, VertCOI_7194_F + Mod_RepCOI_R, Mod_RepCOI_F + VertCOI_7216_R). Tukey’s HSD test detected pairwise differences between mean DNA concentration for each primer combination and host class. Significant differences between groups are indicated by letters. Mean DNA concentration of groups that have the same letter are not significantly different from each other, while mean DNA concentration of groups that do not share a common letter are significantly different. Comparisons were considered significant if P < 0.05. Error bars represent standard error of the mean.

    Techniques Used: Concentration Assay, Polymerase Chain Reaction, Negative Control, IF-P

    4) Product Images from "Barcoding blood meals: New vertebrate-specific primer sets for assigning taxonomic identities to host DNA from mosquito blood meals"

    Article Title: Barcoding blood meals: New vertebrate-specific primer sets for assigning taxonomic identities to host DNA from mosquito blood meals

    Journal: PLoS Neglected Tropical Diseases

    doi: 10.1371/journal.pntd.0006767

    Mean (±SEM) DNA concentration (nM) of PCR products, measured by Qubit fluorometer, of the six template categories (Mammalia, Aves, Reptilia, Amphibia, Mosquito, negative control [No DNA]) by three primer combinations (Mod_RepCOI_F + Mod_RepCOI_R, VertCOI_7194_F + Mod_RepCOI_R, Mod_RepCOI_F + VertCOI_7216_R). Tukey’s HSD test detected pairwise differences between mean DNA concentration for each primer combination and host class. Significant differences between groups are indicated by letters. Mean DNA concentration of groups that have the same letter are not significantly different from each other, while mean DNA concentration of groups that do not share a common letter are significantly different. Comparisons were considered significant if P
    Figure Legend Snippet: Mean (±SEM) DNA concentration (nM) of PCR products, measured by Qubit fluorometer, of the six template categories (Mammalia, Aves, Reptilia, Amphibia, Mosquito, negative control [No DNA]) by three primer combinations (Mod_RepCOI_F + Mod_RepCOI_R, VertCOI_7194_F + Mod_RepCOI_R, Mod_RepCOI_F + VertCOI_7216_R). Tukey’s HSD test detected pairwise differences between mean DNA concentration for each primer combination and host class. Significant differences between groups are indicated by letters. Mean DNA concentration of groups that have the same letter are not significantly different from each other, while mean DNA concentration of groups that do not share a common letter are significantly different. Comparisons were considered significant if P

    Techniques Used: Concentration Assay, Polymerase Chain Reaction, Negative Control, IF-P

    5) Product Images from "Variation in pre-PCR processing of FFPE samples leads to discrepancies in BRAF and EGFR mutation detection: a diagnostic RING trial"

    Article Title: Variation in pre-PCR processing of FFPE samples leads to discrepancies in BRAF and EGFR mutation detection: a diagnostic RING trial

    Journal: Journal of Clinical Pathology

    doi: 10.1136/jclinpath-2014-202644

    Variance in DNA recovered by the different extraction methods was calculated using Qubit measurements for engineered samples 1–4. It should be noted that one of the laboratories used a modified version of RecoverAll; however, for the purpose of the analysis, these were treated the same. N refers to the number of laboratories using each method.
    Figure Legend Snippet: Variance in DNA recovered by the different extraction methods was calculated using Qubit measurements for engineered samples 1–4. It should be noted that one of the laboratories used a modified version of RecoverAll; however, for the purpose of the analysis, these were treated the same. N refers to the number of laboratories using each method.

    Techniques Used: Modification

    6) Product Images from "Bisulfite Conversion of DNA: Performance Comparison of Different Kits and Methylation Quantitation of Epigenetic Biomarkers that Have the Potential to Be Used in Non-Invasive Prenatal Testing"

    Article Title: Bisulfite Conversion of DNA: Performance Comparison of Different Kits and Methylation Quantitation of Epigenetic Biomarkers that Have the Potential to Be Used in Non-Invasive Prenatal Testing

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0135058

    DNA degradation. DNA recovery after bisulfite treatment was determined with the Qubit fluorometer. DNA recovery with the Epigentek kit was 33.2% ± 3.4%, with the Promega kit was 52% ± 3%, with the Diagenode kit was 55% ± 2.6% and with the Qiagen kit was 50.2% ± 2%. The BisulFlash DNA Modification kit was shown to have a significantly decreased average yield with respect to all other kits (FWER
    Figure Legend Snippet: DNA degradation. DNA recovery after bisulfite treatment was determined with the Qubit fluorometer. DNA recovery with the Epigentek kit was 33.2% ± 3.4%, with the Promega kit was 52% ± 3%, with the Diagenode kit was 55% ± 2.6% and with the Qiagen kit was 50.2% ± 2%. The BisulFlash DNA Modification kit was shown to have a significantly decreased average yield with respect to all other kits (FWER

    Techniques Used: Modification

    7) Product Images from "FabV/Triclosan Is an Antibiotic-Free and Cost-Effective Selection System for Efficient Maintenance of High and Medium -Copy Number Plasmids in Escherichia coli"

    Article Title: FabV/Triclosan Is an Antibiotic-Free and Cost-Effective Selection System for Efficient Maintenance of High and Medium -Copy Number Plasmids in Escherichia coli

    Journal: PLoS ONE

    doi: 10.1371/journal.pone.0129547

    Plasmid DNA yield. E . coli DH5α and JM109 were transformed with high-copy number pUC19-Bla, pUC19-FabV, pUC19-FabI, and medium-copy number pSA-Hp24-Bla, pSA-Hp24-FabV, pBR322-FabI plasmids and selected on LB agar plates containing 1μM Triclosan (for FabV/FabI plasmids) and or 100μg mL -1 ampicillin (for Bla plasmids). Seed cultures were used to inoculated 5mL LB broth in 50mL flasks and cultured for another 18 hours at 37 or 30°C while shaking at 250rpm. Cell density was then measured by absorbing the diluted samples at 600nm and normalized to 2 OD600. One mL of the normalized culture was then used to extract the plasmid following supplied protocol. The quantity of the extracted plasmid DNA was measured by fluorometry using Qubit Fluorometer and Qubit dsDNA BR Assay Kit (Invitrogen, life technology). Fig 4A shows plasmid DNA yield when bacteria were grown at 37°C, whereas Fig 4B shows the plasmid DNA yield from cultures incubated at 30°C. Error bars show standard deviations calculated from at-least six (6) independent experiments performed in triplicate.
    Figure Legend Snippet: Plasmid DNA yield. E . coli DH5α and JM109 were transformed with high-copy number pUC19-Bla, pUC19-FabV, pUC19-FabI, and medium-copy number pSA-Hp24-Bla, pSA-Hp24-FabV, pBR322-FabI plasmids and selected on LB agar plates containing 1μM Triclosan (for FabV/FabI plasmids) and or 100μg mL -1 ampicillin (for Bla plasmids). Seed cultures were used to inoculated 5mL LB broth in 50mL flasks and cultured for another 18 hours at 37 or 30°C while shaking at 250rpm. Cell density was then measured by absorbing the diluted samples at 600nm and normalized to 2 OD600. One mL of the normalized culture was then used to extract the plasmid following supplied protocol. The quantity of the extracted plasmid DNA was measured by fluorometry using Qubit Fluorometer and Qubit dsDNA BR Assay Kit (Invitrogen, life technology). Fig 4A shows plasmid DNA yield when bacteria were grown at 37°C, whereas Fig 4B shows the plasmid DNA yield from cultures incubated at 30°C. Error bars show standard deviations calculated from at-least six (6) independent experiments performed in triplicate.

    Techniques Used: Plasmid Preparation, Transformation Assay, Cell Culture, Incubation

    Related Articles

    DNA Extraction:

    Article Title: Genome sequence of a dissimilatory Fe(III)-reducing bacterium Geobacter soli type strain GSS01T
    Article Snippet: Total genomic DNA was extracted using a DNA extraction kit (Aidlab). .. The quality and quantity of the genomic DNA was determined by 0.6 % agarose gel electrophoresis with λ-Hind III digest DNA marker and by a Qubit fluorometer (Invitrogen, CA, USA) with Qubit dsDNA BR Assay kit.

