bioanalyser  (Agilent technologies)

 
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    2100 Bioanalyser
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    G2938C
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    Name:
    2100 Electrophoresis Bioanalyzer Instrument
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    G2939AA
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    Structured Review

    Agilent technologies bioanalyser
    Microsampling protocol design and reproducibility. a In terminal blood sampling, at each time point, groups of mice are exsanguinated to obtain 0.5–0.6 mL blood volumes, which are then subject to leukocyte depletion and saponin lysis before TRIzol treatment. Thus, the number of mice increases proportionally with the number of biological replicates and time points in the study design (number of mice per timepoint X number of timepoints; NT). Microsampling involves obtaining sample volumes as low as 20 μL from the same mouse at different time points, thus confining the number of mice to just biological replicates (N) and significantly lowering costs and biological variability. Leukocyte depletion and saponin lysis are also not performed on the low volume samples, thus saving time and manpower. b Heatmap shows pair-wise Pearson correlation coefficients and the inset shows multidimensional scaling to visualize the level of similarity between the P. vinckei microsamples. Microsamples show low degree of variability and are highly reproducible as proved by tight correlations between biological replicates. c High Pearson correlations were observed between normalized gene expression values (shown as logarithm of fragments per kilobase of transcript per million mapped reads) from microsampling (x-axis) and terminal blood sampling (y-axis) methods. d <t>Bioanalyser</t> electrophoregrams of total RNA from Plasmodium vinckei vinckei CY microsamples show that high quality RNA could be extracted consistently from 20 μL microsamples

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    Images

    1) Product Images from "A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites"

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites

    Journal: Malaria Journal

    doi: 10.1186/s12936-019-2659-4

    Microsampling protocol design and reproducibility. a In terminal blood sampling, at each time point, groups of mice are exsanguinated to obtain 0.5–0.6 mL blood volumes, which are then subject to leukocyte depletion and saponin lysis before TRIzol treatment. Thus, the number of mice increases proportionally with the number of biological replicates and time points in the study design (number of mice per timepoint X number of timepoints; NT). Microsampling involves obtaining sample volumes as low as 20 μL from the same mouse at different time points, thus confining the number of mice to just biological replicates (N) and significantly lowering costs and biological variability. Leukocyte depletion and saponin lysis are also not performed on the low volume samples, thus saving time and manpower. b Heatmap shows pair-wise Pearson correlation coefficients and the inset shows multidimensional scaling to visualize the level of similarity between the P. vinckei microsamples. Microsamples show low degree of variability and are highly reproducible as proved by tight correlations between biological replicates. c High Pearson correlations were observed between normalized gene expression values (shown as logarithm of fragments per kilobase of transcript per million mapped reads) from microsampling (x-axis) and terminal blood sampling (y-axis) methods. d Bioanalyser electrophoregrams of total RNA from Plasmodium vinckei vinckei CY microsamples show that high quality RNA could be extracted consistently from 20 μL microsamples
    Figure Legend Snippet: Microsampling protocol design and reproducibility. a In terminal blood sampling, at each time point, groups of mice are exsanguinated to obtain 0.5–0.6 mL blood volumes, which are then subject to leukocyte depletion and saponin lysis before TRIzol treatment. Thus, the number of mice increases proportionally with the number of biological replicates and time points in the study design (number of mice per timepoint X number of timepoints; NT). Microsampling involves obtaining sample volumes as low as 20 μL from the same mouse at different time points, thus confining the number of mice to just biological replicates (N) and significantly lowering costs and biological variability. Leukocyte depletion and saponin lysis are also not performed on the low volume samples, thus saving time and manpower. b Heatmap shows pair-wise Pearson correlation coefficients and the inset shows multidimensional scaling to visualize the level of similarity between the P. vinckei microsamples. Microsamples show low degree of variability and are highly reproducible as proved by tight correlations between biological replicates. c High Pearson correlations were observed between normalized gene expression values (shown as logarithm of fragments per kilobase of transcript per million mapped reads) from microsampling (x-axis) and terminal blood sampling (y-axis) methods. d Bioanalyser electrophoregrams of total RNA from Plasmodium vinckei vinckei CY microsamples show that high quality RNA could be extracted consistently from 20 μL microsamples

    Techniques Used: Sampling, Mouse Assay, Lysis, Expressing

    2) Product Images from "A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites"

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites

    Journal: Malaria Journal

    doi: 10.1186/s12936-019-2659-4

    Microsampling protocol design and reproducibility. a In terminal blood sampling, at each time point, groups of mice are exsanguinated to obtain 0.5–0.6 mL blood volumes, which are then subject to leukocyte depletion and saponin lysis before TRIzol treatment. Thus, the number of mice increases proportionally with the number of biological replicates and time points in the study design (number of mice per timepoint X number of timepoints; NT). Microsampling involves obtaining sample volumes as low as 20 μL from the same mouse at different time points, thus confining the number of mice to just biological replicates (N) and significantly lowering costs and biological variability. Leukocyte depletion and saponin lysis are also not performed on the low volume samples, thus saving time and manpower. b Heatmap shows pair-wise Pearson correlation coefficients and the inset shows multidimensional scaling to visualize the level of similarity between the P. vinckei microsamples. Microsamples show low degree of variability and are highly reproducible as proved by tight correlations between biological replicates. c High Pearson correlations were observed between normalized gene expression values (shown as logarithm of fragments per kilobase of transcript per million mapped reads) from microsampling (x-axis) and terminal blood sampling (y-axis) methods. d Bioanalyser electrophoregrams of total RNA from Plasmodium vinckei vinckei CY microsamples show that high quality RNA could be extracted consistently from 20 μL microsamples
    Figure Legend Snippet: Microsampling protocol design and reproducibility. a In terminal blood sampling, at each time point, groups of mice are exsanguinated to obtain 0.5–0.6 mL blood volumes, which are then subject to leukocyte depletion and saponin lysis before TRIzol treatment. Thus, the number of mice increases proportionally with the number of biological replicates and time points in the study design (number of mice per timepoint X number of timepoints; NT). Microsampling involves obtaining sample volumes as low as 20 μL from the same mouse at different time points, thus confining the number of mice to just biological replicates (N) and significantly lowering costs and biological variability. Leukocyte depletion and saponin lysis are also not performed on the low volume samples, thus saving time and manpower. b Heatmap shows pair-wise Pearson correlation coefficients and the inset shows multidimensional scaling to visualize the level of similarity between the P. vinckei microsamples. Microsamples show low degree of variability and are highly reproducible as proved by tight correlations between biological replicates. c High Pearson correlations were observed between normalized gene expression values (shown as logarithm of fragments per kilobase of transcript per million mapped reads) from microsampling (x-axis) and terminal blood sampling (y-axis) methods. d Bioanalyser electrophoregrams of total RNA from Plasmodium vinckei vinckei CY microsamples show that high quality RNA could be extracted consistently from 20 μL microsamples

