2100 bioanalyser  (Agilent technologies)

 
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    Name:
    2100 Bioanalyser
    Description:

    Catalog Number:
    G2938C
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    Score:
    85
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    Structured Review

    Agilent technologies 2100 bioanalyser
    Agilent <t>2100</t> <t>Bioanalyser</t> electropherogram graphs showing RNA extracted using the RNeasy Mini Kit, a CTAB-based protocol, TRIzol reagent and the SV Total RNA kit Markers can be seen at 25 nt, 18S RNA subunit at 2,000 nt, the 28S large subunit at 3,800 nt, and a combination of 5S, 5.8S, and tRNAs at ± 180 nt.

    https://www.bioz.com/result/2100 bioanalyser/product/Agilent technologies
    Average 99 stars, based on 185 article reviews
    Price from $9.99 to $1999.99
    2100 bioanalyser - by Bioz Stars, 2019-10
    99/100 stars

    Images

    1) Product Images from "Comparison of RNA Isolation Methods From Insect Larvae"

    Article Title: Comparison of RNA Isolation Methods From Insect Larvae

    Journal: Journal of Insect Science

    doi: 10.1093/jisesa/ieu130

    Agilent 2100 Bioanalyser electropherogram graphs showing RNA extracted using the RNeasy Mini Kit, a CTAB-based protocol, TRIzol reagent and the SV Total RNA kit Markers can be seen at 25 nt, 18S RNA subunit at 2,000 nt, the 28S large subunit at 3,800 nt, and a combination of 5S, 5.8S, and tRNAs at ± 180 nt.
    Figure Legend Snippet: Agilent 2100 Bioanalyser electropherogram graphs showing RNA extracted using the RNeasy Mini Kit, a CTAB-based protocol, TRIzol reagent and the SV Total RNA kit Markers can be seen at 25 nt, 18S RNA subunit at 2,000 nt, the 28S large subunit at 3,800 nt, and a combination of 5S, 5.8S, and tRNAs at ± 180 nt.

    Techniques Used:

    Pseudo-gel image produced using an Agilent 2100 Bioanalyser, showing the results of RNA extracted from T. leucotreta using the RNeasy Mini Kit, a CTAB-based protocol, TRIzol reagent, and the SV Total RNA kit. The 18S RNA subunit is visible at 2,000 nt, the 28S large subunit at 3,800 nt, and a combination of 5S, 5.8S, and tRNAs at ± 180 nt.
    Figure Legend Snippet: Pseudo-gel image produced using an Agilent 2100 Bioanalyser, showing the results of RNA extracted from T. leucotreta using the RNeasy Mini Kit, a CTAB-based protocol, TRIzol reagent, and the SV Total RNA kit. The 18S RNA subunit is visible at 2,000 nt, the 28S large subunit at 3,800 nt, and a combination of 5S, 5.8S, and tRNAs at ± 180 nt.

    Techniques Used: Produced

    2) Product Images from "Novel zinc-based fixative for high quality DNA, RNA and protein analysis"

    Article Title: Novel zinc-based fixative for high quality DNA, RNA and protein analysis

    Journal: Nucleic Acids Research

    doi: 10.1093/nar/gkm433

    Assessment of mouse liver RNA quality using the Agilent 2100 Bioanalyser. ( a ) Typical graphs showing severely degraded, partially degraded and intact RNA. ( b ) Graphs showing RNA quality from tissues fixed in: NBF, Z2, Z7 and also fresh-frozen mouse liver.
    Figure Legend Snippet: Assessment of mouse liver RNA quality using the Agilent 2100 Bioanalyser. ( a ) Typical graphs showing severely degraded, partially degraded and intact RNA. ( b ) Graphs showing RNA quality from tissues fixed in: NBF, Z2, Z7 and also fresh-frozen mouse liver.

    Techniques Used:

    3) Product Images from "Novel zinc-based fixative for high quality DNA, RNA and protein analysis"

    Article Title: Novel zinc-based fixative for high quality DNA, RNA and protein analysis

    Journal: Nucleic Acids Research

    doi: 10.1093/nar/gkm433

    Assessment of mouse liver RNA quality using the Agilent 2100 Bioanalyser. ( a ) Typical graphs showing severely degraded, partially degraded and intact RNA. ( b ) Graphs showing RNA quality from tissues fixed in: NBF, Z2, Z7 and also fresh-frozen mouse liver.
    Figure Legend Snippet: Assessment of mouse liver RNA quality using the Agilent 2100 Bioanalyser. ( a ) Typical graphs showing severely degraded, partially degraded and intact RNA. ( b ) Graphs showing RNA quality from tissues fixed in: NBF, Z2, Z7 and also fresh-frozen mouse liver.

    Techniques Used:

    4) Product Images from "Successful downstream application of the Paxgene Blood RNA system from small blood samples in paediatric patients for quantitative PCR analysis"

    Article Title: Successful downstream application of the Paxgene Blood RNA system from small blood samples in paediatric patients for quantitative PCR analysis

    Journal: BMC Immunology

    doi: 10.1186/1471-2172-8-20

    Agilent BioAnalyser 2100 traces of total RNA samples. Different volumes of peripheral blood were processed using PAXgene reagent as described in the text. A) Full scale 2.5 mL peripheral blood extraction B) 1.0 mL peripheral blood scaled down extraction C) 0.3 mL peripheral blood scaled down extraction D) Stratagene Universal RNA. The 2.5 mL and 1.0 mL extractions were run on eukaryote total RNA Nano chips and the 0.3 mL extractions and the Universal RNA shown were run on Pico chips. The 18s and 28s RNA peaks can be seen at approximately 42 and 48 seconds respectively.
    Figure Legend Snippet: Agilent BioAnalyser 2100 traces of total RNA samples. Different volumes of peripheral blood were processed using PAXgene reagent as described in the text. A) Full scale 2.5 mL peripheral blood extraction B) 1.0 mL peripheral blood scaled down extraction C) 0.3 mL peripheral blood scaled down extraction D) Stratagene Universal RNA. The 2.5 mL and 1.0 mL extractions were run on eukaryote total RNA Nano chips and the 0.3 mL extractions and the Universal RNA shown were run on Pico chips. The 18s and 28s RNA peaks can be seen at approximately 42 and 48 seconds respectively.

    Techniques Used:

    5) Product Images from "Transcriptome analysis of Gossypium hirsutum flower buds infested by cotton boll weevil (Anthonomus grandis) larvae"

    Article Title: Transcriptome analysis of Gossypium hirsutum flower buds infested by cotton boll weevil (Anthonomus grandis) larvae

    Journal: BMC Genomics

    doi: 10.1186/1471-2164-15-854

    Isolation of cotton tissues from paraffin-embedded sections by laser microdissection (LMD). Isolation of cotton tissues from paraffin-embedded sections by laser microdissection (LMD). Sections before LMD (a, c, e) , and sections after LM (b, d, f) . The area selected for laser microdissection is outlined in green (a region near the damage caused by larvae feeding, which comprised the stamen tissue, viewed at a , c and d ) or blue (a region farther from the injured area, which comprised the carpel tissue, viewed at a , e , and f ). The assessment of extracted RNA integrity from the stamen and carpel are shown in g and h , respectively. Electropherograms were obtained with an Agilent 2100 Bioanalyser. Open and closed arrowheads indicate the 18S and 28S ribosomal RNA peaks, respectively. RNA quality is expressed as the RNA integrity number (RIN). Scale bars = 100 μm.
    Figure Legend Snippet: Isolation of cotton tissues from paraffin-embedded sections by laser microdissection (LMD). Isolation of cotton tissues from paraffin-embedded sections by laser microdissection (LMD). Sections before LMD (a, c, e) , and sections after LM (b, d, f) . The area selected for laser microdissection is outlined in green (a region near the damage caused by larvae feeding, which comprised the stamen tissue, viewed at a , c and d ) or blue (a region farther from the injured area, which comprised the carpel tissue, viewed at a , e , and f ). The assessment of extracted RNA integrity from the stamen and carpel are shown in g and h , respectively. Electropherograms were obtained with an Agilent 2100 Bioanalyser. Open and closed arrowheads indicate the 18S and 28S ribosomal RNA peaks, respectively. RNA quality is expressed as the RNA integrity number (RIN). Scale bars = 100 μm.

    Techniques Used: Isolation, Laser Capture Microdissection

    6) Product Images from "Comparison of RNA Isolation Methods From Insect Larvae"

    Article Title: Comparison of RNA Isolation Methods From Insect Larvae

    Journal: Journal of Insect Science

    doi: 10.1093/jisesa/ieu130

    Agilent 2100 Bioanalyser electropherogram graphs showing RNA extracted using the RNeasy Mini Kit, a CTAB-based protocol, TRIzol reagent and the SV Total RNA kit Markers can be seen at 25 nt, 18S RNA subunit at 2,000 nt, the 28S large subunit at 3,800 nt, and a combination of 5S, 5.8S, and tRNAs at ± 180 nt.
    Figure Legend Snippet: Agilent 2100 Bioanalyser electropherogram graphs showing RNA extracted using the RNeasy Mini Kit, a CTAB-based protocol, TRIzol reagent and the SV Total RNA kit Markers can be seen at 25 nt, 18S RNA subunit at 2,000 nt, the 28S large subunit at 3,800 nt, and a combination of 5S, 5.8S, and tRNAs at ± 180 nt.

    Techniques Used:

    Pseudo-gel image produced using an Agilent 2100 Bioanalyser, showing the results of RNA extracted from T. leucotreta using the RNeasy Mini Kit, a CTAB-based protocol, TRIzol reagent, and the SV Total RNA kit. The 18S RNA subunit is visible at 2,000 nt, the 28S large subunit at 3,800 nt, and a combination of 5S, 5.8S, and tRNAs at ± 180 nt.
    Figure Legend Snippet: Pseudo-gel image produced using an Agilent 2100 Bioanalyser, showing the results of RNA extracted from T. leucotreta using the RNeasy Mini Kit, a CTAB-based protocol, TRIzol reagent, and the SV Total RNA kit. The 18S RNA subunit is visible at 2,000 nt, the 28S large subunit at 3,800 nt, and a combination of 5S, 5.8S, and tRNAs at ± 180 nt.