    Article Title: Comparison of high resolution melting analysis, pyrosequencing, next generation sequencing and immunohistochemistry to conventional Sanger sequencing for the detection of p.V600E and non-p.V600E BRAF mutations
    Article Snippet: Paragraph title: DNA isolation ... Quality and quantity of isolated DNA was assessed by agarose gel electrophoresis, by a Nanodrop 2000c spectrophotometer (PeqLab, Erlangen, GER) or in the case of next generation sequencing with the Qubit® Fluorometer (Life Technologies, Carlsbad, USA).

    Article Title: Whole-Genome Single-Nucleotide-Polymorphism Analysis for Discrimination of Clostridium botulinum Group I Strains
    Article Snippet: Paragraph title: DNA extraction and quantification. ... The quality of the DNA was checked using a NanoDrop 1000 (Thermo Scientific, Rockford, IL), and the concentration was determined using a Qubit double-stranded DNA BR assay kit and a Qubit fluorometer (Life Technologies, Grand Island, NY) according to each manufacturer's instructions.

    Article Title: Development of a lateral flow recombinase polymerase amplification assay for rapid and visual detection of Cryptococcus neoformans/C. gattii in cerebral spinal fluid
    Article Snippet: Paragraph title: DNA extraction ... DNA concentrations were accurately measured using the “Qubit™ 3 Fluorometer” (Q33216, Thermo Fisher Scientific, Wilmington, USA).

    Article Title: KRAS and VEGF gene 3'-UTR single nucleotide polymorphisms predicted susceptibility in colorectal cancer
    Article Snippet: Paragraph title: DNA isolation ... Concentration of DNA was measured by using Qubit Fluorometer (Invitrogen/Life Technologies, Carlsbad, CA).

    Article Title: Cryptic population structure reveals low dispersal in Iberian wolves
    Article Snippet: Paragraph title: DNA extraction, markers and genotyping ... DNA quality and concentration were assessed using agarose gel electrophoresis and quantified in a Qubit fluorometer (Thermo Fisher Scientific, Wilmington, DE, USA).

    Centrifugation:

    Article Title: Development of a lateral flow recombinase polymerase amplification assay for rapid and visual detection of Cryptococcus neoformans/C. gattii in cerebral spinal fluid
    Article Snippet: Briefly, a bit of sediments of CSF after centrifugation or fresh colonies were suspended in 50 μl of 1× TE buffer (10 mM Tris-HCl, 1 mM EDTA, pH 8.0) within an extraction tube and incubated at 95 °C in a boiling water-bath for 5 min. Then the total DNA was isolated by vortexing at maximum speed in an Extractor™ 36 (CapitalBio) for 5 min. After centrifuged at 10000 g for 5 min, the supernatant of the lysate containing gemonic DNA was separated for follow-up tests. .. DNA concentrations were accurately measured using the “Qubit™ 3 Fluorometer” (Q33216, Thermo Fisher Scientific, Wilmington, USA).

    Amplification:

    Article Title: Wear Particles Derived from Metal Hip Implants Induce the Generation of Multinucleated Giant Cells in a 3-Dimensional Peripheral Tissue-Equivalent Model
    Article Snippet: RNA concentration was determined using a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY). .. Two-Step real-time PCR was carried out by amplifying diluted cDNA ( < 100 ng/reaction) using the QuantiFast SYBR Green PCR Kit (Qiagen) and the following gene specific primers (Invitrogen): 5′-AGAGCTGCAGTACCGATTGG-3′ (forward) and 5′-GTAGAAGGCTGCGATGACCCT-3′ (reverse) for DC-STAMP; 5′-CCTGGTACGTGCTAGCCG-3′ (forward) and 5′-TCTTGAAGTGCAGGCGGTAG-3′ (reverse) for TRAP; 5′-AGCCGAACCTGCCTACAGGAC-3′ (forward) and 5′-GGGCAGTGCTGCTTGTAGGTG-3′ (reverse) for GM-CSF; and 5′-CCAGGTGGTCTCCCTCTGACTTC-3′ (forward) and 5′-CACCCTGTTGCTGTAGCCAAA-3′ (reverse) for GAPDH.

    Article Title: HPV infection and bacterial microbiota in the placenta, uterine cervix and oral mucosa
    Article Snippet: Isolated DNA concentrations were measured using a Qubit® 2.0 Fluorometer (Life Technology, Carlsbad, CA, USA) and normalized to10 ng/μL. .. The V3-V4 region of 16S rDNA gene was amplified by PCR using Illumina adapter overhang nucleotide sequences following Illumina protocols.

    Article Title: The utility of Next Generation Sequencing for molecular diagnostics in Rett syndrome
    Article Snippet: Amplification of the libraries was performed on a GeneAmp®PCR System 9700 thermocycler (Applied Biosystems). .. The restriction digestion and amplicon library quantities were quality evaluated using a Bioanalyzer High Sensitivity DNA Assay kit in an Agilent 2100 Bioanalyzer (Agilent Technologies) and quantified using a Qubit 2.0 Fluorometer (Invitrogen). .. TruSight One Sequencing Panel (Illumina, San Diego, CA) targeted 4,813 genes associated with a clinical phenotype.

    Construct:

    Article Title: RNA Sequencing Revealed Numerous Polyketide Synthase Genes in the Harmful Dinoflagellate Karenia mikimotoi
    Article Snippet: For RNA sequencing, double-stranded cDNA libraries were constructed using TruSeq Stranded mRNA Sample Preparation Kit (Illumina, San Diego, CA), and two samples for each growth phase were independently indexed. .. The condition of the obtained libraries was validated using an Agilent DNA 1000 Kit (Agilent Technologies, Santa Clara, CA) by using a 2100 Bioanalyzer, and their concentrations were measured using Qubit® 2.0 Fluorometer (Life Technologies, Carlsbad, CA).

    Real-time Polymerase Chain Reaction:

    Article Title: Wear Particles Derived from Metal Hip Implants Induce the Generation of Multinucleated Giant Cells in a 3-Dimensional Peripheral Tissue-Equivalent Model
    Article Snippet: RNA concentration was determined using a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY). .. RNA concentration was determined using a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY).

    Incubation:

    Article Title: Active and Total Transforming Growth Factor-?1 Are Differentially Regulated by Dopamine and Estradiol in the Pituitary
    Article Snippet: The homogenate was centrifuged at 1500 × g for 5 min at 4 C. The supernatant was collected, and protein concentration was determined by the Quant-iT Protein Assay kit and Qubit fluorometer (Invitrogen, Buenos Aires, Argentina); 50 μg protein from each sample were mixed with 5× sample buffer [150 m m Tris-HCl, 10% sodium dodecyl sulfate, 50% glycerol, 0.05% bromophenol blue, and 50 m m dithiotreitol (pH 6.8)] and heated 5 min at 95 C. Samples were loaded on 12% SDS-PAGE and transferred to Hybond-P polyvinylidene difluoride transfer membranes (GE Healthcare, Princeton, NJ). .. Membranes were incubated over night at 4 C with mouse anti-TβRII antibody (1:500, sc 17791; Santa Cruz Biotechnology, Inc., Santa Cruz, CA) or mouse anti-β-actin antibody (1:5000, ab 6276; Abcam, Cambridge, MA).

    Article Title: Development of a lateral flow recombinase polymerase amplification assay for rapid and visual detection of Cryptococcus neoformans/C. gattii in cerebral spinal fluid
    Article Snippet: Briefly, a bit of sediments of CSF after centrifugation or fresh colonies were suspended in 50 μl of 1× TE buffer (10 mM Tris-HCl, 1 mM EDTA, pH 8.0) within an extraction tube and incubated at 95 °C in a boiling water-bath for 5 min. Then the total DNA was isolated by vortexing at maximum speed in an Extractor™ 36 (CapitalBio) for 5 min. After centrifuged at 10000 g for 5 min, the supernatant of the lysate containing gemonic DNA was separated for follow-up tests. .. DNA concentrations were accurately measured using the “Qubit™ 3 Fluorometer” (Q33216, Thermo Fisher Scientific, Wilmington, USA).

    Formalin-fixed Paraffin-Embedded:

    Article Title: Comparison of high resolution melting analysis, pyrosequencing, next generation sequencing and immunohistochemistry to conventional Sanger sequencing for the detection of p.V600E and non-p.V600E BRAF mutations
    Article Snippet: All samples were fixed in neutral-buffered formalin prior to paraffin embedding (FFPE-samples). .. Quality and quantity of isolated DNA was assessed by agarose gel electrophoresis, by a Nanodrop 2000c spectrophotometer (PeqLab, Erlangen, GER) or in the case of next generation sequencing with the Qubit® Fluorometer (Life Technologies, Carlsbad, USA).