    Techniques Used: Sampling, Mouse Assay, Lysis, Expressing

    3) Product Images from "S100A2 is strongly expressed in airway basal cells, preneoplastic bronchial lesions and primary non-small cell lung carcinomas"

    Article Title: S100A2 is strongly expressed in airway basal cells, preneoplastic bronchial lesions and primary non-small cell lung carcinomas

    Journal: British Journal of Cancer

    doi: 10.1038/sj.bjc.6602188

    RFLP-cmRT–PCR and –PCR analysis of S100A2 in NSCLC. A region of the S100A2 gene containing a cSNP was amplified from DNA and cDNA by PCR and RT–PCR, respectively. Reaction products were digested with Hinf I and run on a 3% agarose gel ( A ). Products were also run on an Agilent bioanalyser DNA 1000 chip. Peak heights of the noncutting allele (upper product on the agarose gel) were divided by those of the cutting allele (lower band on agarose gel) to give a relative value for the cutting allele compared to the noncutting allele ( B ). Patient 218 shows an imbalance in the cDNA (allelic expression imbalance) of the tumour sample compared to the normal tissue.
    Figure Legend Snippet: RFLP-cmRT–PCR and –PCR analysis of S100A2 in NSCLC. A region of the S100A2 gene containing a cSNP was amplified from DNA and cDNA by PCR and RT–PCR, respectively. Reaction products were digested with Hinf I and run on a 3% agarose gel ( A ). Products were also run on an Agilent bioanalyser DNA 1000 chip. Peak heights of the noncutting allele (upper product on the agarose gel) were divided by those of the cutting allele (lower band on agarose gel) to give a relative value for the cutting allele compared to the noncutting allele ( B ). Patient 218 shows an imbalance in the cDNA (allelic expression imbalance) of the tumour sample compared to the normal tissue.

    Techniques Used: Polymerase Chain Reaction, Amplification, Reverse Transcription Polymerase Chain Reaction, Agarose Gel Electrophoresis, Chromatin Immunoprecipitation, Expressing

    4) 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

    The steps involved in determining RNA quality in a species containing a ‘gap deletion’. These include Arthropoda, most protostome animals and a scattering of other groups (-see Table 1 ). The schematic displays the problem with taking routine approaches in taxa with gap deletions because standard protocols specify heat-denaturation of the rRNA prior to Bioanalyser analysis. The latter measures migration and intensity of LSUs and RNA Integrity Numbers (RINs). Heat-denaturation prevents visualisation of the 28S peak in Bioanalyser electropherograms in the affected taxa, so that RNA appears ‘degraded’ and a RIN cannot be generated. The solution is to run non-heat-denatured rRNA during Bioanalyser analysis. Denaturing formaldehyde gel electrophoresis of rRNA does not appear to bring about the gap deletion and RNA subunits appear normally on these gels.
    Figure Legend Snippet: The steps involved in determining RNA quality in a species containing a ‘gap deletion’. These include Arthropoda, most protostome animals and a scattering of other groups (-see Table 1 ). The schematic displays the problem with taking routine approaches in taxa with gap deletions because standard protocols specify heat-denaturation of the rRNA prior to Bioanalyser analysis. The latter measures migration and intensity of LSUs and RNA Integrity Numbers (RINs). Heat-denaturation prevents visualisation of the 28S peak in Bioanalyser electropherograms in the affected taxa, so that RNA appears ‘degraded’ and a RIN cannot be generated. The solution is to run non-heat-denatured rRNA during Bioanalyser analysis. Denaturing formaldehyde gel electrophoresis of rRNA does not appear to bring about the gap deletion and RNA subunits appear normally on these gels.

    Techniques Used: Migration, Generated, Nucleic Acid Electrophoresis

    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

    5) Product Images from "Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice"

    Article Title: Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice

    Journal:

    doi: 10.1111/j.1440-1681.2008.05011.x

    Representative electropherograms of bioanalyser data of a pulmonary formulation of mouse tissue plasminogen activator (pf-mtPA) and interactions between pf-mtPA and a stable mutant form of human plasminogen activator inhibitor-1 (CPAI) at pH 7.3. (a)
    Figure Legend Snippet: Representative electropherograms of bioanalyser data of a pulmonary formulation of mouse tissue plasminogen activator (pf-mtPA) and interactions between pf-mtPA and a stable mutant form of human plasminogen activator inhibitor-1 (CPAI) at pH 7.3. (a)

    Techniques Used: Mutagenesis

    6) Product Images from "Quality control on the frontier"

    Article Title: Quality control on the frontier

    Journal: Frontiers in Genetics

    doi: 10.3389/fgene.2014.00157

    Library fragment size distribution . Bioanalyser fluorescence values (black), realignment of paired end reads against reference genome or de novo assembly and adjusted by 126 bases to account for adapters (red) for libraries with average sizes of 360 bases (A) , 550 bases (B) , and 810 bases (C) .
    Figure Legend Snippet: Library fragment size distribution . Bioanalyser fluorescence values (black), realignment of paired end reads against reference genome or de novo assembly and adjusted by 126 bases to account for adapters (red) for libraries with average sizes of 360 bases (A) , 550 bases (B) , and 810 bases (C) .