    Techniques Used: Produced

    7) Product Images from "Novel zinc-based fixative for high quality DNA, RNA and protein analysis"

    Article Title: Novel zinc-based fixative for high quality DNA, RNA and protein analysis

    Journal: Nucleic Acids Research

    doi: 10.1093/nar/gkm433

    Assessment of mouse liver RNA quality using the Agilent 2100 Bioanalyser. ( a ) Typical graphs showing severely degraded, partially degraded and intact RNA. ( b ) Graphs showing RNA quality from tissues fixed in: NBF, Z2, Z7 and also fresh-frozen mouse liver.
    Figure Legend Snippet: Assessment of mouse liver RNA quality using the Agilent 2100 Bioanalyser. ( a ) Typical graphs showing severely degraded, partially degraded and intact RNA. ( b ) Graphs showing RNA quality from tissues fixed in: NBF, Z2, Z7 and also fresh-frozen mouse liver.

    Techniques Used:

    8) Product Images from "Novel zinc-based fixative for high quality DNA, RNA and protein analysis"

    Article Title: Novel zinc-based fixative for high quality DNA, RNA and protein analysis

    Journal: Nucleic Acids Research

    doi: 10.1093/nar/gkm433

    Assessment of mouse liver RNA quality using the Agilent 2100 Bioanalyser. ( a ) Typical graphs showing severely degraded, partially degraded and intact RNA. ( b ) Graphs showing RNA quality from tissues fixed in: NBF, Z2, Z7 and also fresh-frozen mouse liver.
    Figure Legend Snippet: Assessment of mouse liver RNA quality using the Agilent 2100 Bioanalyser. ( a ) Typical graphs showing severely degraded, partially degraded and intact RNA. ( b ) Graphs showing RNA quality from tissues fixed in: NBF, Z2, Z7 and also fresh-frozen mouse liver.

    Techniques Used:

    9) Product Images from "Regulatory T cell-derived extracellular vesicles modify dendritic cell function"

    Article Title: Regulatory T cell-derived extracellular vesicles modify dendritic cell function

    Journal: Scientific Reports

    doi: 10.1038/s41598-018-24531-8

    Murine CD4 + CD25 + Treg EVs contain different miRNA compared to control T cell EVs. ( A) dTreg and control FoxP3 - T cell EVs (n = 3 per group) isolated by ExoQuick-TC were lysed and total RNA was purified and assessed using NanoDrop™ spectrophotometer and Agilent 2100 Bioanalyser. EVs miRNA was reverse transcribed into cDNA and pre-amplified before miRNA detection using QuantStudio™ 12 K Flex Real-Time PCR System with the OpenArray® Platform. The volcano plot shows the relation between the p-value and the log fold change between FoxP3 − T cell and Treg EV miRNA expression levels. The blue line indicates the inverse log 10 of the p-value = 0.05. ( B ) Bar graphs (mean + SEM) showing the relative quantity of miR-142-3p, miR-150-5p, and miR-384-5p by control T cell EVs (Control EVs) and Treg EVs (Treg EVs) as measured by qPCR and normalised relative to RNU6-2. Data pooled from 3 individual experiments that were performed in triplicates. Statistical significance was determined using a two-tailed Student’s t-test where *p
    Figure Legend Snippet: Murine CD4 + CD25 + Treg EVs contain different miRNA compared to control T cell EVs. ( A) dTreg and control FoxP3 - T cell EVs (n = 3 per group) isolated by ExoQuick-TC were lysed and total RNA was purified and assessed using NanoDrop™ spectrophotometer and Agilent 2100 Bioanalyser. EVs miRNA was reverse transcribed into cDNA and pre-amplified before miRNA detection using QuantStudio™ 12 K Flex Real-Time PCR System with the OpenArray® Platform. The volcano plot shows the relation between the p-value and the log fold change between FoxP3 − T cell and Treg EV miRNA expression levels. The blue line indicates the inverse log 10 of the p-value = 0.05. ( B ) Bar graphs (mean + SEM) showing the relative quantity of miR-142-3p, miR-150-5p, and miR-384-5p by control T cell EVs (Control EVs) and Treg EVs (Treg EVs) as measured by qPCR and normalised relative to RNU6-2. Data pooled from 3 individual experiments that were performed in triplicates. Statistical significance was determined using a two-tailed Student’s t-test where *p

    Techniques Used: Isolation, Purification, Spectrophotometry, Amplification, Real-time Polymerase Chain Reaction, Expressing, Two Tailed Test

    10) Product Images from "‘Degraded’ RNA profiles in Arthropoda and beyond"

    Article Title: ‘Degraded’ RNA profiles in Arthropoda and beyond

    Journal: PeerJ

    doi: 10.7717/peerj.1436

    Electropherogram traces for 100–200 ng of total RNA applied to an RNA Nano Chip were generated on the Agilent 2100 Bioanalyser. RNA that appears ‘degraded’ after heat-denaturation and fails to provide a RNA Integrity Number (RIN) can generate high RINs in non-heat-denatured aliquots from the same RNA stock. RIN numbers are shown in each case for (A) Spider Grammostola porteri ; (B) Centipede Scolopendra subspinipes ; (C) Stalked barnacle, Order Lepadiformes, Lepas anatifera ; D. Stalked barnacle, Order Lepadiformes, Dosima fascicularis E. Stalked barnacle, Order Scalpelliformes, Pollicipes pollicipes .
    Figure Legend Snippet: Electropherogram traces for 100–200 ng of total RNA applied to an RNA Nano Chip were generated on the Agilent 2100 Bioanalyser. RNA that appears ‘degraded’ after heat-denaturation and fails to provide a RNA Integrity Number (RIN) can generate high RINs in non-heat-denatured aliquots from the same RNA stock. RIN numbers are shown in each case for (A) Spider Grammostola porteri ; (B) Centipede Scolopendra subspinipes ; (C) Stalked barnacle, Order Lepadiformes, Lepas anatifera ; D. Stalked barnacle, Order Lepadiformes, Dosima fascicularis E. Stalked barnacle, Order Scalpelliformes, Pollicipes pollicipes .

    Techniques Used: Chromatin Immunoprecipitation, Generated

    11) Product Images from "The biocontrol bacterium Pseudomonas fluorescens Pf29Arp strain affects the pathogenesis-related gene expression of the take-all fungus Gaeumannomyces graminis var. tritici on wheat roots"

    Article Title: The biocontrol bacterium Pseudomonas fluorescens Pf29Arp strain affects the pathogenesis-related gene expression of the take-all fungus Gaeumannomyces graminis var. tritici on wheat roots

    Journal: Molecular Plant Pathology

    doi: 10.1111/j.1364-3703.2011.00715.x

    Quality of root-extracted RNA. The analysis of the total RNA extracted from inoculated roots was performed using an Agilent Bioanalyser 2100. One microlitre of RQ1 DNase-treated total RNA was analysed for each sample. The days post-inoculation with Gaeumannomyces graminis var. tritici ( Ggt ) are indicated. M, RNA size marker; lanes 1, 3, 6, 9, RNA from uninfected wheat roots; lanes 2, 4, 7, 10, RNA from wheat roots infected with Ggt ; lanes 5, 8, 11, RNA from wheat roots infected with Ggt and Pf29Arp; lane 12, RNA from soil-borne pathogenic fungus IV-26/00.
    Figure Legend Snippet: Quality of root-extracted RNA. The analysis of the total RNA extracted from inoculated roots was performed using an Agilent Bioanalyser 2100. One microlitre of RQ1 DNase-treated total RNA was analysed for each sample. The days post-inoculation with Gaeumannomyces graminis var. tritici ( Ggt ) are indicated. M, RNA size marker; lanes 1, 3, 6, 9, RNA from uninfected wheat roots; lanes 2, 4, 7, 10, RNA from wheat roots infected with Ggt ; lanes 5, 8, 11, RNA from wheat roots infected with Ggt and Pf29Arp; lane 12, RNA from soil-borne pathogenic fungus IV-26/00.

    Techniques Used: Marker, Infection

    12) Product Images from "Retrieval of entire genes from environmental DNA by inverse PCR with pre-amplification of target genes using primers containing locked nucleic acids"

    Article Title: Retrieval of entire genes from environmental DNA by inverse PCR with pre-amplification of target genes using primers containing locked nucleic acids

    Journal: Environmental Microbiology

    doi: 10.1111/j.1462-2920.2007.01518.x

    Capillary electrophoreses of IPCR (odd-numbered lanes) and PAI-PCR (even-numbered lanes) products amplified from DNA extracted from horse vermiform appendixes. The electrophoreses followed by the analysis of the electrophoregrams were automatically performed by using an Agilent 2100 Bioanalyser with a DNA 7500 LabChip® kit (TaKaRa-Bio). The results are shown as a gel-like image. L is the ladder obtained with DNA fragment size markers (bp). The green and pink peaks are the lowest 50 bp and highest 10 380 bp markers respectively. The substrates used for IPCR or PAI-PCR were BamHI-digested DNA (lanes 1 and 2), EcoRI-digested DNA (lanes 3 and 4), HindIII-digested DNA (lanes 5 and 6), PstI-digested DNA (lanes 7 and 8) and XbaI-digested DNA (lanes 9 and 10).
    Figure Legend Snippet: Capillary electrophoreses of IPCR (odd-numbered lanes) and PAI-PCR (even-numbered lanes) products amplified from DNA extracted from horse vermiform appendixes. The electrophoreses followed by the analysis of the electrophoregrams were automatically performed by using an Agilent 2100 Bioanalyser with a DNA 7500 LabChip® kit (TaKaRa-Bio). The results are shown as a gel-like image. L is the ladder obtained with DNA fragment size markers (bp). The green and pink peaks are the lowest 50 bp and highest 10 380 bp markers respectively. The substrates used for IPCR or PAI-PCR were BamHI-digested DNA (lanes 1 and 2), EcoRI-digested DNA (lanes 3 and 4), HindIII-digested DNA (lanes 5 and 6), PstI-digested DNA (lanes 7 and 8) and XbaI-digested DNA (lanes 9 and 10).

    Techniques Used: Polymerase Chain Reaction, Amplification

    Capillary electrophoreses of PAI-PCR products amplified from DNA extracted from 12 different termite gut samples. All DNA samples were digested with EcoRI, and an RCA primer [(A) Xyn-RC(LNA-Even); or (B) Xyn-RC(LNA-5′)] was used in the RCA reaction. Products were analysed with an Agilent 2100 Bioanalyser with a DNA 7500 LabChip® kit (TaKaRa-Bio).
    Figure Legend Snippet: Capillary electrophoreses of PAI-PCR products amplified from DNA extracted from 12 different termite gut samples. All DNA samples were digested with EcoRI, and an RCA primer [(A) Xyn-RC(LNA-Even); or (B) Xyn-RC(LNA-5′)] was used in the RCA reaction. Products were analysed with an Agilent 2100 Bioanalyser with a DNA 7500 LabChip® kit (TaKaRa-Bio).