    Article Title: MicroRNAs expression profile in solid and unicystic ameloblastomas
    Article Snippet: The total RNA, in which the microRNA was included, was extracted from sections of the paraffin blocks, which were previously dewaxed with xylol using the miRNeasy FFPE kit (Qiagen, UK). .. The integrity of the RNA was determined by fluorometric quantification using the Qubit 3 Fluorometer (Life Technologies, Foster City, CA, USA).

    Expressing:

    Article Title: Double-stranded RNA released from damaged articular chondrocytes promotes cartilage degeneration via Toll-like receptor 3-interleukin-33 pathway
    Article Snippet: Here, our results show that, in addition to p38 MAPK phosphorylation and NF-κ B (p65) translocation, PPARγ activation and formation of a transcriptional complex with p65 are also required for dsRNA-induced IL-33 expression. .. First, the concentration of total RNAs in the supertanants of damaged cartilage lysate is ~24.8 ng/μ l quantified by using a Qubit Fluorometer (Invitrogen, Grand Island, NY, USA); however, because of technology limitation, we cannot measure the exact concent of dsRNA within these total RNAs.

    Western Blot:

    Article Title: Active and Total Transforming Growth Factor-?1 Are Differentially Regulated by Dopamine and Estradiol in the Pituitary
    Article Snippet: Paragraph title: Western blotting ... The homogenate was centrifuged at 1500 × g for 5 min at 4 C. The supernatant was collected, and protein concentration was determined by the Quant-iT Protein Assay kit and Qubit fluorometer (Invitrogen, Buenos Aires, Argentina); 50 μg protein from each sample were mixed with 5× sample buffer [150 m m Tris-HCl, 10% sodium dodecyl sulfate, 50% glycerol, 0.05% bromophenol blue, and 50 m m dithiotreitol (pH 6.8)] and heated 5 min at 95 C. Samples were loaded on 12% SDS-PAGE and transferred to Hybond-P polyvinylidene difluoride transfer membranes (GE Healthcare, Princeton, NJ).

    Translocation Assay:

    Article Title: Double-stranded RNA released from damaged articular chondrocytes promotes cartilage degeneration via Toll-like receptor 3-interleukin-33 pathway
    Article Snippet: In addition, a p38 MAPK inhibitor blocked p65 translocation, which further demonstrates that NF-κ B is downstream of p38 MAPK in the dsRNA-activated TLR3 pathway. .. First, the concentration of total RNAs in the supertanants of damaged cartilage lysate is ~24.8 ng/μ l quantified by using a Qubit Fluorometer (Invitrogen, Grand Island, NY, USA); however, because of technology limitation, we cannot measure the exact concent of dsRNA within these total RNAs.

    Hybridization:

    Article Title: The utility of Next Generation Sequencing for molecular diagnostics in Rett syndrome
    Article Snippet: The hybridization was performed for 3 hours at 54 °C, and the circularized target DNA-HaloPlex probe hybrids, containing biotin, were captured on streptavidin beads (HaloPlex Magnetics Beads, Agilent Technologies). .. The restriction digestion and amplicon library quantities were quality evaluated using a Bioanalyzer High Sensitivity DNA Assay kit in an Agilent 2100 Bioanalyzer (Agilent Technologies) and quantified using a Qubit 2.0 Fluorometer (Invitrogen).

    Concentration Assay:

    Article Title: Whole-Genome Single-Nucleotide-Polymorphism Analysis for Discrimination of Clostridium botulinum Group I Strains
    Article Snippet: Genomic DNA from each strain was isolated from overnight cultures using the DNeasy Blood & Tissue kit (Qiagen, Valencia, CA). .. The quality of the DNA was checked using a NanoDrop 1000 (Thermo Scientific, Rockford, IL), and the concentration was determined using a Qubit double-stranded DNA BR assay kit and a Qubit fluorometer (Life Technologies, Grand Island, NY) according to each manufacturer's instructions. .. For whole-genome sequencing (WGS), the genomes were sequenced using Ion Torrent (PGM) sequencing with the 200-bp template (Ion OneTouch 200 Template kit v2 DL) and sequencing (Ion PGM Sequencing 200 kit v2) kits (Life Technologies) according to the manufacturer's instructions at approximately 20× coverage.

    Article Title: MicroRNAs expression profile in solid and unicystic ameloblastomas
    Article Snippet: The purity and concentration of the RNA were determined by the OD260 / 280/230 readings using a NanoDrop ND-1000 spectrophotometer (Thermo Fisher Scientific, Eugene, OR, USA). .. The integrity of the RNA was determined by fluorometric quantification using the Qubit 3 Fluorometer (Life Technologies, Foster City, CA, USA).

    Article Title: KRAS and VEGF gene 3'-UTR single nucleotide polymorphisms predicted susceptibility in colorectal cancer
    Article Snippet: DNA was obtained from leukocytes of each blood sample using a TIANamp Blood DNA Kit (TIANGEN Biotech, Beijing, China) according to the manufacturer’s instructions. .. Concentration of DNA was measured by using Qubit Fluorometer (Invitrogen/Life Technologies, Carlsbad, CA). .. The potentially functional SNPs of KRAS and VEGF gene in 3’-UTR were selected from NCBI dbSNP database ( http://www.ncbi.nlm.nih.gov/projects/SNP/ ).

    Article Title: Wear Particles Derived from Metal Hip Implants Induce the Generation of Multinucleated Giant Cells in a 3-Dimensional Peripheral Tissue-Equivalent Model
    Article Snippet: Total RNA from Co-alloy particle-treated and untreated cultures was isolated and purified using the RNeasy Plus Mini Kit (Qiagen Technologies, Gaithersburg, MD). .. RNA concentration was determined using a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY). .. The total RNA was collected from two independent experiments, n = 2.

    Article Title: Cryptic population structure reveals low dispersal in Iberian wolves
    Article Snippet: Total genomic DNA was extracted using the QIAGEN DNeasy Blood & Tissue Kit (Qiagen, Valencia, CA, USA) according to the manufacturer’s instructions. .. DNA quality and concentration were assessed using agarose gel electrophoresis and quantified in a Qubit fluorometer (Thermo Fisher Scientific, Wilmington, DE, USA). .. Samples were amplified for a set of 46 microsatellite loci in four multiplex reactions (MS1 to MS3, and the Canine Genotypes Panel 2.1 Kit, Thermo Fisher Scientific), and a singleplex including the Dbar2 locus, following Godinho et al ., (Supplementary Tables and ).

    Article Title: Genome-wide identification and characterization of long non-coding RNAs in developmental skeletal muscle of fetal goat
    Article Snippet: RNA purity was checked using a NanoPhotometer® spectrophotometer (IMPLEN, Los Angeles, CA, USA). .. RNA concentration was measured using a Qubit® RNA Assay Kit in a Qubit® 2.0 Fluorometer (Life Technologies, Carlsbad, CA, USA). .. RNA integrity was assessed using a RNA Nano 6000 Assay Kit in a Bioanalyzer 2100 system (Agilent Technologies, Santa Clara, CA, USA).

    Article Title: Double-stranded RNA released from damaged articular chondrocytes promotes cartilage degeneration via Toll-like receptor 3-interleukin-33 pathway
    Article Snippet: However, we would like to point out some potential limitations of our study. .. First, the concentration of total RNAs in the supertanants of damaged cartilage lysate is ~24.8 ng/μ l quantified by using a Qubit Fluorometer (Invitrogen, Grand Island, NY, USA); however, because of technology limitation, we cannot measure the exact concent of dsRNA within these total RNAs. .. Second, although our results revealed that dsRNA induced IL-33 expression via the TLR3-p38 MAPK-NF-κ B p65 pathway, as well as required the formation of the p65 and PPARγ transcriptional complex, these results were acquired in in vitro experiments; thus, the exact induction mechanisms of IL-33 in vivo still require further investigation.

    Reverse Transcription Polymerase Chain Reaction:

    Article Title: Wear Particles Derived from Metal Hip Implants Induce the Generation of Multinucleated Giant Cells in a 3-Dimensional Peripheral Tissue-Equivalent Model
    Article Snippet: Paragraph title: RT-PCR ... RNA concentration was determined using a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY).