    Techniques Used: Fluorescence

    Examples of Bioanalyser assay interpretation for a variety of RNAs. (A) Standard Eukaryotic RNA shows a 28S rRNA band at 4.5 kb that should be twice the intensity of the 18S rRNA band at 1.9 kb (human) resulting in a RIN = 8.0–10.0. Small peaks are sometimes present after the marker that represent 5S and 5.8S subunits, tRNAs and small RNA fragments about 100 bp; these are more obvious when using phenol or trizol exterection methods, QIagen columns will generally remove small RNAs. When degraded 28S RNA is reduced and more fragments are detected around the 18S RNA subunit resulting in RIN = 6.4, which is below the quality required for high throughput DNA sequencing. Invertebrate RNA results in fragmentation of the 28S rRNA into two bands that co-migrate with the 18S rRNA resulting in aberrant RIN score of
    Figure Legend Snippet: Examples of Bioanalyser assay interpretation for a variety of RNAs. (A) Standard Eukaryotic RNA shows a 28S rRNA band at 4.5 kb that should be twice the intensity of the 18S rRNA band at 1.9 kb (human) resulting in a RIN = 8.0–10.0. Small peaks are sometimes present after the marker that represent 5S and 5.8S subunits, tRNAs and small RNA fragments about 100 bp; these are more obvious when using phenol or trizol exterection methods, QIagen columns will generally remove small RNAs. When degraded 28S RNA is reduced and more fragments are detected around the 18S RNA subunit resulting in RIN = 6.4, which is below the quality required for high throughput DNA sequencing. Invertebrate RNA results in fragmentation of the 28S rRNA into two bands that co-migrate with the 18S rRNA resulting in aberrant RIN score of

    Techniques Used: Marker, High Throughput Screening Assay, DNA Sequencing

    7) 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

    Related Articles

    Clone Assay:

    Article Title: S100A2 is strongly expressed in airway basal cells, preneoplastic bronchial lesions and primary non-small cell lung carcinomas
    Article Snippet: When cmRT–PCR products were run on an Agilent Bioanalyser, 35 out of 46 (76%) patients showed a ⩾two-fold over-representation of S100A2 in their tumour sample compared to their matched normal lung sample ( ). .. When cmRT–PCR products were run on an Agilent Bioanalyser, 35 out of 46 (76%) patients showed a ⩾two-fold over-representation of S100A2 in their tumour sample compared to their matched normal lung sample ( ).

    Amplification:

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511). .. First strand cDNA was synthesized using randomly primed oligos followed by second strand synthesis where dUTPs were incorporated to achieve strand-specificity.

    Article Title: S100A2 is strongly expressed in airway basal cells, preneoplastic bronchial lesions and primary non-small cell lung carcinomas
    Article Snippet: When cmRT–PCR products were run on an Agilent Bioanalyser, 35 out of 46 (76%) patients showed a ⩾two-fold over-representation of S100A2 in their tumour sample compared to their matched normal lung sample ( ). .. By cloning and sequence analysis, we determined that an additional exon (exemplified by BM016868) was spliced into this transcript, between exons 2 and 3 (called exon 2A).

    Article Title: cGAS surveillance of micronuclei links genome instability to innate immunity
    Article Snippet: Cells from each batch were processed in LCM compatible 0.5 ml Eppendorf tubes until cDNA amplification and both batches then transferred to a single 96 well plates for library generation using Illumina Nextera reagents. .. Libraries were assessed for size distribution on an Agilent Bioanalyser (Agilent Technologies) with the DNA HS Kit, and then quantified using a Qubit 2.0 Fluorometer (Thermo Fisher Scientific) and the Qubit dsDNA HS assay Kit.

    Article Title: MIR sequences recruit zinc finger protein ZNF768 to expressed genes
    Article Snippet: Adapters contained uracil in one strand, allowing complete digestion of the second-strand derived DNA. .. After strand selection the libraries were amplified, assessed for correct insert size on the Agilent Bioanalyser and diluted to 10 nM. .. Barcoded libraries were mixed in equimolar amounts and sequenced on an Illumina HiSeq1500 in single-read mode with a read length of 100 bp.

    Article Title: Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS
    Article Snippet: The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality. .. The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality.

    Article Title: UTX-mediated enhancer and chromatin remodeling suppresses myeloid leukemogenesis through noncatalytic inverse regulation of ETS and GATA programs
    Article Snippet: The pulldown was then purified and eluted using streptavidin-coated Dynal beads ready to be amplified using PCR (MJ Tetrad). .. The PCR was then further purified using Agencourt AMPure XP (and Beckman Coulter Biomek NX96 for liquid handling), followed by quantification of the amplified pulldown product using the Agilent Bioanalyser. .. Samples were exome sequenced as paired-end 75bp inserts using Illumina HiSeq v4 flow-cell chemistry.

    Article Title: The PneuCarriage Project: A Multi-Centre Comparative Study to Identify the Best Serotyping Methods for Examining Pneumococcal Carriage in Vaccine Evaluation Studies
    Article Snippet: To identify co-colonisation, restriction fragment length polymorphism (RFLP) analysis of the ply NCR PCR amplicon was performed on the extracted DNA, as described previously [ ]. .. Latex agglutination or mPCR was performed on aliquots that had a single or multiple serotypes detected by RFLP, respectively. mPCR was conducted using 31.4 μl of extracted DNA, similarly to Pai et al. [ ] except that PCR products were analysed with the Agilent bioanalyser.