    Techniques Used: Polymerase Chain Reaction, Amplification

    13) Product Images from "‘Degraded’ RNA profiles in Arthropoda and beyond"

    Article Title: ‘Degraded’ RNA profiles in Arthropoda and beyond

    Journal: PeerJ

    doi: 10.7717/peerj.1436

    Electropherogram traces for 100–200 ng of total RNA applied to an RNA Nano Chip were generated on the Agilent 2100 Bioanalyser. RNA that appears ‘degraded’ after heat-denaturation and fails to provide a RNA Integrity Number (RIN) can generate high RINs in non-heat-denatured aliquots from the same RNA stock. RIN numbers are shown in each case for (A) Spider Grammostola porteri ; (B) Centipede Scolopendra subspinipes ; (C) Stalked barnacle, Order Lepadiformes, Lepas anatifera ; D. Stalked barnacle, Order Lepadiformes, Dosima fascicularis E. Stalked barnacle, Order Scalpelliformes, Pollicipes pollicipes .
    Figure Legend Snippet: Electropherogram traces for 100–200 ng of total RNA applied to an RNA Nano Chip were generated on the Agilent 2100 Bioanalyser. RNA that appears ‘degraded’ after heat-denaturation and fails to provide a RNA Integrity Number (RIN) can generate high RINs in non-heat-denatured aliquots from the same RNA stock. RIN numbers are shown in each case for (A) Spider Grammostola porteri ; (B) Centipede Scolopendra subspinipes ; (C) Stalked barnacle, Order Lepadiformes, Lepas anatifera ; D. Stalked barnacle, Order Lepadiformes, Dosima fascicularis E. Stalked barnacle, Order Scalpelliformes, Pollicipes pollicipes .

    Techniques Used: Chromatin Immunoprecipitation, Generated

    Related Articles

    Centrifugation:

    Article Title: Sublethal Concentrations of Antibiotics Cause Shift to Anaerobic Metabolism in Listeria monocytogenes and Induce Phenotypes Linked to Antibiotic Tolerance
    Article Snippet: Cells were pelleted by centrifugation and stored at -80°C until total RNA extraction using Trizol (Invitrogen) according to . .. Total RNA quality and quantity were assessed by an Agilent 2100 Bioanalyser using an RNA 6000 Nano chip and Nanodrop spectrophotometer, respectively.

    Article Title: Generation of novel pharmacogenomic candidates in the response to methotrexate in juvenile idiopathic arthritis: correlation between gene expression and genotype
    Article Snippet: PBMC were prepared from venous blood by standard density centrifugation. .. High quality and purity of RNA were confirmed using the Bioanalyser 2100 (Agilent Technologies, Palo Alto, CA). cDNA and subsequent cRNA synthesis was performed as described.

    Article Title: Transcriptomic profiling of host-parasite interactions in the microsporidian Trachipleistophora hominis
    Article Snippet: Cells suspended in RNAprotect (Qiagen) were thawed and pelleted by centrifugation at 400 g. Total RNA was purified from each sample using the standard TRIzol (Invitrogen) extraction protocol, with the addition of a bead beating step (three times for 20 s at 5 m/s, with 10 mins incubation on ice between beating). .. The RNA integrity and concentration was assessed using the Agilent RNA 6000 Nano Kit on the Agilent 2100 BioAnalyser.

    Amplification:

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    Article Snippet: Three electrophoretic runs were performed for each sample (BAT25 /D2S123, D5S346 /D17S250 , and BAT26 ) according to the standard protocol [ ] ( ). .. Amplified DNA fragments were purified with QIAquick PCR Purification Kit (Qiagen), applied on the DNA LabChip of the Agilent DNA 1000 Kit (Agilent Technologies, Santa Clara, CA, USA), and analyzed with an Agilent 2100 Bioanalyser instrument (Agilent Technologies) according to the previous protocol [ ]. .. The electropherogram of each cancer spheroid line was overlaid with that of the normal epithelial spheroid line derived from the same patient.

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    Article Snippet: Paragraph title: RNA amplification and ds-cDNA synthesis for Roche 454 sequencing ... Size-range and quantity of ds-cDNA were also analyzed by both gel electrophoresis and using the Agilent 2100 Bioanalyser before submitting the samples for sequencing.

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    DNA Synthesis:

    Article Title: Expression of Genes for Drug Transporters in the Human Female Genital Tract and Modulatory Effect of Antiretroviral Drugs
    Article Snippet: Integrity and quantification of RNA were evaluated using the Agilent RNA 6000 Nano Kit (Agilent Technologies, Milan, Italy) on the Agilent 2100 Bioanalyser (Agilent Technologies). .. Integrity and quantification of RNA were evaluated using the Agilent RNA 6000 Nano Kit (Agilent Technologies, Milan, Italy) on the Agilent 2100 Bioanalyser (Agilent Technologies).

    Mass Spectrometry:

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    Synthesized:

    Article Title: Heart function and thoracic aorta gene expression profiling studies of ginseng combined with different herbal medicines in eNOS knockout mice
    Article Snippet: Total RNA was extracted using mirVana RNA Isolation Kit (Thermo Scientific, Waltham, USA), and quantified using the NanoDrop ND-2000 (Thermo Scientific, Waltham, USA) and the RNA integrity was evaluated using Agilent Bioanalyser 2100 (Agilent Technologies, Palo Alto, USA). .. The Agilent SurePrint G3 Mouse Gene Expression (8*60 K, Design ID: 028005) was used in this experiment.

    Article Title: Full-length transcriptome of Misgurnus anguillicaudatus provides insights into evolution of genus Misgurnus
    Article Snippet: RNA quality and concentration were determined using NanoDrop 2000 (Thermo Scientific, DE, USA) and Agilent Bioanalyser 2100 (Agilent Technologies, CA, USA), respectively. .. RNA quality and concentration were determined using NanoDrop 2000 (Thermo Scientific, DE, USA) and Agilent Bioanalyser 2100 (Agilent Technologies, CA, USA), respectively.

    Quantitative RT-PCR:

    Article Title: Molecular and proteomic analyses highlight the importance of ubiquitination for the stress resistance, metabolic adaptation, morphogenetic regulation and virulence of Candida albicans
    Article Snippet: UBI4 mRNA levels were measured by qRT-PCR. .. RNA was extracted with Trizol (GibcoBRL, Grand Island, NY, USA) as described previously , and RNA integrity assayed on an Agilent Bioanalyser 2100 (Stockport, UK).

    Real-time Polymerase Chain Reaction:

    Article Title: The Anti-Proliferative Effects of Enterolactone in Prostate Cancer Cells: Evidence for the Role of DNA Licencing Genes, mi-R106b Cluster Expression, and PTEN Dosage
    Article Snippet: For each gene and time point, two biological replicates (with triplicate qPCR measurements) of 5 × 105 cells were used. .. RNA quantity and integrity was determined based on A260:280 and A260:230 nm ratios using a NanoDrop 1000 spectrophotometer (Thermo Fisher Scientific, Melbourne, Australia) and a Agilent 2100 bioanalyser (Agilent, Santa Clara, CA, USA).

    Article Title: Molecular and proteomic analyses highlight the importance of ubiquitination for the stress resistance, metabolic adaptation, morphogenetic regulation and virulence of Candida albicans
    Article Snippet: RNA was extracted with Trizol (GibcoBRL, Grand Island, NY, USA) as described previously , and RNA integrity assayed on an Agilent Bioanalyser 2100 (Stockport, UK). .. For qRT-PCR, samples were incubated at room temperature for 15 min in a 20 µl reaction mix containing 2 µg RNA, 2 µl DNase I buffer (Invitrogen; Paisley, UK), 1.5 µl DNase I and 1.5 µl RNase OUT (Invitrogen). cDNA was prepared using Superscript II (Invitrogen) as per the manufacturer's protocol.

    Article Title: Expression of Genes for Drug Transporters in the Human Female Genital Tract and Modulatory Effect of Antiretroviral Drugs
    Article Snippet: Paragraph title: Purification of total RNA, cDNA synthesis and quantitative PCR ... Integrity and quantification of RNA were evaluated using the Agilent RNA 6000 Nano Kit (Agilent Technologies, Milan, Italy) on the Agilent 2100 Bioanalyser (Agilent Technologies).

    Article Title: Identification of superior reference genes for data normalisation of expression studies via quantitative PCR in hybrid roses (Rosa hybrida)
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    Microarray:

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    Article Title: Sialic Acid Utilisation and Synthesis in the Neonatal Rat Revisited
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    Article Title: Heart function and thoracic aorta gene expression profiling studies of ginseng combined with different herbal medicines in eNOS knockout mice
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    Article Snippet: Paragraph title: RNA preparation, cDNA synthesis, and microarray hybridizations ... RNA isolation was performed according to standard protocols using Trizol reagent and controlled (precise integrity checks and sample quantitation) by Agilent bioanalyser 2100.

    Article Title: Nutrigenomic and Nutritional Analyses Reveal the Effects of Pelleted Feeds on Asian Seabass (Lates calcarifer)
    Article Snippet: Paragraph title: 2.8 Microarray hybridization and analysis ... The RNA integrity number (RIN) of extracted total RNA was determined by using Agilent 2100 Bioanalyser (Agilent Technologies, Nærum, Denmark).

    Quantitation Assay:

    Article Title: The Intensity of IUGR-Induced Transcriptome Deregulations Is Inversely Correlated with the Onset of Organ Function in a Rat Model
    Article Snippet: This way, we hypothesize that the most drastic cases of IUGR have been considered in the study. .. RNA isolation was performed according to standard protocols using Trizol reagent and controlled (precise integrity checks and sample quantitation) by Agilent bioanalyser 2100. .. Ten micrograms total RNA from a pool of more than 30 fetal tissues from LP group and a pool of more 30 fetal tissues (those displaying the larger weight reduction) for the control group were hybridized to long oligonucleotides microarrays, at the Nimblegen platform in Reykjavik, Iceland, following described protocols.

    Expressing:

    Article Title: A Splice Mutation in the PHKG1 Gene Causes High Glycogen Content and Low Meat Quality in Pig Skeletal Muscle
    Article Snippet: RNA quantity and integrity were assessed using a NanoDrop ND-1000 Spectrophotometer (Thermo Fisher Scientific) and a 2100 Bioanalyser (Agilent). .. For mapping clean tags to reference transcript sets or to the pig reference genome (Sus Scrofa Build 10.2) , we created virtual libraries containing all the possible 17-base length sequences of these resources located next to an Nla III restriction site.