    Generated:

    Article Title: Complete Genome Sequence of Tessaracoccus sp. Strain T2.5-30 Isolated from 139.5 Meters Deep on the Subsurface of the Iberian Pyritic Belt
    Article Snippet: The quantity of extracted genomic DNA was determined with the Qubit version 2.0 fluorometer (Invitrogen, USA), and quality was analyzed by electrophoresis on an agarose gel, as well as on a NanoDrop 2000 (Thermo Scientific, USA) for measurement of the A 260 /A 280 ratio. .. One SMRT cell was used for sequencing on a Pacific Biosciences RSII instrument using P6-C4 chemistry, with a 360-min movie time.

    Protein Concentration:

    Article Title: Active and Total Transforming Growth Factor-?1 Are Differentially Regulated by Dopamine and Estradiol in the Pituitary
    Article Snippet: Anterior pituitaries were homogenized in 80 μl ice-cold buffer containing 50 m m Tris, 10 m m CaCl2 , 1 m m MgCl2 , 1% Triton X-100 (pH 7.6), and a mix of proteases inhibitors (phenylmethylsulfonylfluoride, tosylphenylalanine chloromethylketone, tert -Amyl methyl ether, N -carbobenzoxy- l -phenylalanine chloromethyl ketone, and tosylamidelysyl chloromethylketone) in a hand-held microtissue homogenizer. .. The homogenate was centrifuged at 1500 × g for 5 min at 4 C. The supernatant was collected, and protein concentration was determined by the Quant-iT Protein Assay kit and Qubit fluorometer (Invitrogen, Buenos Aires, Argentina); 50 μg protein from each sample were mixed with 5× sample buffer [150 m m Tris-HCl, 10% sodium dodecyl sulfate, 50% glycerol, 0.05% bromophenol blue, and 50 m m dithiotreitol (pH 6.8)] and heated 5 min at 95 C. Samples were loaded on 12% SDS-PAGE and transferred to Hybond-P polyvinylidene difluoride transfer membranes (GE Healthcare, Princeton, NJ). .. Membranes were incubated over night at 4 C with mouse anti-TβRII antibody (1:500, sc 17791; Santa Cruz Biotechnology, Inc., Santa Cruz, CA) or mouse anti-β-actin antibody (1:5000, ab 6276; Abcam, Cambridge, MA).

    Sequencing:

    Article Title: RNA Sequencing Revealed Numerous Polyketide Synthase Genes in the Harmful Dinoflagellate Karenia mikimotoi
    Article Snippet: Before the sequencing library was prepared, rRNA was depleted from 2.5 μg of total RNA samples by using Ribo-Zero™ rRNA Removal Kit (Plant Seed/Root; Epicentre, Madison, WI, USA). rRNA removal was confirmed using Agilent RNA 6000 Nano Kit (Agilent Technologies, Santa Clara, CA) by using a 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA). .. The condition of the obtained libraries was validated using an Agilent DNA 1000 Kit (Agilent Technologies, Santa Clara, CA) by using a 2100 Bioanalyzer, and their concentrations were measured using Qubit® 2.0 Fluorometer (Life Technologies, Carlsbad, CA).

    Article Title: Complete Genome Sequence of Tessaracoccus sp. Strain T2.5-30 Isolated from 139.5 Meters Deep on the Subsurface of the Iberian Pyritic Belt
    Article Snippet: For whole-genome sequencing, DNA was extracted using a centyltrimethylammonium bromide (CTAB)-based extraction method ( ). .. The quantity of extracted genomic DNA was determined with the Qubit version 2.0 fluorometer (Invitrogen, USA), and quality was analyzed by electrophoresis on an agarose gel, as well as on a NanoDrop 2000 (Thermo Scientific, USA) for measurement of the A 260 /A 280 ratio.

    Article Title: HPV infection and bacterial microbiota in the placenta, uterine cervix and oral mucosa
    Article Snippet: Paragraph title: 16S bacterial gene sequencing ... Isolated DNA concentrations were measured using a Qubit® 2.0 Fluorometer (Life Technology, Carlsbad, CA, USA) and normalized to10 ng/μL.

    Article Title: Genome-wide identification and characterization of long non-coding RNAs in developmental skeletal muscle of fetal goat
    Article Snippet: Paragraph title: RNA extraction, library construction, and sequencing ... RNA concentration was measured using a Qubit® RNA Assay Kit in a Qubit® 2.0 Fluorometer (Life Technologies, Carlsbad, CA, USA).

    Article Title: Determining Genotypic Drug Resistance by Ion Semiconductor Sequencing With the Ion AmpliSeq™ TB Panel in Multidrug-Resistant Mycobacterium tuberculosis Isolates
    Article Snippet: Paragraph title: 3. Ion semiconductor sequencing with the Ion AmpliSeq TB panel ... Nucleic acid quality and quantity were assessed with the Broad-Range Qubit DNA kit and a Qubit 2.0 fluorometer (Life Technologies) followed by agarose gel electrophoresis.

    Sonication:

    Article Title: Cavitation Enhancing Nanodroplets Mediate Efficient DNA Fragmentation in a Bench Top Ultrasonic Water Bath
    Article Snippet: Sample tubes were submerged up to the cap in a water bath and sonicated for 2 minutes each at 20% duty cycle, Intensity 8, and 200 cycles per burst. .. For high throughput sequencing preparation, each sample was concentrated in a Zymo Research ChIP DNA Clean & Concentrator column (Zymo Research, Irvine, CA, USA #D5201), followed by quantification on a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY, USA).

    Impedance Spectroscopy:

    Article Title: Determining Genotypic Drug Resistance by Ion Semiconductor Sequencing With the Ion AmpliSeq™ TB Panel in Multidrug-Resistant Mycobacterium tuberculosis Isolates
    Article Snippet: Nucleic acid quality and quantity were assessed with the Broad-Range Qubit DNA kit and a Qubit 2.0 fluorometer (Life Technologies) followed by agarose gel electrophoresis. .. To identify gene variants correlated with drug resistance in genomic DNA extracted from the pure MDR-TB isolates, we generated AmpliSeq libraries using the Ion AmpliSeq Library Kit 2.0 and the Ion AmpliSeq TB Research Panel (Life Technologies).

    Multiplexing:

    Article Title: HPV infection and bacterial microbiota in the placenta, uterine cervix and oral mucosa
    Article Snippet: Isolated DNA concentrations were measured using a Qubit® 2.0 Fluorometer (Life Technology, Carlsbad, CA, USA) and normalized to10 ng/μL. .. The V3-V4 region of 16S rDNA gene was amplified by PCR using Illumina adapter overhang nucleotide sequences following Illumina protocols.

    Nucleic Acid Electrophoresis:

    Article Title: Cavitation Enhancing Nanodroplets Mediate Efficient DNA Fragmentation in a Bench Top Ultrasonic Water Bath
    Article Snippet: After fragmentation, 20 μL of DNA was combined with 10X loading buffer (50% glycerol with Orange G and SYBR green) and loaded onto a 1.5% agarose gel and subjected to gel electrophoresis. .. For high throughput sequencing preparation, each sample was concentrated in a Zymo Research ChIP DNA Clean & Concentrator column (Zymo Research, Irvine, CA, USA #D5201), followed by quantification on a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY, USA).

    RNA Sequencing Assay:

    Article Title: RNA Sequencing Revealed Numerous Polyketide Synthase Genes in the Harmful Dinoflagellate Karenia mikimotoi
    Article Snippet: Paragraph title: RNA sequencing ... The condition of the obtained libraries was validated using an Agilent DNA 1000 Kit (Agilent Technologies, Santa Clara, CA) by using a 2100 Bioanalyzer, and their concentrations were measured using Qubit® 2.0 Fluorometer (Life Technologies, Carlsbad, CA).

    Multiple Displacement Amplification:

    Article Title: Double-stranded RNA released from damaged articular chondrocytes promotes cartilage degeneration via Toll-like receptor 3-interleukin-33 pathway
    Article Snippet: First, the concentration of total RNAs in the supertanants of damaged cartilage lysate is ~24.8 ng/μ l quantified by using a Qubit Fluorometer (Invitrogen, Grand Island, NY, USA); however, because of technology limitation, we cannot measure the exact concent of dsRNA within these total RNAs. .. Second, although we observed increased expression of IL-33 in OA chondrocytes, as well as in the cartilage tissue in a DMM-induced OA model, the clinical relevance of IL-33 in OA still needs further investigation.