    Random Hexamer Labeling:

    Article Title: Cholangiocytes act as Facultative Liver Stem Cells during Impaired Hepatocyte Regeneration
    Article Snippet: Samples were treated with DNase (Ambion), and sample integrity verified on the Agilent Bioanalyser with the RNA Nano chip. .. Illumina Tru-seq paired end strand specific sequencing (Illumina, USA) was carried out on a NextSeq-550 sequencer (Edinburgh Clinical Research Facility, Western General Hospital, Edinburgh, Scotland, UK).

    Synthesized:

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511). .. Briefly, polyA + mRNA was purified from total RNA using oligo-dT dynabead selection.

    Quantitative RT-PCR:

    Article Title: Severe hypertriglyceridemia in Norway: prevalence, clinical and genetic characteristics
    Article Snippet: RNA quantity and -quality measurements were performed using the ND 1000 Spectrophotometer (Saveen Werner, Carlson Circle Tampa, FL) and Agilent Bioanalyser (Agilent Technologies, Santa Clara, CA), respectively. .. RNA quantity and -quality measurements were performed using the ND 1000 Spectrophotometer (Saveen Werner, Carlson Circle Tampa, FL) and Agilent Bioanalyser (Agilent Technologies, Santa Clara, CA), respectively.

    Article Title: Malignant extracellular vesicles carrying MMP1 mRNA facilitate peritoneal dissemination in ovarian cancer
    Article Snippet: The ascites was then used for EV isolation, following the method of EV isolation described above. .. To investigate the amount of MMP1 mRNA in EVs by qRT–PCR, values were normalized to GAPDH mRNA, after identifying a correlation between the amount of GAPDH by qRT–PCR and RNA concentration measured by a bioanalyser (Agilent) ( ). .. In general, protein concentration was used to quantify the amount of EVs, but we found that there was no correlation between the particle number and protein concentration among the EVs from patient ascites ( ).

    Electrophoresis:

    Article Title: ‘Degraded’ RNA profiles in Arthropoda and beyond
    Article Snippet: The Agilent bioanalyser is the gold standard for RNA quality analysis prior to deep sequencing and gene expression experiments. .. The Agilent bioanalyser is the gold standard for RNA quality analysis prior to deep sequencing and gene expression experiments.

    Article Title: Quality control on the frontier
    Article Snippet: The agarose gel image should provide information about the quality of the DNA sample indicating the ratio of degraded DNA to high molecular weight DNA. .. Assays that use fluorescent dyes in conjunction with microfluidic electrophoresis include Bioanalyser (Agilent), Labchip GX (Perkin Elmer), QIAxcel (QIAGEN), and Fragment Analyser (VH bio ltd); these instruments can be used to analyse dsDNA fragments, RNA or prepared NGS libraries where material is precious. .. UV absorbance ratios at 230:260 nm and 260:280 nm can provide additional information regarding purity of the sample, in particular, presence of phenol which absorbs with a peak at 270 nm, can contribute to the over-estimation of DNA concentration, whereas, humic acids that may be present in DNA isolated from soil absorb at 230 nm, as do phelolate ions and thiocyanates that may be used to isolate RNA.

    Microarray:

    Article Title: S100A2 is strongly expressed in airway basal cells, preneoplastic bronchial lesions and primary non-small cell lung carcinomas
    Article Snippet: Building on our earlier microarray validation study, we have further investigated the expression of S100A2 in an independent series of NSCLC patients. .. When cmRT–PCR products were run on an Agilent Bioanalyser, 35 out of 46 (76%) patients showed a ⩾two-fold over-representation of S100A2 in their tumour sample compared to their matched normal lung sample ( ).

    Article Title: FOXO1 couples metabolic activity and growth state in the vascular endothelium
    Article Snippet: Paragraph title: Microarray and gene set enrichment analysis ... Total RNA quality was verified using the Agilent Bioanalyser and the 6000 nano kit.

    Article Title: Brain transcriptional stability upon prion protein-encoding gene invalidation in zygotic or adult mouse
    Article Snippet: RNA extractions for the microarray were made using the RNeasy Lipid Tissue Midi kit (Qiagen cat no. 75842). .. RNA concentration was calculated by electro-spectrophotometry and the RNA integrity checked with the Agilent Bioanalyser (Waldbroom, Germany).

    Incubation:

    Article Title: Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice
    Article Snippet: These mutations confer stability to the otherwise labile serpin protein, essentially locking it into its active conformation. .. Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water. .. Samples were assayed and analysed by an Agilent 2100 bioanalyser according to the Protein 200 Plus assay protocol.

    Article Title: The PneuCarriage Project: A Multi-Centre Comparative Study to Identify the Best Serotyping Methods for Examining Pneumococcal Carriage in Vaccine Evaluation Studies
    Article Snippet: In this method, 50 μl of sample was streaked onto a Columbia sheep blood agar plate and incubated overnight. .. Latex agglutination or mPCR was performed on aliquots that had a single or multiple serotypes detected by RFLP, respectively. mPCR was conducted using 31.4 μl of extracted DNA, similarly to Pai et al. [ ] except that PCR products were analysed with the Agilent bioanalyser.

    Activity Assay:

    Article Title: Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice
    Article Snippet: The binding of tPA to PAI-1 is a very specific and high-affinity interaction that results in the complete suppression of the proteolytic activity of tPA, which is responsible for the conversion of plasminogen to plasmin., To test whether the formulation process disrupted the activity of pf-mtPA, pf-mtPA–PAI binding studies were performed using a stable mutant form of human PAI-1 (CPAI) containing four mutations (K154T, Q319L, M354I, and N150H; Molecular Innovations). .. Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water.

    Expressing:

    Article Title: Comparison of RNA Isolation Methods From Insect Larvae
    Article Snippet: However, there was variation among different RNA isolation methods for both the 280/260, 230/260 quality ratios, and the Agilent Bioanalyser results. .. However, there was variation among different RNA isolation methods for both the 280/260, 230/260 quality ratios, and the Agilent Bioanalyser results.