    Article Title: The Anti-Proliferative Effects of Enterolactone in Prostate Cancer Cells: Evidence for the Role of DNA Licencing Genes, mi-R106b Cluster Expression, and PTEN Dosage
    Article Snippet: Paragraph title: 2.5. Quantification of Gene Expression—mRNA and miRNA Genes ... RNA quantity and integrity was determined based on A260:280 and A260:230 nm ratios using a NanoDrop 1000 spectrophotometer (Thermo Fisher Scientific, Melbourne, Australia) and a Agilent 2100 bioanalyser (Agilent, Santa Clara, CA, USA).

    Article Title: Sialic Acid Utilisation and Synthesis in the Neonatal Rat Revisited
    Article Snippet: After extraction, RNA was quantified with the RiboGreen RNA Quantification Kit (Molecular Probes) and monitored for quality on a Agilent 2100 Bioanalyser (RNA integrity numbers ≧8 for high quality). .. 750 ng biotin-labelled cRNA was added to the hybridization mix, which contained control oligonucleotides (such as negative and hybridization controls), hybridization buffer, and water.

    Article Title: Heart function and thoracic aorta gene expression profiling studies of ginseng combined with different herbal medicines in eNOS knockout mice
    Article Snippet: Total RNA was extracted using mirVana RNA Isolation Kit (Thermo Scientific, Waltham, USA), and quantified using the NanoDrop ND-2000 (Thermo Scientific, Waltham, USA) and the RNA integrity was evaluated using Agilent Bioanalyser 2100 (Agilent Technologies, Palo Alto, USA). .. Sample labelling, microarray hybridization and washing were successively performed according to the manufacturer’s instructions.

    Article Title: Generation of novel pharmacogenomic candidates in the response to methotrexate in juvenile idiopathic arthritis: correlation between gene expression and genotype
    Article Snippet: Paragraph title: Gene expression profiling ... High quality and purity of RNA were confirmed using the Bioanalyser 2100 (Agilent Technologies, Palo Alto, CA). cDNA and subsequent cRNA synthesis was performed as described.

    Article Title: Nutrigenomic and Nutritional Analyses Reveal the Effects of Pelleted Feeds on Asian Seabass (Lates calcarifer)
    Article Snippet: The RNA integrity number (RIN) of extracted total RNA was determined by using Agilent 2100 Bioanalyser (Agilent Technologies, Nærum, Denmark). .. Microarray-based transcriptomics were carried out using Agilent SurePrint G3 custom gene expression microarrays (8X60K; Cat No. G4102A) with probes covering an estimated ~70% of the seabass transcriptome (estimated based on BLASTX-search against the Nile tilapia RefSeq protein dataset).

    Transformation Assay:

    Article Title: Nutrigenomic and Nutritional Analyses Reveal the Effects of Pelleted Feeds on Asian Seabass (Lates calcarifer)
    Article Snippet: The RNA integrity number (RIN) of extracted total RNA was determined by using Agilent 2100 Bioanalyser (Agilent Technologies, Nærum, Denmark). .. The RNA integrity number (RIN) of extracted total RNA was determined by using Agilent 2100 Bioanalyser (Agilent Technologies, Nærum, Denmark).

    Hybridization:

    Article Title: Sialic Acid Utilisation and Synthesis in the Neonatal Rat Revisited
    Article Snippet: After extraction, RNA was quantified with the RiboGreen RNA Quantification Kit (Molecular Probes) and monitored for quality on a Agilent 2100 Bioanalyser (RNA integrity numbers ≧8 for high quality). .. Briefly, 200 ng total RNA was used to produce double-stranded cDNA followed by in vitro transcription and cRNA labelling with biotin.

    Article Title: Nutrigenomic and Nutritional Analyses Reveal the Effects of Pelleted Feeds on Asian Seabass (Lates calcarifer)
    Article Snippet: Paragraph title: 2.8 Microarray hybridization and analysis ... The RNA integrity number (RIN) of extracted total RNA was determined by using Agilent 2100 Bioanalyser (Agilent Technologies, Nærum, Denmark).

    Polymerase Chain Reaction:

    Article Title: Accurate diagnosis of mismatch repair deficiency in colorectal cancer using high-quality DNA samples from cultured stem cells
    Article Snippet: Three electrophoretic runs were performed for each sample (BAT25 /D2S123, D5S346 /D17S250 , and BAT26 ) according to the standard protocol [ ] ( ). .. Amplified DNA fragments were purified with QIAquick PCR Purification Kit (Qiagen), applied on the DNA LabChip of the Agilent DNA 1000 Kit (Agilent Technologies, Santa Clara, CA, USA), and analyzed with an Agilent 2100 Bioanalyser instrument (Agilent Technologies) according to the previous protocol [ ]. .. The electropherogram of each cancer spheroid line was overlaid with that of the normal epithelial spheroid line derived from the same patient.

    Article Title: Molecular and proteomic analyses highlight the importance of ubiquitination for the stress resistance, metabolic adaptation, morphogenetic regulation and virulence of Candida albicans
    Article Snippet: RNA was extracted with Trizol (GibcoBRL, Grand Island, NY, USA) as described previously , and RNA integrity assayed on an Agilent Bioanalyser 2100 (Stockport, UK). .. Briefly, for the target transcripts UBI4 and ACT1 , probes were chosen using the ProbeFinder Software Version 2.45 (Roche, http://www.universalprobelibrary.com ).

    Article Title: Full-length transcriptome of Misgurnus anguillicaudatus provides insights into evolution of genus Misgurnus
    Article Snippet: RNA quality and concentration were determined using NanoDrop 2000 (Thermo Scientific, DE, USA) and Agilent Bioanalyser 2100 (Agilent Technologies, CA, USA), respectively. .. RNA quality and concentration were determined using NanoDrop 2000 (Thermo Scientific, DE, USA) and Agilent Bioanalyser 2100 (Agilent Technologies, CA, USA), respectively.

    Nucleic Acid Electrophoresis:

    Article Title: Identification of ovule transcripts from the Apospory-Specific Genomic Region (ASGR)-carrier chromosome
    Article Snippet: For each sample, an equal amount of amplified mRNA from the three biological replicates was pooled for ds-cDNA synthesis following the protocol developed by the Schnable lab [ ]. .. Size-range and quantity of ds-cDNA were also analyzed by both gel electrophoresis and using the Agilent 2100 Bioanalyser before submitting the samples for sequencing. .. About 6 μg of ds-cDNA from both PS26 and BC8 was submitted to the Genome Sequencing Center at Washington University for 454-FLX sequencing.

    Article Title: Identification of superior reference genes for data normalisation of expression studies via quantitative PCR in hybrid roses (Rosa hybrida)
    Article Snippet: The RNA concentration was assessed spectrophotometrically at 260 nm and was checked for purity by determining the OD 260 nm/280 nm and the OD 260 nm/230 nm ratios, respectively. .. The RNA quality was assessed by gel electrophoresis and for a subset of samples using a Bioanalyser 2100 lab chip (Agilent, Santa Clara). .. For each sample, 300 ng of total RNA was reverse-transcribed using the High-Capacity cDNA Reverse Transcription Kit (Applied Biosystems, Austin) and 1 μg of an oligo-(dT)18 Primer (Fermentas, St. Leon-Rot) according to the manufacturer's instructions.

    RNA Sequencing Assay:

    Article Title: Sublethal Concentrations of Antibiotics Cause Shift to Anaerobic Metabolism in Listeria monocytogenes and Induce Phenotypes Linked to Antibiotic Tolerance
    Article Snippet: Samples for RNA sequencing were harvested from antibiotic-exposed and control cells at 0 and 3 h and were quenched for 30 min in ice-cold 2% phenol, 38% ethanol, 62% water, to stabilize RNA ( ). .. Total RNA quality and quantity were assessed by an Agilent 2100 Bioanalyser using an RNA 6000 Nano chip and Nanodrop spectrophotometer, respectively.

    Article Title: The Beta-adrenergic agonist, Ractopamine, increases skeletal muscle expression of Asparagine Synthetase as part of an integrated stress response gene program
    Article Snippet: The RNA samples selected for RNA-sequencing were purified using the Qiagen miRNeasy kit, by following the manufacturer’s instructions. .. RNA quantity was measured using a Nanodrop ND-1000 (Nanodrop Technologies, Wilmington, US) and RNA integrity number (RIN) was determined using an Agilent 2100 Bioanalyser (Agilent, Stockport, UK).

    Article Title: Transcriptomic profiling of host-parasite interactions in the microsporidian Trachipleistophora hominis
    Article Snippet: The RNA integrity and concentration was assessed using the Agilent RNA 6000 Nano Kit on the Agilent 2100 BioAnalyser. .. PolyA RNA was isolated from 5 μg of purified total RNA.

    RNA HS Assay:

    Article Title: Nanopore-based detection and characterization of yam viruses
    Article Snippet: Small RNA (sRNA) molecules, including small 21–24 nucleotides (nt) interfering RNAs, were extracted from symptomatic leaves of the water yam sample using a RNAzolRT kit (WAK Chemie, Steinbach, Germany) following the manufacturers protocol (RNAzol®RT Brochure, 2010, Molecular Research Center, Inc. Cincinnati, OH). .. The small RNA fraction was quantified in a Qubit fluorimeter using a Qubit RNA HS Assay Kit (Thermo Fischer Scientific, Waltham, USA) and checked for quality in a bioanalyser 2100 (Agilent). .. RNA passing the quality check was used for library preparation and subjected to high-throughput sequencing on an Illumina “Hi-Seq 2000” instrument using the services of a commercial company (Fasteris SA, Plan-les-Ouates, Switzerland).

    Isolation:

    Article Title: HMA4 expression in tobacco reduces Cd accumulation due to the induction of the apoplastic barrier
    Article Snippet: Paragraph title: RNA isolation ... The quality of RNA used for microarray analysis was checked using an Agilent 2100 Bioanalyser (Agilent Technologies, Santa Clara, CA, USA), according to the manufacturer’s instructions.

    Article Title: Heart function and thoracic aorta gene expression profiling studies of ginseng combined with different herbal medicines in eNOS knockout mice
    Article Snippet: The peri-adventitial, fibro-adipose tissues were carefully isolated. .. Total RNA was extracted using mirVana RNA Isolation Kit (Thermo Scientific, Waltham, USA), and quantified using the NanoDrop ND-2000 (Thermo Scientific, Waltham, USA) and the RNA integrity was evaluated using Agilent Bioanalyser 2100 (Agilent Technologies, Palo Alto, USA). .. Sample labelling, microarray hybridization and washing were successively performed according to the manufacturer’s instructions.