    Isolation:

    Article Title: Comparison of high resolution melting analysis, pyrosequencing, next generation sequencing and immunohistochemistry to conventional Sanger sequencing for the detection of p.V600E and non-p.V600E BRAF mutations
    Article Snippet: The DNA was isolated by automated extraction using the BioRobot M48 (Qiagen, Hilden, GER) following the manufacturer’s protocols. .. Quality and quantity of isolated DNA was assessed by agarose gel electrophoresis, by a Nanodrop 2000c spectrophotometer (PeqLab, Erlangen, GER) or in the case of next generation sequencing with the Qubit® Fluorometer (Life Technologies, Carlsbad, USA). .. High resolution melting (HRM) analysis was set up using 10 ng of genomic DNA, 3.5 mM MgCl2 , 1× LightCycler 480 High Resolution Melting Master and 200 nM of each primer in a final reaction volume of 20 μl.

    Article Title: Complete Genome Sequence of Tessaracoccus sp. Strain T2.5-30 Isolated from 139.5 Meters Deep on the Subsurface of the Iberian Pyritic Belt
    Article Snippet: Tessaracoccus sp. strain T2.5-30 was isolated from a core sample from 139.5 m in the subsurface of the Iberian Pyritic Belt (IPB, Peña de Hierro, Spain). .. The quantity of extracted genomic DNA was determined with the Qubit version 2.0 fluorometer (Invitrogen, USA), and quality was analyzed by electrophoresis on an agarose gel, as well as on a NanoDrop 2000 (Thermo Scientific, USA) for measurement of the A 260 /A 280 ratio.

    Article Title: Whole-Genome Single-Nucleotide-Polymorphism Analysis for Discrimination of Clostridium botulinum Group I Strains
    Article Snippet: Genomic DNA from each strain was isolated from overnight cultures using the DNeasy Blood & Tissue kit (Qiagen, Valencia, CA). .. The quality of the DNA was checked using a NanoDrop 1000 (Thermo Scientific, Rockford, IL), and the concentration was determined using a Qubit double-stranded DNA BR assay kit and a Qubit fluorometer (Life Technologies, Grand Island, NY) according to each manufacturer's instructions.

    Article Title: Development of a lateral flow recombinase polymerase amplification assay for rapid and visual detection of Cryptococcus neoformans/C. gattii in cerebral spinal fluid
    Article Snippet: Briefly, a bit of sediments of CSF after centrifugation or fresh colonies were suspended in 50 μl of 1× TE buffer (10 mM Tris-HCl, 1 mM EDTA, pH 8.0) within an extraction tube and incubated at 95 °C in a boiling water-bath for 5 min. Then the total DNA was isolated by vortexing at maximum speed in an Extractor™ 36 (CapitalBio) for 5 min. After centrifuged at 10000 g for 5 min, the supernatant of the lysate containing gemonic DNA was separated for follow-up tests. .. DNA concentrations were accurately measured using the “Qubit™ 3 Fluorometer” (Q33216, Thermo Fisher Scientific, Wilmington, USA).

    Article Title: MicroRNAs expression profile in solid and unicystic ameloblastomas
    Article Snippet: Paragraph title: RNA isolation ... The integrity of the RNA was determined by fluorometric quantification using the Qubit 3 Fluorometer (Life Technologies, Foster City, CA, USA).

    Article Title: Wear Particles Derived from Metal Hip Implants Induce the Generation of Multinucleated Giant Cells in a 3-Dimensional Peripheral Tissue-Equivalent Model
    Article Snippet: Total RNA from Co-alloy particle-treated and untreated cultures was isolated and purified using the RNeasy Plus Mini Kit (Qiagen Technologies, Gaithersburg, MD). .. RNA concentration was determined using a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY).

    Article Title: HPV infection and bacterial microbiota in the placenta, uterine cervix and oral mucosa
    Article Snippet: HPV testing was performed with nested PCR using MY09/MY11 as external primers and GP05+/GP06+ as internal primers followed by genotyping with Multimetrix® kit (Progen Biotechnik GmbH, Heidelberg, Germany), which detects 24 HPV types (low-risk HPV6, 11, 42, 43, 44, and 70; high-risk HPV16, 18, 26, 31, 33, 35, 39, 45, 51, 52, 53, 56, 58, 59, 66, 68, 73 and 82 types) as described in Koskimaa et al . and Syrjänen et al . .. Isolated DNA concentrations were measured using a Qubit® 2.0 Fluorometer (Life Technology, Carlsbad, CA, USA) and normalized to10 ng/μL. .. The V3-V4 region of 16S rDNA gene was amplified by PCR using Illumina adapter overhang nucleotide sequences following Illumina protocols.

    Article Title: A Novel Mutation in the Stalk Domain of KIF5A Causes a Slowly Progressive Atypical Motor Syndrome
    Article Snippet: Right shoulder ultrasound indicated no rupture of muscle tendons. .. After obtaining a written informed consent, DNA was isolated from peripheral blood cells and quantified with NanoDrop ND1000 UV-Vis Spectrophotometer and Qubit® fluorometer (ThermoFisher Scientific, Waltham, MA, USA). .. Next Generation Sequencing (NGS) analysis (SureSelectQXT Target Enrichment for Illumina Multiplexed Sequencing, Agilent Technologies, Santa Clara, CA, USA) was performed, using a customized panel of 174 genes related to neurodegenerative diseases.

    Article Title: Genome-wide identification and characterization of long non-coding RNAs in developmental skeletal muscle of fetal goat
    Article Snippet: Total RNA was isolated from the 11 libraries using TRIzol reagent (Invitrogen, Carlsbad, CA, USA) according to the manufacturer’s instructions. .. RNA concentration was measured using a Qubit® RNA Assay Kit in a Qubit® 2.0 Fluorometer (Life Technologies, Carlsbad, CA, USA).

    Purification:

    Article Title: Development of a lateral flow recombinase polymerase amplification assay for rapid and visual detection of Cryptococcus neoformans/C. gattii in cerebral spinal fluid
    Article Snippet: In order to meet the special needs of Fig. , we have further purified the supernatant of the lysate with “TIANamp Yeast DNA Kit” (TIANGEN Biotech, Beijing, China) starting from step 7 of the operating manual. .. DNA concentrations were accurately measured using the “Qubit™ 3 Fluorometer” (Q33216, Thermo Fisher Scientific, Wilmington, USA).

    Article Title: Wear Particles Derived from Metal Hip Implants Induce the Generation of Multinucleated Giant Cells in a 3-Dimensional Peripheral Tissue-Equivalent Model
    Article Snippet: Total RNA from Co-alloy particle-treated and untreated cultures was isolated and purified using the RNeasy Plus Mini Kit (Qiagen Technologies, Gaithersburg, MD). .. RNA concentration was determined using a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY).

    Article Title: The utility of Next Generation Sequencing for molecular diagnostics in Rett syndrome
    Article Snippet: The amplified target DNA was purified using AMPure XP beads (Beckman Coulter Genomics, GENEWIZ, New Jersey, USA). .. The restriction digestion and amplicon library quantities were quality evaluated using a Bioanalyzer High Sensitivity DNA Assay kit in an Agilent 2100 Bioanalyzer (Agilent Technologies) and quantified using a Qubit 2.0 Fluorometer (Invitrogen).

    Polymerase Chain Reaction:

    Article Title: Wear Particles Derived from Metal Hip Implants Induce the Generation of Multinucleated Giant Cells in a 3-Dimensional Peripheral Tissue-Equivalent Model
    Article Snippet: RNA concentration was determined using a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY). .. RNA concentration was determined using a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY).

    Article Title: Cryptic population structure reveals low dispersal in Iberian wolves
    Article Snippet: DNA quality and concentration were assessed using agarose gel electrophoresis and quantified in a Qubit fluorometer (Thermo Fisher Scientific, Wilmington, DE, USA). .. Samples were amplified for a set of 46 microsatellite loci in four multiplex reactions (MS1 to MS3, and the Canine Genotypes Panel 2.1 Kit, Thermo Fisher Scientific), and a singleplex including the Dbar2 locus, following Godinho et al ., (Supplementary Tables and ).