    Article Title: ‘Degraded’ RNA profiles in Arthropoda and beyond
    Article Snippet: More recent studies have also mentioned anomalies observed during routine RNA extraction and quality control steps using both automated ( ; ) and traditional ( ) electrophoresis methods. .. The Agilent bioanalyser is the gold standard for RNA quality analysis prior to deep sequencing and gene expression experiments. .. This method generates an electropherogram showing an RNA profile with peaks representing the various subunit components, as well as an RNA integrity number (RIN).

    Article Title: S100A2 is strongly expressed in airway basal cells, preneoplastic bronchial lesions and primary non-small cell lung carcinomas
    Article Snippet: Paragraph title: S100A2 expression in NSCLC ... When cmRT–PCR products were run on an Agilent Bioanalyser, 35 out of 46 (76%) patients showed a ⩾two-fold over-representation of S100A2 in their tumour sample compared to their matched normal lung sample ( ).

    Article Title: FOXO1 couples metabolic activity and growth state in the vascular endothelium
    Article Snippet: Total RNA quality was verified using the Agilent Bioanalyser and the 6000 nano kit. .. Total RNA quality was verified using the Agilent Bioanalyser and the 6000 nano kit.

    Article Title: Severe hypertriglyceridemia in Norway: prevalence, clinical and genetic characteristics
    Article Snippet: PBMC pellets for mRNA expression analyses were immediately frozen and stored at −80 °C. .. RNA quantity and -quality measurements were performed using the ND 1000 Spectrophotometer (Saveen Werner, Carlson Circle Tampa, FL) and Agilent Bioanalyser (Agilent Technologies, Santa Clara, CA), respectively.

    Agglutination:

    Article Title: The PneuCarriage Project: A Multi-Centre Comparative Study to Identify the Best Serotyping Methods for Examining Pneumococcal Carriage in Vaccine Evaluation Studies
    Article Snippet: To identify co-colonisation, restriction fragment length polymorphism (RFLP) analysis of the ply NCR PCR amplicon was performed on the extracted DNA, as described previously [ ]. .. Latex agglutination or mPCR was performed on aliquots that had a single or multiple serotypes detected by RFLP, respectively. mPCR was conducted using 31.4 μl of extracted DNA, similarly to Pai et al. [ ] except that PCR products were analysed with the Agilent bioanalyser. .. In this method, 50 μl of sample was diluted 1:4, lysed by bead beating, and treated with proteinase K at 56°C for 15 min, and DNA was extracted using the KingFisher DNA extraction instrument (Thermo Scientific), as previously described [ ].

    Derivative Assay:

    Article Title: MIR sequences recruit zinc finger protein ZNF768 to expressed genes
    Article Snippet: Adapters contained uracil in one strand, allowing complete digestion of the second-strand derived DNA. .. After strand selection the libraries were amplified, assessed for correct insert size on the Agilent Bioanalyser and diluted to 10 nM.

    Hybridization:

    Article Title: Cholangiocytes act as Facultative Liver Stem Cells during Impaired Hepatocyte Regeneration
    Article Snippet: Samples were treated with DNase (Ambion), and sample integrity verified on the Agilent Bioanalyser with the RNA Nano chip. .. 500ng of Total RNA underwent ribosomal RNA depletion (rRNA) prior to purification, fragmentation, random hexamer cDNA generation and purification with AMPure XP beads (Beckman-Coulter, USA).

    Article Title: UTX-mediated enhancer and chromatin remodeling suppresses myeloid leukemogenesis through noncatalytic inverse regulation of ETS and GATA programs
    Article Snippet: Exome pulldown (or hybridisation) was performed using Mouse-All Exon RNA-baits (designed by Agilent, supplier ID: S0276129) for 23 hours at 65°C. .. The PCR was then further purified using Agencourt AMPure XP (and Beckman Coulter Biomek NX96 for liquid handling), followed by quantification of the amplified pulldown product using the Agilent Bioanalyser.

    Flow Cytometry:

    Article Title: Cholangiocytes act as Facultative Liver Stem Cells during Impaired Hepatocyte Regeneration
    Article Snippet: Samples were treated with DNase (Ambion), and sample integrity verified on the Agilent Bioanalyser with the RNA Nano chip. .. Samples were treated with DNase (Ambion), and sample integrity verified on the Agilent Bioanalyser with the RNA Nano chip.

    Article Title: Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS
    Article Snippet: The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality. .. The products were then purified and enriched with PCR amplification to create the final cDNA libraries.

    Lab-on-a-Chip:

    Article Title: Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice
    Article Snippet: Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water. .. Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water.

    Infection:

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: On day four post infection, 20 μL blood was collected via tail snip at four time points; 06:00 h, 12:00 h, 18:00 h and 24:00 h. Blood samples were processed as before and TRIzol lysates were stored at 4 °C. .. The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511).

    Generated:

    Article Title: FOXO1 couples metabolic activity and growth state in the vascular endothelium
    Article Snippet: Total RNA quality was verified using the Agilent Bioanalyser and the 6000 nano kit. .. Data were analysed using the Affymetrix expression console using the RMA algorithm, statistical analysis was done using DNAStar Arraystar 11.

    Protein Concentration:

    Article Title: Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice
    Article Snippet: Protein concentration was assessed by ultraviolet (UV) spectroscopy (HP8453 spectrophotometer; Agilent Technologies, Palo Alto, CA, USA). .. Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water.

    Polymerase Chain Reaction:

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511). .. First strand cDNA was synthesized using randomly primed oligos followed by second strand synthesis where dUTPs were incorporated to achieve strand-specificity.

    Article Title: Cholangiocytes act as Facultative Liver Stem Cells during Impaired Hepatocyte Regeneration
    Article Snippet: Samples were treated with DNase (Ambion), and sample integrity verified on the Agilent Bioanalyser with the RNA Nano chip. .. 500ng of Total RNA underwent ribosomal RNA depletion (rRNA) prior to purification, fragmentation, random hexamer cDNA generation and purification with AMPure XP beads (Beckman-Coulter, USA).