    Article Title: The Intensity of IUGR-Induced Transcriptome Deregulations Is Inversely Correlated with the Onset of Organ Function in a Rat Model
    Article Snippet: This way, we hypothesize that the most drastic cases of IUGR have been considered in the study. .. RNA isolation was performed according to standard protocols using Trizol reagent and controlled (precise integrity checks and sample quantitation) by Agilent bioanalyser 2100. .. Ten micrograms total RNA from a pool of more than 30 fetal tissues from LP group and a pool of more 30 fetal tissues (those displaying the larger weight reduction) for the control group were hybridized to long oligonucleotides microarrays, at the Nimblegen platform in Reykjavik, Iceland, following described protocols.

    Article Title: Full-length transcriptome of Misgurnus anguillicaudatus provides insights into evolution of genus Misgurnus
    Article Snippet: The total RNA of each sample was isolated using TRIzol reagent (TaKaRa, Dalian, China), and then genomic DNA was removed using gDNA eraser (TaKaRa, Dalian, China). .. RNA quality and concentration were determined using NanoDrop 2000 (Thermo Scientific, DE, USA) and Agilent Bioanalyser 2100 (Agilent Technologies, CA, USA), respectively.

    RNA Extraction:

    Article Title: The Promoter Methylation Status and mRNA Expression Levels of CTCF and SIRT6 in Sporadic Breast Cancer
    Article Snippet: Paragraph title: DNA and RNA extraction ... RNA quality was verified using an Agilent Bioanalyser 2100 (Agilent Technologies, Santa Clara, CA).

    Article Title: Nanopore-based detection and characterization of yam viruses
    Article Snippet: Paragraph title: Small RNA extraction and Illumina sequencing ... The small RNA fraction was quantified in a Qubit fluorimeter using a Qubit RNA HS Assay Kit (Thermo Fischer Scientific, Waltham, USA) and checked for quality in a bioanalyser 2100 (Agilent).

    Article Title: Sublethal Concentrations of Antibiotics Cause Shift to Anaerobic Metabolism in Listeria monocytogenes and Induce Phenotypes Linked to Antibiotic Tolerance
    Article Snippet: Cells were pelleted by centrifugation and stored at -80°C until total RNA extraction using Trizol (Invitrogen) according to . .. Total RNA quality and quantity were assessed by an Agilent 2100 Bioanalyser using an RNA 6000 Nano chip and Nanodrop spectrophotometer, respectively.

    Article Title: Full-length transcriptome of Misgurnus anguillicaudatus provides insights into evolution of genus Misgurnus
    Article Snippet: Paragraph title: Sampling and RNA extraction ... RNA quality and concentration were determined using NanoDrop 2000 (Thermo Scientific, DE, USA) and Agilent Bioanalyser 2100 (Agilent Technologies, CA, USA), respectively.

    Article Title: Transcriptome analysis of human ageing in male skin shows mid-life period of variability and central role of NF-κB
    Article Snippet: Paragraph title: RNA extraction ... Quantity and quality of RNA was determined using an Agilent 2100 BioAnalyser (Agilent Technologies).

    Article Title: Identification of superior reference genes for data normalisation of expression studies via quantitative PCR in hybrid roses (Rosa hybrida)
    Article Snippet: Paragraph title: Total RNA extraction and cDNA synthesis ... The RNA quality was assessed by gel electrophoresis and for a subset of samples using a Bioanalyser 2100 lab chip (Agilent, Santa Clara).

    Labeling:

    Article Title: The Intensity of IUGR-Induced Transcriptome Deregulations Is Inversely Correlated with the Onset of Organ Function in a Rat Model
    Article Snippet: RNA isolation was performed according to standard protocols using Trizol reagent and controlled (precise integrity checks and sample quantitation) by Agilent bioanalyser 2100. .. RNA isolation was performed according to standard protocols using Trizol reagent and controlled (precise integrity checks and sample quantitation) by Agilent bioanalyser 2100.

    Purification:

    Article Title: Accurate diagnosis of mismatch repair deficiency in colorectal cancer using high-quality DNA samples from cultured stem cells
    Article Snippet: Three electrophoretic runs were performed for each sample (BAT25 /D2S123, D5S346 /D17S250 , and BAT26 ) according to the standard protocol [ ] ( ). .. Amplified DNA fragments were purified with QIAquick PCR Purification Kit (Qiagen), applied on the DNA LabChip of the Agilent DNA 1000 Kit (Agilent Technologies, Santa Clara, CA, USA), and analyzed with an Agilent 2100 Bioanalyser instrument (Agilent Technologies) according to the previous protocol [ ]. .. The electropherogram of each cancer spheroid line was overlaid with that of the normal epithelial spheroid line derived from the same patient.

    Article Title: Sialic Acid Utilisation and Synthesis in the Neonatal Rat Revisited
    Article Snippet: Total RNA was then extracted and purified with the RNAdvance tissue kit (Agencourt) through an automated procedure on a Hamilton robotic station. .. After extraction, RNA was quantified with the RiboGreen RNA Quantification Kit (Molecular Probes) and monitored for quality on a Agilent 2100 Bioanalyser (RNA integrity numbers ≧8 for high quality).

    Article Title: Sublethal Concentrations of Antibiotics Cause Shift to Anaerobic Metabolism in Listeria monocytogenes and Induce Phenotypes Linked to Antibiotic Tolerance
    Article Snippet: Paragraph title: RNA Purification ... Total RNA quality and quantity were assessed by an Agilent 2100 Bioanalyser using an RNA 6000 Nano chip and Nanodrop spectrophotometer, respectively.

    Article Title: The Beta-adrenergic agonist, Ractopamine, increases skeletal muscle expression of Asparagine Synthetase as part of an integrated stress response gene program
    Article Snippet: The RNA samples selected for RNA-sequencing were purified using the Qiagen miRNeasy kit, by following the manufacturer’s instructions. .. RNA quantity was measured using a Nanodrop ND-1000 (Nanodrop Technologies, Wilmington, US) and RNA integrity number (RIN) was determined using an Agilent 2100 Bioanalyser (Agilent, Stockport, UK).

    Article Title: Transcriptomic profiling of host-parasite interactions in the microsporidian Trachipleistophora hominis
    Article Snippet: An additional cleanup step using the GeneJet RNA purification kit (Thermo Scientific) was added to remove residual organic solvents from the purified total RNA. .. The RNA integrity and concentration was assessed using the Agilent RNA 6000 Nano Kit on the Agilent 2100 BioAnalyser.

    Article Title: Transcriptome analysis of human ageing in male skin shows mid-life period of variability and central role of NF-κB
    Article Snippet: Samples were dissected with scalpel in 0.5 ml of TRIzol reagent (Invitrogen) then homogenized on ice using a hand-held rotor-stator homogenizer (TissueRuptor, Qiagen) with disposable probes, in 10 s bursts for a total of 60 s. Samples were then processed with a standard TRIzol/chloroform and RNA Easy kit (Qiagen) purification protocol as per the manufacturer’s instructions. .. Quantity and quality of RNA was determined using an Agilent 2100 BioAnalyser (Agilent Technologies).

    Article Title: Expression of Genes for Drug Transporters in the Human Female Genital Tract and Modulatory Effect of Antiretroviral Drugs
    Article Snippet: Paragraph title: Purification of total RNA, cDNA synthesis and quantitative PCR ... Integrity and quantification of RNA were evaluated using the Agilent RNA 6000 Nano Kit (Agilent Technologies, Milan, Italy) on the Agilent 2100 Bioanalyser (Agilent Technologies).

    Sequencing:

    Article Title: Nanopore-based detection and characterization of yam viruses
    Article Snippet: Paragraph title: Small RNA extraction and Illumina sequencing ... The small RNA fraction was quantified in a Qubit fluorimeter using a Qubit RNA HS Assay Kit (Thermo Fischer Scientific, Waltham, USA) and checked for quality in a bioanalyser 2100 (Agilent).

    Article Title: Identification of ovule transcripts from the Apospory-Specific Genomic Region (ASGR)-carrier chromosome
    Article Snippet: For each sample, an equal amount of amplified mRNA from the three biological replicates was pooled for ds-cDNA synthesis following the protocol developed by the Schnable lab [ ]. .. Size-range and quantity of ds-cDNA were also analyzed by both gel electrophoresis and using the Agilent 2100 Bioanalyser before submitting the samples for sequencing. .. About 6 μg of ds-cDNA from both PS26 and BC8 was submitted to the Genome Sequencing Center at Washington University for 454-FLX sequencing.

    Article Title: Full-length transcriptome of Misgurnus anguillicaudatus provides insights into evolution of genus Misgurnus
    Article Snippet: RNA quality and concentration were determined using NanoDrop 2000 (Thermo Scientific, DE, USA) and Agilent Bioanalyser 2100 (Agilent Technologies, CA, USA), respectively. .. The first-strand cDNA was synthesized using SMARTer PCR cDNA Synthesis Kit (Clontech, CA, USA).

    Article Title: Transcriptomic profiling of host-parasite interactions in the microsporidian Trachipleistophora hominis
    Article Snippet: Paragraph title: Preparation of RNA for sequencing ... The RNA integrity and concentration was assessed using the Agilent RNA 6000 Nano Kit on the Agilent 2100 BioAnalyser.

    Construct:

    Article Title: Full-length transcriptome of Misgurnus anguillicaudatus provides insights into evolution of genus Misgurnus
    Article Snippet: RNA quality and concentration were determined using NanoDrop 2000 (Thermo Scientific, DE, USA) and Agilent Bioanalyser 2100 (Agilent Technologies, CA, USA), respectively. .. After a round of PCR amplification, the amplified cDNA was size selected into different size fractions to prevent preferential small template sequencing, using the Blue Pippin (Sage Science; MA, USA).

    Mouse Assay:

    Article Title: Heart function and thoracic aorta gene expression profiling studies of ginseng combined with different herbal medicines in eNOS knockout mice
    Article Snippet: Total RNA was extracted using mirVana RNA Isolation Kit (Thermo Scientific, Waltham, USA), and quantified using the NanoDrop ND-2000 (Thermo Scientific, Waltham, USA) and the RNA integrity was evaluated using Agilent Bioanalyser 2100 (Agilent Technologies, Palo Alto, USA). .. Total RNA was extracted using mirVana RNA Isolation Kit (Thermo Scientific, Waltham, USA), and quantified using the NanoDrop ND-2000 (Thermo Scientific, Waltham, USA) and the RNA integrity was evaluated using Agilent Bioanalyser 2100 (Agilent Technologies, Palo Alto, USA).