    Article Title: HPV infection and bacterial microbiota in the placenta, uterine cervix and oral mucosa
    Article Snippet: Isolated DNA concentrations were measured using a Qubit® 2.0 Fluorometer (Life Technology, Carlsbad, CA, USA) and normalized to10 ng/μL. .. The V3-V4 region of 16S rDNA gene was amplified by PCR using Illumina adapter overhang nucleotide sequences following Illumina protocols.

    Article Title: The utility of Next Generation Sequencing for molecular diagnostics in Rett syndrome
    Article Snippet: The DNA with adaptor-modified ends was PCR amplified (number of cycles depended on the lot, Herculase II fusion DNA polymerase, Agilent). .. The restriction digestion and amplicon library quantities were quality evaluated using a Bioanalyzer High Sensitivity DNA Assay kit in an Agilent 2100 Bioanalyzer (Agilent Technologies) and quantified using a Qubit 2.0 Fluorometer (Invitrogen).

    Blocking Assay:

    Article Title: Double-stranded RNA released from damaged articular chondrocytes promotes cartilage degeneration via Toll-like receptor 3-interleukin-33 pathway
    Article Snippet: Although PPARγ has been reported to participate in anti-inflammatory responses, and to block bone resorption by interacting with p65 under interaction with its ligands., Some groups have also found that PPARγ acts as a double-edged sword, in that it promotes inflammatory responses in a ligand-independent manner, whereas it serves as a negative regulator of renal inflammation upon ligand activation. .. First, the concentration of total RNAs in the supertanants of damaged cartilage lysate is ~24.8 ng/μ l quantified by using a Qubit Fluorometer (Invitrogen, Grand Island, NY, USA); however, because of technology limitation, we cannot measure the exact concent of dsRNA within these total RNAs.

    cDNA Library Assay:

    Article Title: CPP-Ts: a new intracellular calcium channel modulator and a promising tool for drug delivery in cancer cells
    Article Snippet: The telson containing venom glands was removed and triturated in TRI reagent (Sigma-Aldrich, MO, USA) to isolate RNA following a previously described protocol . .. RNA quality was evaluated by electrophoresis in a 2.0% agarose gel, quantified in Qubit 2.0 Fluorometer (Life Technologies, MD, USA), and stored at −80°C until cDNA library construction. .. The RNA library was assembled from total Ts telson RNA, using the TruSeq RNA Sample Preparation Kit v2 (Illumina, CA, USA), according to the manufacturer’s instructions.

    Agarose Gel Electrophoresis:

    Article Title: Genome sequence of a dissimilatory Fe(III)-reducing bacterium Geobacter soli type strain GSS01T
    Article Snippet: Total genomic DNA was extracted using a DNA extraction kit (Aidlab). .. The quality and quantity of the genomic DNA was determined by 0.6 % agarose gel electrophoresis with λ-Hind III digest DNA marker and by a Qubit fluorometer (Invitrogen, CA, USA) with Qubit dsDNA BR Assay kit. .. About 50.22 μg DNA with a concentration of 91.3 ng/μl was obtained.

    Article Title: Comparison of high resolution melting analysis, pyrosequencing, next generation sequencing and immunohistochemistry to conventional Sanger sequencing for the detection of p.V600E and non-p.V600E BRAF mutations
    Article Snippet: The DNA was isolated by automated extraction using the BioRobot M48 (Qiagen, Hilden, GER) following the manufacturer’s protocols. .. Quality and quantity of isolated DNA was assessed by agarose gel electrophoresis, by a Nanodrop 2000c spectrophotometer (PeqLab, Erlangen, GER) or in the case of next generation sequencing with the Qubit® Fluorometer (Life Technologies, Carlsbad, USA). .. High resolution melting (HRM) analysis was set up using 10 ng of genomic DNA, 3.5 mM MgCl2 , 1× LightCycler 480 High Resolution Melting Master and 200 nM of each primer in a final reaction volume of 20 μl.

    Article Title: Cavitation Enhancing Nanodroplets Mediate Efficient DNA Fragmentation in a Bench Top Ultrasonic Water Bath
    Article Snippet: After fragmentation, 20 μL of DNA was combined with 10X loading buffer (50% glycerol with Orange G and SYBR green) and loaded onto a 1.5% agarose gel and subjected to gel electrophoresis. .. For high throughput sequencing preparation, each sample was concentrated in a Zymo Research ChIP DNA Clean & Concentrator column (Zymo Research, Irvine, CA, USA #D5201), followed by quantification on a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY, USA).

    Article Title: Complete Genome Sequence of Tessaracoccus sp. Strain T2.5-30 Isolated from 139.5 Meters Deep on the Subsurface of the Iberian Pyritic Belt
    Article Snippet: For whole-genome sequencing, DNA was extracted using a centyltrimethylammonium bromide (CTAB)-based extraction method ( ). .. The quantity of extracted genomic DNA was determined with the Qubit version 2.0 fluorometer (Invitrogen, USA), and quality was analyzed by electrophoresis on an agarose gel, as well as on a NanoDrop 2000 (Thermo Scientific, USA) for measurement of the A 260 /A 280 ratio. .. Genomic DNA was submitted to the Norwegian Sequencing Centre (University of Oslo, Norway) for PacBio single-molecule real-time (SMRT) sequencing ( ).

    Article Title: CPP-Ts: a new intracellular calcium channel modulator and a promising tool for drug delivery in cancer cells
    Article Snippet: The telson containing venom glands was removed and triturated in TRI reagent (Sigma-Aldrich, MO, USA) to isolate RNA following a previously described protocol . .. RNA quality was evaluated by electrophoresis in a 2.0% agarose gel, quantified in Qubit 2.0 Fluorometer (Life Technologies, MD, USA), and stored at −80°C until cDNA library construction. .. The RNA library was assembled from total Ts telson RNA, using the TruSeq RNA Sample Preparation Kit v2 (Illumina, CA, USA), according to the manufacturer’s instructions.

    Article Title: Cryptic population structure reveals low dispersal in Iberian wolves
    Article Snippet: Total genomic DNA was extracted using the QIAGEN DNeasy Blood & Tissue Kit (Qiagen, Valencia, CA, USA) according to the manufacturer’s instructions. .. DNA quality and concentration were assessed using agarose gel electrophoresis and quantified in a Qubit fluorometer (Thermo Fisher Scientific, Wilmington, DE, USA). .. Samples were amplified for a set of 46 microsatellite loci in four multiplex reactions (MS1 to MS3, and the Canine Genotypes Panel 2.1 Kit, Thermo Fisher Scientific), and a singleplex including the Dbar2 locus, following Godinho et al ., (Supplementary Tables and ).

    Article Title: Determining Genotypic Drug Resistance by Ion Semiconductor Sequencing With the Ion AmpliSeq™ TB Panel in Multidrug-Resistant Mycobacterium tuberculosis Isolates
    Article Snippet: Besides INH and RIF resistance, the phenotypic DST results revealed 15 isolates resistant to EMB (50%), 10 isolates resistant to SM (33%), seven isolates resistant to PZA (23%), three isolates resistant to OFX (10%), two isolates resistant to LEV (7%), and one isolate resistant to MXF (3%); however, all 30 MDR-TB isolates were phenotypically susceptible to AMK and KM. .. Nucleic acid quality and quantity were assessed with the Broad-Range Qubit DNA kit and a Qubit 2.0 fluorometer (Life Technologies) followed by agarose gel electrophoresis. .. To identify gene variants correlated with drug resistance in genomic DNA extracted from the pure MDR-TB isolates, we generated AmpliSeq libraries using the Ion AmpliSeq Library Kit 2.0 and the Ion AmpliSeq TB Research Panel (Life Technologies).

    Chromatin Immunoprecipitation:

    Article Title: Cavitation Enhancing Nanodroplets Mediate Efficient DNA Fragmentation in a Bench Top Ultrasonic Water Bath
    Article Snippet: After fragmentation, 20 μL of DNA was combined with 10X loading buffer (50% glycerol with Orange G and SYBR green) and loaded onto a 1.5% agarose gel and subjected to gel electrophoresis. .. For high throughput sequencing preparation, each sample was concentrated in a Zymo Research ChIP DNA Clean & Concentrator column (Zymo Research, Irvine, CA, USA #D5201), followed by quantification on a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY, USA). .. DNA fragment quality and size was assessed using an Agilent D1000 ScreenTape system (Agilent Technologies, Santa Clara, CA, USA).