    Article Title: Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS
    Article Snippet: The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality. .. The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality.

    Article Title: UTX-mediated enhancer and chromatin remodeling suppresses myeloid leukemogenesis through noncatalytic inverse regulation of ETS and GATA programs
    Article Snippet: The pulldown was then purified and eluted using streptavidin-coated Dynal beads ready to be amplified using PCR (MJ Tetrad). .. The PCR was then further purified using Agencourt AMPure XP (and Beckman Coulter Biomek NX96 for liquid handling), followed by quantification of the amplified pulldown product using the Agilent Bioanalyser. .. Samples were exome sequenced as paired-end 75bp inserts using Illumina HiSeq v4 flow-cell chemistry.

    Article Title: Differential mechanisms of asparaginase resistance in B-type acute lymphoblastic leukemia and malignant natural killer cell lines
    Article Snippet: Cells were seeded at 0.2 × 106 cells/ml and treated with or without 5 U/ml of pegylated r-crisantaspase for 6 h. Total RNA was extracted using Trizol solution and RNA quality was assessed by Bioanalyser (Agilent technique, Les Ulis, France). .. Cells were seeded at 0.2 × 106 cells/ml and treated with or without 5 U/ml of pegylated r-crisantaspase for 6 h. Total RNA was extracted using Trizol solution and RNA quality was assessed by Bioanalyser (Agilent technique, Les Ulis, France).

    Article Title: Brain transcriptional stability upon prion protein-encoding gene invalidation in zygotic or adult mouse
    Article Snippet: Homozygous Tg37 mice were crossed with heterozygous NFH-Cre (Cre 22) mice and the genotype of the resulting pups determined by PCR analysis of their tail-extracted genomic DNA as previously described [ ]. .. RNA concentration was calculated by electro-spectrophotometry and the RNA integrity checked with the Agilent Bioanalyser (Waldbroom, Germany).

    Article Title: The PneuCarriage Project: A Multi-Centre Comparative Study to Identify the Best Serotyping Methods for Examining Pneumococcal Carriage in Vaccine Evaluation Studies
    Article Snippet: To identify co-colonisation, restriction fragment length polymorphism (RFLP) analysis of the ply NCR PCR amplicon was performed on the extracted DNA, as described previously [ ]. .. Latex agglutination or mPCR was performed on aliquots that had a single or multiple serotypes detected by RFLP, respectively. mPCR was conducted using 31.4 μl of extracted DNA, similarly to Pai et al. [ ] except that PCR products were analysed with the Agilent bioanalyser. .. In this method, 50 μl of sample was diluted 1:4, lysed by bead beating, and treated with proteinase K at 56°C for 15 min, and DNA was extracted using the KingFisher DNA extraction instrument (Thermo Scientific), as previously described [ ].

    Binding Assay:

    Article Title: Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice
    Article Snippet: The binding of tPA to PAI-1 is a very specific and high-affinity interaction that results in the complete suppression of the proteolytic activity of tPA, which is responsible for the conversion of plasminogen to plasmin., To test whether the formulation process disrupted the activity of pf-mtPA, pf-mtPA–PAI binding studies were performed using a stable mutant form of human PAI-1 (CPAI) containing four mutations (K154T, Q319L, M354I, and N150H; Molecular Innovations). .. Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water.

    Article Title: Severe hypertriglyceridemia in Norway: prevalence, clinical and genetic characteristics
    Article Snippet: RNA quantity and -quality measurements were performed using the ND 1000 Spectrophotometer (Saveen Werner, Carlson Circle Tampa, FL) and Agilent Bioanalyser (Agilent Technologies, Santa Clara, CA), respectively. .. Quantitative real-time polymerase chain reaction (RT-qPCR) was performed using Custom TaqMan Array micro Fluidic cards (Applied Biosystems).

    Crocin Bleaching Assay:

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: Plasmodium vinckei infections were initiated in three CBA mice. .. The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511).

    Molecular Weight:

    Article Title: Quality control on the frontier
    Article Snippet: The agarose gel image should provide information about the quality of the DNA sample indicating the ratio of degraded DNA to high molecular weight DNA. .. Assays that use fluorescent dyes in conjunction with microfluidic electrophoresis include Bioanalyser (Agilent), Labchip GX (Perkin Elmer), QIAxcel (QIAGEN), and Fragment Analyser (VH bio ltd); these instruments can be used to analyse dsDNA fragments, RNA or prepared NGS libraries where material is precious.

    Multiplexing:

    Article Title: Cholangiocytes act as Facultative Liver Stem Cells during Impaired Hepatocyte Regeneration
    Article Snippet: Samples were treated with DNase (Ambion), and sample integrity verified on the Agilent Bioanalyser with the RNA Nano chip. .. Multiple indexing adapters were ligated to ds cDNA with subsequent hybridisation onto flow cells, and DNA fragment enrichment by 15 cycle PCR for sequencing.

    Article Title: UTX-mediated enhancer and chromatin remodeling suppresses myeloid leukemogenesis through noncatalytic inverse regulation of ETS and GATA programs
    Article Snippet: The PCR was then further purified using Agencourt AMPure XP (and Beckman Coulter Biomek NX96 for liquid handling), followed by quantification of the amplified pulldown product using the Agilent Bioanalyser. .. The PCR was then further purified using Agencourt AMPure XP (and Beckman Coulter Biomek NX96 for liquid handling), followed by quantification of the amplified pulldown product using the Agilent Bioanalyser.

    Nucleic Acid Electrophoresis:

    Article Title: Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice
    Article Snippet: Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water. .. Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water.

    RNA Sequencing Assay:

    Article Title: Cholangiocytes act as Facultative Liver Stem Cells during Impaired Hepatocyte Regeneration
    Article Snippet: Paragraph title: Whole Genome RNA sequencing ... Samples were treated with DNase (Ambion), and sample integrity verified on the Agilent Bioanalyser with the RNA Nano chip.