    Chromatin Immunoprecipitation:

    Article Title: Sublethal Concentrations of Antibiotics Cause Shift to Anaerobic Metabolism in Listeria monocytogenes and Induce Phenotypes Linked to Antibiotic Tolerance
    Article Snippet: Cells were pelleted by centrifugation and stored at -80°C until total RNA extraction using Trizol (Invitrogen) according to . .. Total RNA quality and quantity were assessed by an Agilent 2100 Bioanalyser using an RNA 6000 Nano chip and Nanodrop spectrophotometer, respectively. .. To reduce the amount of rRNA reads for the RNA sequencing, we isolated mRNA from good quality total RNA (RIN 9.8-10) using the MICROBExpress kit (Ambion AM1905) according to the manufacture’s protocol.

    Article Title: Identification of superior reference genes for data normalisation of expression studies via quantitative PCR in hybrid roses (Rosa hybrida)
    Article Snippet: The RNA concentration was assessed spectrophotometrically at 260 nm and was checked for purity by determining the OD 260 nm/280 nm and the OD 260 nm/230 nm ratios, respectively. .. The RNA quality was assessed by gel electrophoresis and for a subset of samples using a Bioanalyser 2100 lab chip (Agilent, Santa Clara). .. For each sample, 300 ng of total RNA was reverse-transcribed using the High-Capacity cDNA Reverse Transcription Kit (Applied Biosystems, Austin) and 1 μg of an oligo-(dT)18 Primer (Fermentas, St. Leon-Rot) according to the manufacturer's instructions.

    Software:

    Article Title: Molecular and proteomic analyses highlight the importance of ubiquitination for the stress resistance, metabolic adaptation, morphogenetic regulation and virulence of Candida albicans
    Article Snippet: RNA was extracted with Trizol (GibcoBRL, Grand Island, NY, USA) as described previously , and RNA integrity assayed on an Agilent Bioanalyser 2100 (Stockport, UK). .. Real-time PCR was performed in triplicate in optical multiwall plate 384 using the LightCycler 480 Probes Master (Roche Applied Science; Burgess Hill, UK) as per the manufacturer's guidelines.

    Article Title: The Intensity of IUGR-Induced Transcriptome Deregulations Is Inversely Correlated with the Onset of Organ Function in a Rat Model
    Article Snippet: RNA isolation was performed according to standard protocols using Trizol reagent and controlled (precise integrity checks and sample quantitation) by Agilent bioanalyser 2100. .. A total of 390,000 oligonucleotides representing 23,456 transcripts from the rat genome were hybridized with fluorescently labeled cDNAs from each fetal tissue (LP group vs control group).

    Multiplex Assay:

    Article Title: Accurate diagnosis of mismatch repair deficiency in colorectal cancer using high-quality DNA samples from cultured stem cells
    Article Snippet: Microsatellite DNA fragments were amplified from spheroid DNA samples using Multiplex PCR Kit (Qiagen) and primer pairs for the Bethesda panel markers [ , ] ( ). .. Amplified DNA fragments were purified with QIAquick PCR Purification Kit (Qiagen), applied on the DNA LabChip of the Agilent DNA 1000 Kit (Agilent Technologies, Santa Clara, CA, USA), and analyzed with an Agilent 2100 Bioanalyser instrument (Agilent Technologies) according to the previous protocol [ ].

    Agarose Gel Electrophoresis:

    Article Title: The Promoter Methylation Status and mRNA Expression Levels of CTCF and SIRT6 in Sporadic Breast Cancer
    Article Snippet: DNA and RNA integrity was checked by agarose gel electrophoresis. .. RNA quality was verified using an Agilent Bioanalyser 2100 (Agilent Technologies, Santa Clara, CA).

    In Vitro:

    Article Title: Sialic Acid Utilisation and Synthesis in the Neonatal Rat Revisited
    Article Snippet: After extraction, RNA was quantified with the RiboGreen RNA Quantification Kit (Molecular Probes) and monitored for quality on a Agilent 2100 Bioanalyser (RNA integrity numbers ≧8 for high quality). .. All cRNA targets were synthesized, labelled and purified according to the Illumina TotalPrep RNA amplification protocol (Applied Biosystems/Ambion) using the Hamilton robotic station.

    Article Title: Identification of ovule transcripts from the Apospory-Specific Genomic Region (ASGR)-carrier chromosome
    Article Snippet: With total RNA as starting material, mRNA was amplified by T7-based in vitro transcription following the manual of TargetAmp™2-Round aRNA Amplification Kit 2.0 (Epicentre, Madison, WI). .. Size-range and quantity of ds-cDNA were also analyzed by both gel electrophoresis and using the Agilent 2100 Bioanalyser before submitting the samples for sequencing.

    Incubation:

    Article Title: Transcriptomic profiling of host-parasite interactions in the microsporidian Trachipleistophora hominis
    Article Snippet: Cells suspended in RNAprotect (Qiagen) were thawed and pelleted by centrifugation at 400 g. Total RNA was purified from each sample using the standard TRIzol (Invitrogen) extraction protocol, with the addition of a bead beating step (three times for 20 s at 5 m/s, with 10 mins incubation on ice between beating). .. The RNA integrity and concentration was assessed using the Agilent RNA 6000 Nano Kit on the Agilent 2100 BioAnalyser.

    Spectrophotometry:

    Article Title: A Splice Mutation in the PHKG1 Gene Causes High Glycogen Content and Low Meat Quality in Pig Skeletal Muscle
    Article Snippet: Total RNA was extracted from longissimus dorsi muscle samples of 497 F2 animals using Trizol (Invitrogen). .. RNA quantity and integrity were assessed using a NanoDrop ND-1000 Spectrophotometer (Thermo Fisher Scientific) and a 2100 Bioanalyser (Agilent). .. Genome-wide transcripts were assayed by digital gene expression (DGE) system and data processing was conducted as described previously , .

    Article Title: The Anti-Proliferative Effects of Enterolactone in Prostate Cancer Cells: Evidence for the Role of DNA Licencing Genes, mi-R106b Cluster Expression, and PTEN Dosage
    Article Snippet: The NucleoSpin® miRNA kit (Macherey-Nagel, Düren, Germany) was used to extract large and small RNA in separate fractions from each of the samples according to the manufacturer’s instructions. .. RNA quantity and integrity was determined based on A260:280 and A260:230 nm ratios using a NanoDrop 1000 spectrophotometer (Thermo Fisher Scientific, Melbourne, Australia) and a Agilent 2100 bioanalyser (Agilent, Santa Clara, CA, USA). .. Only RNA with both absorbance ratios of 1.8 to 2.1 and with a RIN value of 9 or greater were considered to be of sufficient quality and integrity.

    Article Title: HMA4 expression in tobacco reduces Cd accumulation due to the induction of the apoplastic barrier
    Article Snippet: All RNA samples were quantified at A 260 using a Nanodrop spectrophotometer ND100 (Nanodrop, Wilimington, DE, USA). .. The quality of RNA used for microarray analysis was checked using an Agilent 2100 Bioanalyser (Agilent Technologies, Santa Clara, CA, USA), according to the manufacturer’s instructions.

    Article Title: Sublethal Concentrations of Antibiotics Cause Shift to Anaerobic Metabolism in Listeria monocytogenes and Induce Phenotypes Linked to Antibiotic Tolerance
    Article Snippet: Cells were pelleted by centrifugation and stored at -80°C until total RNA extraction using Trizol (Invitrogen) according to . .. Total RNA quality and quantity were assessed by an Agilent 2100 Bioanalyser using an RNA 6000 Nano chip and Nanodrop spectrophotometer, respectively. .. To reduce the amount of rRNA reads for the RNA sequencing, we isolated mRNA from good quality total RNA (RIN 9.8-10) using the MICROBExpress kit (Ambion AM1905) according to the manufacture’s protocol.

    Sampling:

    Article Title: Full-length transcriptome of Misgurnus anguillicaudatus provides insights into evolution of genus Misgurnus
    Article Snippet: Paragraph title: Sampling and RNA extraction ... RNA quality and concentration were determined using NanoDrop 2000 (Thermo Scientific, DE, USA) and Agilent Bioanalyser 2100 (Agilent Technologies, CA, USA), respectively.

    Concentration Assay:

    Article Title: Full-length transcriptome of Misgurnus anguillicaudatus provides insights into evolution of genus Misgurnus
    Article Snippet: The total RNA of each sample was isolated using TRIzol reagent (TaKaRa, Dalian, China), and then genomic DNA was removed using gDNA eraser (TaKaRa, Dalian, China). .. RNA quality and concentration were determined using NanoDrop 2000 (Thermo Scientific, DE, USA) and Agilent Bioanalyser 2100 (Agilent Technologies, CA, USA), respectively. .. Equal amounts of the total RNA from each of the 12 tissues were pooled to generate one sample for library preparation.

    Article Title: Transcriptomic profiling of host-parasite interactions in the microsporidian Trachipleistophora hominis
    Article Snippet: An additional cleanup step using the GeneJet RNA purification kit (Thermo Scientific) was added to remove residual organic solvents from the purified total RNA. .. The RNA integrity and concentration was assessed using the Agilent RNA 6000 Nano Kit on the Agilent 2100 BioAnalyser. .. PolyA RNA was isolated from 5 μg of purified total RNA.

    Article Title: Nutrigenomic and Nutritional Analyses Reveal the Effects of Pelleted Feeds on Asian Seabass (Lates calcarifer)
    Article Snippet: RNA concentration was determined using NanoDrop 1000 (NanoDrop Technologies). .. The RNA integrity number (RIN) of extracted total RNA was determined by using Agilent 2100 Bioanalyser (Agilent Technologies, Nærum, Denmark).

    Article Title: Identification of superior reference genes for data normalisation of expression studies via quantitative PCR in hybrid roses (Rosa hybrida)
    Article Snippet: The RNA concentration was assessed spectrophotometrically at 260 nm and was checked for purity by determining the OD 260 nm/280 nm and the OD 260 nm/230 nm ratios, respectively. .. The RNA quality was assessed by gel electrophoresis and for a subset of samples using a Bioanalyser 2100 lab chip (Agilent, Santa Clara).

    Marker:

    Article Title: Accurate diagnosis of mismatch repair deficiency in colorectal cancer using high-quality DNA samples from cultured stem cells
    Article Snippet: Amplified DNA fragments were purified with QIAquick PCR Purification Kit (Qiagen), applied on the DNA LabChip of the Agilent DNA 1000 Kit (Agilent Technologies, Santa Clara, CA, USA), and analyzed with an Agilent 2100 Bioanalyser instrument (Agilent Technologies) according to the previous protocol [ ]. .. The electropherogram of each cancer spheroid line was overlaid with that of the normal epithelial spheroid line derived from the same patient.