    Article Title: HPV infection and bacterial microbiota in the placenta, uterine cervix and oral mucosa
    Article Snippet: Isolated DNA concentrations were measured using a Qubit® 2.0 Fluorometer (Life Technology, Carlsbad, CA, USA) and normalized to10 ng/μL. .. The V3-V4 region of 16S rDNA gene was amplified by PCR using Illumina adapter overhang nucleotide sequences following Illumina protocols.

    SDS Page:

    Article Title: Active and Total Transforming Growth Factor-?1 Are Differentially Regulated by Dopamine and Estradiol in the Pituitary
    Article Snippet: Anterior pituitaries were homogenized in 80 μl ice-cold buffer containing 50 m m Tris, 10 m m CaCl2 , 1 m m MgCl2 , 1% Triton X-100 (pH 7.6), and a mix of proteases inhibitors (phenylmethylsulfonylfluoride, tosylphenylalanine chloromethylketone, tert -Amyl methyl ether, N -carbobenzoxy- l -phenylalanine chloromethyl ketone, and tosylamidelysyl chloromethylketone) in a hand-held microtissue homogenizer. .. The homogenate was centrifuged at 1500 × g for 5 min at 4 C. The supernatant was collected, and protein concentration was determined by the Quant-iT Protein Assay kit and Qubit fluorometer (Invitrogen, Buenos Aires, Argentina); 50 μg protein from each sample were mixed with 5× sample buffer [150 m m Tris-HCl, 10% sodium dodecyl sulfate, 50% glycerol, 0.05% bromophenol blue, and 50 m m dithiotreitol (pH 6.8)] and heated 5 min at 95 C. Samples were loaded on 12% SDS-PAGE and transferred to Hybond-P polyvinylidene difluoride transfer membranes (GE Healthcare, Princeton, NJ). .. Membranes were incubated over night at 4 C with mouse anti-TβRII antibody (1:500, sc 17791; Santa Cruz Biotechnology, Inc., Santa Cruz, CA) or mouse anti-β-actin antibody (1:5000, ab 6276; Abcam, Cambridge, MA).

    Software:

    Article Title: Complete Genome Sequence of Tessaracoccus sp. Strain T2.5-30 Isolated from 139.5 Meters Deep on the Subsurface of the Iberian Pyritic Belt
    Article Snippet: The quantity of extracted genomic DNA was determined with the Qubit version 2.0 fluorometer (Invitrogen, USA), and quality was analyzed by electrophoresis on an agarose gel, as well as on a NanoDrop 2000 (Thermo Scientific, USA) for measurement of the A 260 /A 280 ratio. .. The quantity of extracted genomic DNA was determined with the Qubit version 2.0 fluorometer (Invitrogen, USA), and quality was analyzed by electrophoresis on an agarose gel, as well as on a NanoDrop 2000 (Thermo Scientific, USA) for measurement of the A 260 /A 280 ratio.

    Article Title: Active and Total Transforming Growth Factor-?1 Are Differentially Regulated by Dopamine and Estradiol in the Pituitary
    Article Snippet: The homogenate was centrifuged at 1500 × g for 5 min at 4 C. The supernatant was collected, and protein concentration was determined by the Quant-iT Protein Assay kit and Qubit fluorometer (Invitrogen, Buenos Aires, Argentina); 50 μg protein from each sample were mixed with 5× sample buffer [150 m m Tris-HCl, 10% sodium dodecyl sulfate, 50% glycerol, 0.05% bromophenol blue, and 50 m m dithiotreitol (pH 6.8)] and heated 5 min at 95 C. Samples were loaded on 12% SDS-PAGE and transferred to Hybond-P polyvinylidene difluoride transfer membranes (GE Healthcare, Princeton, NJ). .. The homogenate was centrifuged at 1500 × g for 5 min at 4 C. The supernatant was collected, and protein concentration was determined by the Quant-iT Protein Assay kit and Qubit fluorometer (Invitrogen, Buenos Aires, Argentina); 50 μg protein from each sample were mixed with 5× sample buffer [150 m m Tris-HCl, 10% sodium dodecyl sulfate, 50% glycerol, 0.05% bromophenol blue, and 50 m m dithiotreitol (pH 6.8)] and heated 5 min at 95 C. Samples were loaded on 12% SDS-PAGE and transferred to Hybond-P polyvinylidene difluoride transfer membranes (GE Healthcare, Princeton, NJ).

    Article Title: A Novel Mutation in the Stalk Domain of KIF5A Causes a Slowly Progressive Atypical Motor Syndrome
    Article Snippet: After obtaining a written informed consent, DNA was isolated from peripheral blood cells and quantified with NanoDrop ND1000 UV-Vis Spectrophotometer and Qubit® fluorometer (ThermoFisher Scientific, Waltham, MA, USA). .. After obtaining a written informed consent, DNA was isolated from peripheral blood cells and quantified with NanoDrop ND1000 UV-Vis Spectrophotometer and Qubit® fluorometer (ThermoFisher Scientific, Waltham, MA, USA).

    SYBR Green Assay:

    Article Title: Cavitation Enhancing Nanodroplets Mediate Efficient DNA Fragmentation in a Bench Top Ultrasonic Water Bath
    Article Snippet: After fragmentation, 20 μL of DNA was combined with 10X loading buffer (50% glycerol with Orange G and SYBR green) and loaded onto a 1.5% agarose gel and subjected to gel electrophoresis. .. For high throughput sequencing preparation, each sample was concentrated in a Zymo Research ChIP DNA Clean & Concentrator column (Zymo Research, Irvine, CA, USA #D5201), followed by quantification on a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY, USA).

    Article Title: Wear Particles Derived from Metal Hip Implants Induce the Generation of Multinucleated Giant Cells in a 3-Dimensional Peripheral Tissue-Equivalent Model
    Article Snippet: RNA concentration was determined using a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY). .. RNA concentration was determined using a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY).

    RNA Extraction:

    Article Title: CPP-Ts: a new intracellular calcium channel modulator and a promising tool for drug delivery in cancer cells
    Article Snippet: RNA quality was evaluated by electrophoresis in a 2.0% agarose gel, quantified in Qubit 2.0 Fluorometer (Life Technologies, MD, USA), and stored at −80°C until cDNA library construction. .. RNA quality was evaluated by electrophoresis in a 2.0% agarose gel, quantified in Qubit 2.0 Fluorometer (Life Technologies, MD, USA), and stored at −80°C until cDNA library construction.

    Article Title: Genome-wide identification and characterization of long non-coding RNAs in developmental skeletal muscle of fetal goat
    Article Snippet: Paragraph title: RNA extraction, library construction, and sequencing ... RNA concentration was measured using a Qubit® RNA Assay Kit in a Qubit® 2.0 Fluorometer (Life Technologies, Carlsbad, CA, USA).

    Sample Prep:

    Article Title: RNA Sequencing Revealed Numerous Polyketide Synthase Genes in the Harmful Dinoflagellate Karenia mikimotoi
    Article Snippet: For RNA sequencing, double-stranded cDNA libraries were constructed using TruSeq Stranded mRNA Sample Preparation Kit (Illumina, San Diego, CA), and two samples for each growth phase were independently indexed. .. The condition of the obtained libraries was validated using an Agilent DNA 1000 Kit (Agilent Technologies, Santa Clara, CA) by using a 2100 Bioanalyzer, and their concentrations were measured using Qubit® 2.0 Fluorometer (Life Technologies, Carlsbad, CA).

    Article Title: Genome-wide identification and characterization of long non-coding RNAs in developmental skeletal muscle of fetal goat
    Article Snippet: RNA concentration was measured using a Qubit® RNA Assay Kit in a Qubit® 2.0 Fluorometer (Life Technologies, Carlsbad, CA, USA). .. Only samples that had RNA Integrity Number (RIN) scores > 8 were used for sequencing.

    Electrophoresis:

    Article Title: Comparison of high resolution melting analysis, pyrosequencing, next generation sequencing and immunohistochemistry to conventional Sanger sequencing for the detection of p.V600E and non-p.V600E BRAF mutations
    Article Snippet: The DNA was isolated by automated extraction using the BioRobot M48 (Qiagen, Hilden, GER) following the manufacturer’s protocols. .. Quality and quantity of isolated DNA was assessed by agarose gel electrophoresis, by a Nanodrop 2000c spectrophotometer (PeqLab, Erlangen, GER) or in the case of next generation sequencing with the Qubit® Fluorometer (Life Technologies, Carlsbad, USA). .. High resolution melting (HRM) analysis was set up using 10 ng of genomic DNA, 3.5 mM MgCl2 , 1× LightCycler 480 High Resolution Melting Master and 200 nM of each primer in a final reaction volume of 20 μl.