    Article Title: MIR sequences recruit zinc finger protein ZNF768 to expressed genes
    Article Snippet: Paragraph title: RNA-seq libraries ... After strand selection the libraries were amplified, assessed for correct insert size on the Agilent Bioanalyser and diluted to 10 nM.

    Fluorescence:

    Article Title: Quality control on the frontier
    Article Snippet: Qubit assays (Life Technologies) uses the Qubit fluorometer for quantification, whereas the Pico Green assay (Life Technologies) uses a microplate reader to determine fluorescence in a liquid assays. .. Assays that use fluorescent dyes in conjunction with microfluidic electrophoresis include Bioanalyser (Agilent), Labchip GX (Perkin Elmer), QIAxcel (QIAGEN), and Fragment Analyser (VH bio ltd); these instruments can be used to analyse dsDNA fragments, RNA or prepared NGS libraries where material is precious.

    Article Title: Differential mechanisms of asparaginase resistance in B-type acute lymphoblastic leukemia and malignant natural killer cell lines
    Article Snippet: Cells were seeded at 0.2 × 106 cells/ml and treated with or without 5 U/ml of pegylated r-crisantaspase for 6 h. Total RNA was extracted using Trizol solution and RNA quality was assessed by Bioanalyser (Agilent technique, Les Ulis, France). .. The product of reverse transcription diluted in TaqMan® Universal PCR Master Mix (Life Technologies) was then loaded into TaqMan® Human Apoptosis Array (Life Technologies) and quantitative PCR was performed with the Applied Biosystems 7900 Sequence Detection system (Life Technologies) according to the manufacturer's instructions.

    Mutagenesis:

    Article Title: Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice
    Article Snippet: The binding of tPA to PAI-1 is a very specific and high-affinity interaction that results in the complete suppression of the proteolytic activity of tPA, which is responsible for the conversion of plasminogen to plasmin., To test whether the formulation process disrupted the activity of pf-mtPA, pf-mtPA–PAI binding studies were performed using a stable mutant form of human PAI-1 (CPAI) containing four mutations (K154T, Q319L, M354I, and N150H; Molecular Innovations). .. Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water.

    Isolation:

    Article Title: Comparison of RNA Isolation Methods From Insect Larvae
    Article Snippet: There was no clear difference among the four insect species regarding the quality of RNA extracted. .. However, there was variation among different RNA isolation methods for both the 280/260, 230/260 quality ratios, and the Agilent Bioanalyser results. .. The SV Total RNA isolation system and RNeasy Mini Kit extracted the highest quality RNA.

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: RNA extraction, library preparation and sequencing of RNA isolated from TRIzol was performed according to the manufacturer’s protocol (Invitrogen). .. The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511).

    Article Title: Severe hypertriglyceridemia in Norway: prevalence, clinical and genetic characteristics
    Article Snippet: Total RNA was isolated from all PBMC samples using RNeasy mini kit (Qiagen, Hilden, Germany) with lysis buffer containing β-mercaptoethanol, and RNase-Free DNase (Qiagen) and stored at −80 °C. .. RNA quantity and -quality measurements were performed using the ND 1000 Spectrophotometer (Saveen Werner, Carlson Circle Tampa, FL) and Agilent Bioanalyser (Agilent Technologies, Santa Clara, CA), respectively.

    Article Title: Malignant extracellular vesicles carrying MMP1 mRNA facilitate peritoneal dissemination in ovarian cancer
    Article Snippet: The ascites was then used for EV isolation, following the method of EV isolation described above. .. To investigate the amount of MMP1 mRNA in EVs by qRT–PCR, values were normalized to GAPDH mRNA, after identifying a correlation between the amount of GAPDH by qRT–PCR and RNA concentration measured by a bioanalyser (Agilent) ( ).

    Sequencing:

    Article Title: ‘Degraded’ RNA profiles in Arthropoda and beyond
    Article Snippet: More recent studies have also mentioned anomalies observed during routine RNA extraction and quality control steps using both automated ( ; ) and traditional ( ) electrophoresis methods. .. The Agilent bioanalyser is the gold standard for RNA quality analysis prior to deep sequencing and gene expression experiments. .. This method generates an electropherogram showing an RNA profile with peaks representing the various subunit components, as well as an RNA integrity number (RIN).

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: RNA extraction, library preparation and sequencing of RNA isolated from TRIzol was performed according to the manufacturer’s protocol (Invitrogen). .. The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511).

    Article Title: Quality control on the frontier
    Article Snippet: Paragraph title: Assessing the quality of nucleic acids prior to library preparation and illumina sequencing ... Assays that use fluorescent dyes in conjunction with microfluidic electrophoresis include Bioanalyser (Agilent), Labchip GX (Perkin Elmer), QIAxcel (QIAGEN), and Fragment Analyser (VH bio ltd); these instruments can be used to analyse dsDNA fragments, RNA or prepared NGS libraries where material is precious.

    Article Title: S100A2 is strongly expressed in airway basal cells, preneoplastic bronchial lesions and primary non-small cell lung carcinomas
    Article Snippet: When cmRT–PCR products were run on an Agilent Bioanalyser, 35 out of 46 (76%) patients showed a ⩾two-fold over-representation of S100A2 in their tumour sample compared to their matched normal lung sample ( ). .. When cmRT–PCR products were run on an Agilent Bioanalyser, 35 out of 46 (76%) patients showed a ⩾two-fold over-representation of S100A2 in their tumour sample compared to their matched normal lung sample ( ).

    Article Title: Cholangiocytes act as Facultative Liver Stem Cells during Impaired Hepatocyte Regeneration
    Article Snippet: Samples were treated with DNase (Ambion), and sample integrity verified on the Agilent Bioanalyser with the RNA Nano chip. .. Samples were treated with DNase (Ambion), and sample integrity verified on the Agilent Bioanalyser with the RNA Nano chip.