    Lysis:

    Article Title: Sialic Acid Utilisation and Synthesis in the Neonatal Rat Revisited
    Article Snippet: Brain and colon tissue samples (approximately 10 mg wet weight) were disrupted and homogenized in lysis buffer using a FastPrep instrument and lysing tubes containing ceramic beads (MP Biomedicals). .. After extraction, RNA was quantified with the RiboGreen RNA Quantification Kit (Molecular Probes) and monitored for quality on a Agilent 2100 Bioanalyser (RNA integrity numbers ≧8 for high quality).

    Article Title: Expression of Genes for Drug Transporters in the Human Female Genital Tract and Modulatory Effect of Antiretroviral Drugs
    Article Snippet: Biopsies were homogenized in RA1 Lysis Buffer using 5 mm stainless steel beads in the Tissues Lyser apparatus (Qiagen s.r.l., Milan, Italy). .. Integrity and quantification of RNA were evaluated using the Agilent RNA 6000 Nano Kit (Agilent Technologies, Milan, Italy) on the Agilent 2100 Bioanalyser (Agilent Technologies).

    T-Test:

    Article Title: The Intensity of IUGR-Induced Transcriptome Deregulations Is Inversely Correlated with the Onset of Organ Function in a Rat Model
    Article Snippet: RNA isolation was performed according to standard protocols using Trizol reagent and controlled (precise integrity checks and sample quantitation) by Agilent bioanalyser 2100. .. Image analysis was performed with the NimbleScan software (Nimblegen), and feature intensities were exported as .pair files.

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    Agilent technologies 2100 bioanalyzer
    Postfixation processing of an RNA 50mer with excess formaldehyde removed. Gel-simulated image (Agilent <t>2100</t> <t>Bioanalyzer)</t> of the RNA 50mer fixed in 5% buffered formaldehyde (pH 7.4) for 2 hours. A: Lane L: RNA ladder. Lane 1: Non–formaldehyde-treated
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    Postfixation processing of an RNA 50mer with excess formaldehyde removed. Gel-simulated image (Agilent 2100 Bioanalyzer) of the RNA 50mer fixed in 5% buffered formaldehyde (pH 7.4) for 2 hours. A: Lane L: RNA ladder. Lane 1: Non–formaldehyde-treated

    Journal:

    Article Title: The Effect of Formaldehyde Fixation on RNA

    doi: 10.1016/j.jmoldx.2011.01.010

    Figure Lengend Snippet: Postfixation processing of an RNA 50mer with excess formaldehyde removed. Gel-simulated image (Agilent 2100 Bioanalyzer) of the RNA 50mer fixed in 5% buffered formaldehyde (pH 7.4) for 2 hours. A: Lane L: RNA ladder. Lane 1: Non–formaldehyde-treated

    Article Snippet: The compositions of the total HeLa RNA and RNA 50mer preparations were characterized by capillary electrophoresis using a 2100 bioanalyzer (Agilent Technologies, Santa Clara, CA).

    Techniques:

    Effects of fixation and postfixation processing on total cellular RNA: gel-simulated image (Agilent 2100 Bioanalyzer) of total cellular RNA fixed in 5% buffered formaldehyde (pH 7.4) for 2 hours. Lane L: RNA ladder. Lane 1: Native non–formaldehyde-treated

    Journal:

    Article Title: The Effect of Formaldehyde Fixation on RNA

    doi: 10.1016/j.jmoldx.2011.01.010

    Figure Lengend Snippet: Effects of fixation and postfixation processing on total cellular RNA: gel-simulated image (Agilent 2100 Bioanalyzer) of total cellular RNA fixed in 5% buffered formaldehyde (pH 7.4) for 2 hours. Lane L: RNA ladder. Lane 1: Native non–formaldehyde-treated

    Article Snippet: The compositions of the total HeLa RNA and RNA 50mer preparations were characterized by capillary electrophoresis using a 2100 bioanalyzer (Agilent Technologies, Santa Clara, CA).

    Techniques:

    Effects of buffer composition on postfixation processing of an RNA 50mer: gel-simulated image (Agilent 2100 Bioanalyzer). Lane L: RNA ladder. Lane 1: Native RNA 50mer. Lane 2: RNA 50mer fixed in 5% buffered formaldehyde (pH 7.4) for 2 hours. Excess formaldehyde

    Journal:

    Article Title: The Effect of Formaldehyde Fixation on RNA

    doi: 10.1016/j.jmoldx.2011.01.010

    Figure Lengend Snippet: Effects of buffer composition on postfixation processing of an RNA 50mer: gel-simulated image (Agilent 2100 Bioanalyzer). Lane L: RNA ladder. Lane 1: Native RNA 50mer. Lane 2: RNA 50mer fixed in 5% buffered formaldehyde (pH 7.4) for 2 hours. Excess formaldehyde

    Article Snippet: The compositions of the total HeLa RNA and RNA 50mer preparations were characterized by capillary electrophoresis using a 2100 bioanalyzer (Agilent Technologies, Santa Clara, CA).

    Techniques:

    Postformaldehyde fixation processing of an RNA 50mer. Gel-simulated image (Agilent 2100 Bioanalyzer) of the RNA 50mer fixed in 5% buffered formaldehyde (pH 7.4) for 2 hours and then heated at 70°C for 30 minutes, where indicated, in the following

    Journal:

    Article Title: The Effect of Formaldehyde Fixation on RNA

    doi: 10.1016/j.jmoldx.2011.01.010

    Figure Lengend Snippet: Postformaldehyde fixation processing of an RNA 50mer. Gel-simulated image (Agilent 2100 Bioanalyzer) of the RNA 50mer fixed in 5% buffered formaldehyde (pH 7.4) for 2 hours and then heated at 70°C for 30 minutes, where indicated, in the following

    Article Snippet: The compositions of the total HeLa RNA and RNA 50mer preparations were characterized by capillary electrophoresis using a 2100 bioanalyzer (Agilent Technologies, Santa Clara, CA).

    Techniques:

    Effects of fixation and postfixation processing on total HeLa RNA. Electropherograms (Agilent 2100 Bioanalyzer) of total cellular RNA fixed in 5% buffered formaldehyde (pH 7.4) for 2 hours. FU denotes fluorescence units. A: Non–formaldehyde-treated

    Journal:

    Article Title: The Effect of Formaldehyde Fixation on RNA

    doi: 10.1016/j.jmoldx.2011.01.010

    Figure Lengend Snippet: Effects of fixation and postfixation processing on total HeLa RNA. Electropherograms (Agilent 2100 Bioanalyzer) of total cellular RNA fixed in 5% buffered formaldehyde (pH 7.4) for 2 hours. FU denotes fluorescence units. A: Non–formaldehyde-treated

    Article Snippet: The compositions of the total HeLa RNA and RNA 50mer preparations were characterized by capillary electrophoresis using a 2100 bioanalyzer (Agilent Technologies, Santa Clara, CA).

    Techniques: Fluorescence

    Analysis of plasma cfDNA obtained from one representative pregnant donor blood stored at 22°C using Agilent Bioanalyzer 2100 instrument and Agilent DNA high sensitivity Kit. A, Overlaid electropherograms of plasma cfDNA extracted from blood stored (at 22°C) in K 3 EDTA tubes at days 0, 3, 7, 14 and 28. B, Overlaid electropherograms of plasma cfDNA extracted from blood stored (at 22°C) in ProTeck tubes at days 0, 3, 7, 14 and 28. C, Bioanalyzer gel image for blood stored in K 3 EDTA tubes. D, Bioanalyzer gel image for blood stored in ProTeck tubes. Cell-free DNA obtained from 3 pregnant donors were analyzed. This figure shows only the results of one representative pregnant donor.

    Journal: PLoS ONE

    Article Title: A novel approach to stabilize fetal cell-free DNA fraction in maternal blood samples for extended period of time

    doi: 10.1371/journal.pone.0208508

    Figure Lengend Snippet: Analysis of plasma cfDNA obtained from one representative pregnant donor blood stored at 22°C using Agilent Bioanalyzer 2100 instrument and Agilent DNA high sensitivity Kit. A, Overlaid electropherograms of plasma cfDNA extracted from blood stored (at 22°C) in K 3 EDTA tubes at days 0, 3, 7, 14 and 28. B, Overlaid electropherograms of plasma cfDNA extracted from blood stored (at 22°C) in ProTeck tubes at days 0, 3, 7, 14 and 28. C, Bioanalyzer gel image for blood stored in K 3 EDTA tubes. D, Bioanalyzer gel image for blood stored in ProTeck tubes. Cell-free DNA obtained from 3 pregnant donors were analyzed. This figure shows only the results of one representative pregnant donor.

    Article Snippet: The Agilent 2100 Expert software analyze DNA profile of each sample automatically and displays electropherogram for each sample.

    Techniques:

    Analysis of plasma cfDNA obtained from one representative pregnant donor blood stored at 30°C using Agilent Bioanalyzer 2100 instrument and Agilent DNA high sensitivity Kit. A, Overlaid electropherograms of plasma cfDNA extracted from blood stored in K 3 EDTA tubes at days 0, 2, 3, 7 and 14. B, Overlaid electropherograms of plasma cfDNA extracted from blood stored in ProTeck tubes at days 0, 2, 3, 7 and 14. C, Bioanalyzer gel image for blood stored in K 3 EDTA tubes. D, Bioanalyzer gel image for blood stored in ProTeck tubes. Cell-free DNA obtained from 3 pregnant donors were analyzed. This figure shows only the results of one representative pregnant donor.

    Journal: PLoS ONE

    Article Title: A novel approach to stabilize fetal cell-free DNA fraction in maternal blood samples for extended period of time

    doi: 10.1371/journal.pone.0208508

    Figure Lengend Snippet: Analysis of plasma cfDNA obtained from one representative pregnant donor blood stored at 30°C using Agilent Bioanalyzer 2100 instrument and Agilent DNA high sensitivity Kit. A, Overlaid electropherograms of plasma cfDNA extracted from blood stored in K 3 EDTA tubes at days 0, 2, 3, 7 and 14. B, Overlaid electropherograms of plasma cfDNA extracted from blood stored in ProTeck tubes at days 0, 2, 3, 7 and 14. C, Bioanalyzer gel image for blood stored in K 3 EDTA tubes. D, Bioanalyzer gel image for blood stored in ProTeck tubes. Cell-free DNA obtained from 3 pregnant donors were analyzed. This figure shows only the results of one representative pregnant donor.

    Article Snippet: The Agilent 2100 Expert software analyze DNA profile of each sample automatically and displays electropherogram for each sample.