    Article Title: Complete Genome Sequence of Tessaracoccus sp. Strain T2.5-30 Isolated from 139.5 Meters Deep on the Subsurface of the Iberian Pyritic Belt
    Article Snippet: For whole-genome sequencing, DNA was extracted using a centyltrimethylammonium bromide (CTAB)-based extraction method ( ). .. The quantity of extracted genomic DNA was determined with the Qubit version 2.0 fluorometer (Invitrogen, USA), and quality was analyzed by electrophoresis on an agarose gel, as well as on a NanoDrop 2000 (Thermo Scientific, USA) for measurement of the A 260 /A 280 ratio. .. Genomic DNA was submitted to the Norwegian Sequencing Centre (University of Oslo, Norway) for PacBio single-molecule real-time (SMRT) sequencing ( ).

    Article Title: CPP-Ts: a new intracellular calcium channel modulator and a promising tool for drug delivery in cancer cells
    Article Snippet: The telson containing venom glands was removed and triturated in TRI reagent (Sigma-Aldrich, MO, USA) to isolate RNA following a previously described protocol . .. RNA quality was evaluated by electrophoresis in a 2.0% agarose gel, quantified in Qubit 2.0 Fluorometer (Life Technologies, MD, USA), and stored at −80°C until cDNA library construction. .. The RNA library was assembled from total Ts telson RNA, using the TruSeq RNA Sample Preparation Kit v2 (Illumina, CA, USA), according to the manufacturer’s instructions.

    Ethanol Precipitation:

    Article Title: Genome-wide identification and characterization of long non-coding RNAs in developmental skeletal muscle of fetal goat
    Article Snippet: RNA concentration was measured using a Qubit® RNA Assay Kit in a Qubit® 2.0 Fluorometer (Life Technologies, Carlsbad, CA, USA). .. A total of 3 μg RNA per sample was used as input material for RNA sample preparation.

    Next-Generation Sequencing:

    Article Title: Comparison of high resolution melting analysis, pyrosequencing, next generation sequencing and immunohistochemistry to conventional Sanger sequencing for the detection of p.V600E and non-p.V600E BRAF mutations
    Article Snippet: The DNA was isolated by automated extraction using the BioRobot M48 (Qiagen, Hilden, GER) following the manufacturer’s protocols. .. Quality and quantity of isolated DNA was assessed by agarose gel electrophoresis, by a Nanodrop 2000c spectrophotometer (PeqLab, Erlangen, GER) or in the case of next generation sequencing with the Qubit® Fluorometer (Life Technologies, Carlsbad, USA). .. High resolution melting (HRM) analysis was set up using 10 ng of genomic DNA, 3.5 mM MgCl2 , 1× LightCycler 480 High Resolution Melting Master and 200 nM of each primer in a final reaction volume of 20 μl.

    Article Title: Cavitation Enhancing Nanodroplets Mediate Efficient DNA Fragmentation in a Bench Top Ultrasonic Water Bath
    Article Snippet: After fragmentation, 20 μL of DNA was combined with 10X loading buffer (50% glycerol with Orange G and SYBR green) and loaded onto a 1.5% agarose gel and subjected to gel electrophoresis. .. For high throughput sequencing preparation, each sample was concentrated in a Zymo Research ChIP DNA Clean & Concentrator column (Zymo Research, Irvine, CA, USA #D5201), followed by quantification on a Qubit 2.0 Fluorometer (Life Technologies, Grand Island, NY, USA). .. DNA fragment quality and size was assessed using an Agilent D1000 ScreenTape system (Agilent Technologies, Santa Clara, CA, USA).

    Spectrophotometry:

    Article Title: Comparison of high resolution melting analysis, pyrosequencing, next generation sequencing and immunohistochemistry to conventional Sanger sequencing for the detection of p.V600E and non-p.V600E BRAF mutations
    Article Snippet: The DNA was isolated by automated extraction using the BioRobot M48 (Qiagen, Hilden, GER) following the manufacturer’s protocols. .. Quality and quantity of isolated DNA was assessed by agarose gel electrophoresis, by a Nanodrop 2000c spectrophotometer (PeqLab, Erlangen, GER) or in the case of next generation sequencing with the Qubit® Fluorometer (Life Technologies, Carlsbad, USA). .. High resolution melting (HRM) analysis was set up using 10 ng of genomic DNA, 3.5 mM MgCl2 , 1× LightCycler 480 High Resolution Melting Master and 200 nM of each primer in a final reaction volume of 20 μl.

    Article Title: MicroRNAs expression profile in solid and unicystic ameloblastomas
    Article Snippet: The purity and concentration of the RNA were determined by the OD260 / 280/230 readings using a NanoDrop ND-1000 spectrophotometer (Thermo Fisher Scientific, Eugene, OR, USA). .. The integrity of the RNA was determined by fluorometric quantification using the Qubit 3 Fluorometer (Life Technologies, Foster City, CA, USA).

    Article Title: A Novel Mutation in the Stalk Domain of KIF5A Causes a Slowly Progressive Atypical Motor Syndrome
    Article Snippet: Right shoulder ultrasound indicated no rupture of muscle tendons. .. After obtaining a written informed consent, DNA was isolated from peripheral blood cells and quantified with NanoDrop ND1000 UV-Vis Spectrophotometer and Qubit® fluorometer (ThermoFisher Scientific, Waltham, MA, USA). .. Next Generation Sequencing (NGS) analysis (SureSelectQXT Target Enrichment for Illumina Multiplexed Sequencing, Agilent Technologies, Santa Clara, CA, USA) was performed, using a customized panel of 174 genes related to neurodegenerative diseases.

    Article Title: Genome-wide identification and characterization of long non-coding RNAs in developmental skeletal muscle of fetal goat
    Article Snippet: RNA purity was checked using a NanoPhotometer® spectrophotometer (IMPLEN, Los Angeles, CA, USA). .. RNA concentration was measured using a Qubit® RNA Assay Kit in a Qubit® 2.0 Fluorometer (Life Technologies, Carlsbad, CA, USA).

    Activation Assay:

    Article Title: Double-stranded RNA released from damaged articular chondrocytes promotes cartilage degeneration via Toll-like receptor 3-interleukin-33 pathway
    Article Snippet: Although PPARγ has been reported to participate in anti-inflammatory responses, and to block bone resorption by interacting with p65 under interaction with its ligands., Some groups have also found that PPARγ acts as a double-edged sword, in that it promotes inflammatory responses in a ligand-independent manner, whereas it serves as a negative regulator of renal inflammation upon ligand activation. .. First, the concentration of total RNAs in the supertanants of damaged cartilage lysate is ~24.8 ng/μ l quantified by using a Qubit Fluorometer (Invitrogen, Grand Island, NY, USA); however, because of technology limitation, we cannot measure the exact concent of dsRNA within these total RNAs.

    Marker:

    Article Title: Genome sequence of a dissimilatory Fe(III)-reducing bacterium Geobacter soli type strain GSS01T
    Article Snippet: Total genomic DNA was extracted using a DNA extraction kit (Aidlab). .. The quality and quantity of the genomic DNA was determined by 0.6 % agarose gel electrophoresis with λ-Hind III digest DNA marker and by a Qubit fluorometer (Invitrogen, CA, USA) with Qubit dsDNA BR Assay kit. .. About 50.22 μg DNA with a concentration of 91.3 ng/μl was obtained.

    Staining:

    Article Title: Comparison of high resolution melting analysis, pyrosequencing, next generation sequencing and immunohistochemistry to conventional Sanger sequencing for the detection of p.V600E and non-p.V600E BRAF mutations
    Article Snippet: On a haematoxylin-eosin stained slide tumor areas were selected by a pathologist (H.U.S.) and DNA was extracted from corresponding unstained 10 μm thick slides by manual micro-dissection. .. Quality and quantity of isolated DNA was assessed by agarose gel electrophoresis, by a Nanodrop 2000c spectrophotometer (PeqLab, Erlangen, GER) or in the case of next generation sequencing with the Qubit® Fluorometer (Life Technologies, Carlsbad, USA).

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    Thermo Fisher qubit 3 fluorometer
    Qubit 3 Fluorometer, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 99/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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