    Techniques:

    Analysis of plasma cfDNA obtained from one representative pregnant donor blood stored at 4°C using Agilent Bioanalyzer 2100 instrument and Agilent DNA high sensitivity Kit. A, Overlaid electropherograms of plasma cfDNA extracted from blood stored in K 3 EDTA tubes at days 0, 3, 7, 14 and 21. B, Overlaid electropherograms of plasma cfDNA extracted from blood stored in ProTeck tubes at days 0, 3, 7, 14 and 21. C, Bioanalyzer gel image for blood stored in K 3 EDTA tubes. D, Bioanalyzer gel image for blood stored in ProTeck tubes. Cell-free DNA obtained from 3 pregnant donors were analyzed. This figure shows only the results of one representative pregnant donor.

    Journal: PLoS ONE

    Article Title: A novel approach to stabilize fetal cell-free DNA fraction in maternal blood samples for extended period of time

    doi: 10.1371/journal.pone.0208508

    Figure Lengend Snippet: Analysis of plasma cfDNA obtained from one representative pregnant donor blood stored at 4°C using Agilent Bioanalyzer 2100 instrument and Agilent DNA high sensitivity Kit. A, Overlaid electropherograms of plasma cfDNA extracted from blood stored in K 3 EDTA tubes at days 0, 3, 7, 14 and 21. B, Overlaid electropherograms of plasma cfDNA extracted from blood stored in ProTeck tubes at days 0, 3, 7, 14 and 21. C, Bioanalyzer gel image for blood stored in K 3 EDTA tubes. D, Bioanalyzer gel image for blood stored in ProTeck tubes. Cell-free DNA obtained from 3 pregnant donors were analyzed. This figure shows only the results of one representative pregnant donor.

    Article Snippet: The Agilent 2100 Expert software analyze DNA profile of each sample automatically and displays electropherogram for each sample.

    Techniques:

    Application of Nextera DNA Flex to bacterial amplicons. a Libraries prepared using Nextera DNA Flex showed more consistent, even coverage compared with libraries prepared using Nextera XT; data depicts the sequence coverage of libraries prepared from the 3 kb E. coli amplicon. b PCR products ranging in size from 50 bp to 3 kb amplified from E. coli gDNA visualized on a 1% agarose gel. c Libraries prepared from a 1 ng input of these E. coli amplicons resulted in Bioanalyzer traces that depicted a slight increase in fragment size with increasing amplicon size. d Libraries were sequenced on a MiSeq and coverage of the E. coli genome determined for the different amplicon fragment size inputs. Sequenceable libraries were generated from amplicons ranging in size from 50 bp to 3 kb. e When sequencing data was downsampled to 25,000 reads, the larger fragment inputs were reaching a coverage maximum

    Journal: BMC Genomics

    Article Title: Bead-linked transposomes enable a normalization-free workflow for NGS library preparation

    doi: 10.1186/s12864-018-5096-9

    Figure Lengend Snippet: Application of Nextera DNA Flex to bacterial amplicons. a Libraries prepared using Nextera DNA Flex showed more consistent, even coverage compared with libraries prepared using Nextera XT; data depicts the sequence coverage of libraries prepared from the 3 kb E. coli amplicon. b PCR products ranging in size from 50 bp to 3 kb amplified from E. coli gDNA visualized on a 1% agarose gel. c Libraries prepared from a 1 ng input of these E. coli amplicons resulted in Bioanalyzer traces that depicted a slight increase in fragment size with increasing amplicon size. d Libraries were sequenced on a MiSeq and coverage of the E. coli genome determined for the different amplicon fragment size inputs. Sequenceable libraries were generated from amplicons ranging in size from 50 bp to 3 kb. e When sequencing data was downsampled to 25,000 reads, the larger fragment inputs were reaching a coverage maximum

    Article Snippet: Where described, library quality was determined by running 1 μl of the pooled library or an individual library on a Bioanalyzer (Agilent 2100 Bioanalyzer) using a High Sensitivity DNA kit (Agilent, cat. no. 5067–4626) or on a Fragment Analyzer (Advanced Analytical Fragment Analyzer) with the High Sensitivity NGS Fragment Analysis Kit (Advanced Analytical, cat. no. DNF-474).

    Techniques: Sequencing, Amplification, Polymerase Chain Reaction, Agarose Gel Electrophoresis, Generated

    Bioanalyzer traces of libraries prepared from various sample types and species. a Libraries prepared from samples with a varied degree of formalin fixation; a higher ΔCq indicates more FFPE-induced DNA degradation compared with a positive control. b Increasing FFPE-induced DNA degradation has a small effect on average fragment size but a marked effect on the total library yield. Increasing the DNA input from 100 ng to 150 ng did not increase library yield, indicating bead saturation at a DNA input of around 100 ng regardless of the degree of DNA degradation. c Libraries prepared from gDNA from a range of animal (human, Angus, and mouse), plant (Arabidopsis and alfalfa), and bacterial ( E. coli and B. cereus ) species

    Journal: BMC Genomics

    Article Title: Bead-linked transposomes enable a normalization-free workflow for NGS library preparation

    doi: 10.1186/s12864-018-5096-9

    Figure Lengend Snippet: Bioanalyzer traces of libraries prepared from various sample types and species. a Libraries prepared from samples with a varied degree of formalin fixation; a higher ΔCq indicates more FFPE-induced DNA degradation compared with a positive control. b Increasing FFPE-induced DNA degradation has a small effect on average fragment size but a marked effect on the total library yield. Increasing the DNA input from 100 ng to 150 ng did not increase library yield, indicating bead saturation at a DNA input of around 100 ng regardless of the degree of DNA degradation. c Libraries prepared from gDNA from a range of animal (human, Angus, and mouse), plant (Arabidopsis and alfalfa), and bacterial ( E. coli and B. cereus ) species

    Article Snippet: Where described, library quality was determined by running 1 μl of the pooled library or an individual library on a Bioanalyzer (Agilent 2100 Bioanalyzer) using a High Sensitivity DNA kit (Agilent, cat. no. 5067–4626) or on a Fragment Analyzer (Advanced Analytical Fragment Analyzer) with the High Sensitivity NGS Fragment Analysis Kit (Advanced Analytical, cat. no. DNF-474).

    Techniques: Formalin-fixed Paraffin-Embedded, Positive Control

    Application of Nextera DNA Flex to human amplicons. a Human leukocyte antigen (HLA) gene amplicons used as inputs for library preparation visualized on a 1% agarose gel. Lanes and expected amplicon sizes are as follows: 1, KBL Ladder; 2, HLA-A (4.1 kb); 3, HLA-B (2.8 kb); 4, HLA-C (4.2 kb); 5, HLA-DPA1 (10.3 kb); 6, HLA-DPB1 (9.7 kb); 7, HLA-DQA1 (7.3 kb); 8, HLA-DRB2 (4.6 kb); 9, HLA-DQB1 (7.1 kb). b Nextera DNA Flex library yields of all HLA amplicons were within the acceptable values of > 4 ng/μl and 9–13 ng/μl for 1 ng and 100–300 ng inputs, respectively. The yields for Nextera DNA Flex libraries were higher than for those prepared using TruSight HLA; for TruSight HLA, libraries were prepared from 1 ng of each amplicon and then pooled. c The Bioanalyzer profiles depict library fragment size distributions within the acceptable range; the distribution is narrower for the Nextera DNA Flex libraries (1 ng DNA inputs) than the TruSight HLA libraries. d Sequencing coverage depth and uniformity were higher for libraries prepared using Nextera DNA Flex (Flex) compared with TruSight HLA (TS HLA). e Libraries were sequenced on a NextSeq 550, with downsampling to 25,000 reads per amplicon. Library preparation using Nextera DNA Flex (orange) resulted in more uniform coverage of the entire human mitochondrial chromosome when compared with Nextera XT (grey). The location of the PCR primers used to create the two mtDNA amplicons are depicted by blue and red arrows. Dotted-line rectangle indicates the D-Loop region. f Zoomed in view shows more uniform coverage with Nextera DNA Flex within the D-Loop region

    Journal: BMC Genomics

    Article Title: Bead-linked transposomes enable a normalization-free workflow for NGS library preparation

    doi: 10.1186/s12864-018-5096-9

    Figure Lengend Snippet: Application of Nextera DNA Flex to human amplicons. a Human leukocyte antigen (HLA) gene amplicons used as inputs for library preparation visualized on a 1% agarose gel. Lanes and expected amplicon sizes are as follows: 1, KBL Ladder; 2, HLA-A (4.1 kb); 3, HLA-B (2.8 kb); 4, HLA-C (4.2 kb); 5, HLA-DPA1 (10.3 kb); 6, HLA-DPB1 (9.7 kb); 7, HLA-DQA1 (7.3 kb); 8, HLA-DRB2 (4.6 kb); 9, HLA-DQB1 (7.1 kb). b Nextera DNA Flex library yields of all HLA amplicons were within the acceptable values of > 4 ng/μl and 9–13 ng/μl for 1 ng and 100–300 ng inputs, respectively. The yields for Nextera DNA Flex libraries were higher than for those prepared using TruSight HLA; for TruSight HLA, libraries were prepared from 1 ng of each amplicon and then pooled. c The Bioanalyzer profiles depict library fragment size distributions within the acceptable range; the distribution is narrower for the Nextera DNA Flex libraries (1 ng DNA inputs) than the TruSight HLA libraries. d Sequencing coverage depth and uniformity were higher for libraries prepared using Nextera DNA Flex (Flex) compared with TruSight HLA (TS HLA). e Libraries were sequenced on a NextSeq 550, with downsampling to 25,000 reads per amplicon. Library preparation using Nextera DNA Flex (orange) resulted in more uniform coverage of the entire human mitochondrial chromosome when compared with Nextera XT (grey). The location of the PCR primers used to create the two mtDNA amplicons are depicted by blue and red arrows. Dotted-line rectangle indicates the D-Loop region. f Zoomed in view shows more uniform coverage with Nextera DNA Flex within the D-Loop region

    Article Snippet: Where described, library quality was determined by running 1 μl of the pooled library or an individual library on a Bioanalyzer (Agilent 2100 Bioanalyzer) using a High Sensitivity DNA kit (Agilent, cat. no. 5067–4626) or on a Fragment Analyzer (Advanced Analytical Fragment Analyzer) with the High Sensitivity NGS Fragment Analysis Kit (Advanced Analytical, cat. no. DNF-474).

    Techniques: Agarose Gel Electrophoresis, Amplification, Sequencing, Polymerase Chain Reaction