    Article Title: Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS
    Article Snippet: Paragraph title: RNA extraction and sequencing ... The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality.

    Article Title: The parasitic worm product ES-62 normalises the gut microbiota bone marrow axis in inflammatory arthritis
    Article Snippet: Barcoded libraries were quantified using a Qubit Fluorometer (ThermoFisher Scientific, UK) and bioanalyser (High Sensitivity DNA analysis Kit, Agilent, UK). .. Up to three barcoded libraries were combined per Ion 316™ Chip Kit v2 following library preparation using the Ion PGM™ Hi-Q™ View OT2 and Ion PGM™ Hi-Q™ View Sequencing Kits (ThermoFisher Scientific, UK).

    Article Title: UTX-mediated enhancer and chromatin remodeling suppresses myeloid leukemogenesis through noncatalytic inverse regulation of ETS and GATA programs
    Article Snippet: Paragraph title: Exome sequencing ... The PCR was then further purified using Agencourt AMPure XP (and Beckman Coulter Biomek NX96 for liquid handling), followed by quantification of the amplified pulldown product using the Agilent Bioanalyser.

    Article Title: Differential mechanisms of asparaginase resistance in B-type acute lymphoblastic leukemia and malignant natural killer cell lines
    Article Snippet: Cells were seeded at 0.2 × 106 cells/ml and treated with or without 5 U/ml of pegylated r-crisantaspase for 6 h. Total RNA was extracted using Trizol solution and RNA quality was assessed by Bioanalyser (Agilent technique, Les Ulis, France). .. Cells were seeded at 0.2 × 106 cells/ml and treated with or without 5 U/ml of pegylated r-crisantaspase for 6 h. Total RNA was extracted using Trizol solution and RNA quality was assessed by Bioanalyser (Agilent technique, Les Ulis, France).

    Labeling:

    Article Title: IL-6 and Akt are involved in muscular pathogenesis in myasthenia gravis
    Article Snippet: Then the quality control to assess the sample integrity was checked on an Agilent Bioanalyser (Massy, France). .. For microarray analysis. only high quality RNAs with RIN (RNA integrity number ) higher than 7, in a scale ranging from from 1 (totally degraded RNA) to 10 (completely intact RNA) were used.

    Mouse Assay:

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511). .. The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511).

    Article Title: The parasitic worm product ES-62 normalises the gut microbiota bone marrow axis in inflammatory arthritis
    Article Snippet: For shotgun metagenomic analysis using the Ion Torrent PGM™ platform, samples from three individual mice per group were pooled and between 10 and 100 ng of the pooled DNA was fragmented (NEB Fast DNA Fragmentation & Library Prep Set for Ion Torrent, NEB Inc, UK) and barcoded (IonXpress Barcode Adapters Kit, ThermoFisher Scientific, UK). .. Barcoded libraries were quantified using a Qubit Fluorometer (ThermoFisher Scientific, UK) and bioanalyser (High Sensitivity DNA analysis Kit, Agilent, UK).

    Article Title: Brain transcriptional stability upon prion protein-encoding gene invalidation in zygotic or adult mouse
    Article Snippet: Homozygous Tg37 mice were crossed with heterozygous NFH-Cre (Cre 22) mice and the genotype of the resulting pups determined by PCR analysis of their tail-extracted genomic DNA as previously described [ ]. .. RNA concentration was calculated by electro-spectrophotometry and the RNA integrity checked with the Agilent Bioanalyser (Waldbroom, Germany).

    Reverse Transcription Polymerase Chain Reaction:

    Article Title: S100A2 is strongly expressed in airway basal cells, preneoplastic bronchial lesions and primary non-small cell lung carcinomas
    Article Snippet: When cmRT–PCR products were run on an Agilent Bioanalyser, 35 out of 46 (76%) patients showed a ⩾two-fold over-representation of S100A2 in their tumour sample compared to their matched normal lung sample ( ). .. By cloning and sequence analysis, we determined that an additional exon (exemplified by BM016868) was spliced into this transcript, between exons 2 and 3 (called exon 2A).

    Selection:

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511). .. Strand-specific mRNA sequencing was performed from total RNA using a TruSeq Stranded mRNA Sample Prep Kit LT (Illumina Cat#RS-122-2101) according to the manufacturer’s instructions.

    Article Title: MIR sequences recruit zinc finger protein ZNF768 to expressed genes
    Article Snippet: Adapters contained uracil in one strand, allowing complete digestion of the second-strand derived DNA. .. After strand selection the libraries were amplified, assessed for correct insert size on the Agilent Bioanalyser and diluted to 10 nM. .. Barcoded libraries were mixed in equimolar amounts and sequenced on an Illumina HiSeq1500 in single-read mode with a read length of 100 bp.

    Spectroscopy:

    Article Title: Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice
    Article Snippet: Protein concentration was assessed by ultraviolet (UV) spectroscopy (HP8453 spectrophotometer; Agilent Technologies, Palo Alto, CA, USA). .. Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water.

    Chloramphenicol Acetyltransferase Assay:

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: RNA extraction, library preparation and sequencing of RNA isolated from TRIzol was performed according to the manufacturer’s protocol (Invitrogen). .. The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat5067-1511). .. Strand-specific mRNA sequencing was performed from total RNA using a TruSeq Stranded mRNA Sample Prep Kit LT (Illumina Cat#RS-122-2101) according to the manufacturer’s instructions.

    Purification:

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511). .. Strand-specific mRNA sequencing was performed from total RNA using a TruSeq Stranded mRNA Sample Prep Kit LT (Illumina Cat#RS-122-2101) according to the manufacturer’s instructions.

    Article Title: Cholangiocytes act as Facultative Liver Stem Cells during Impaired Hepatocyte Regeneration
    Article Snippet: Samples were treated with DNase (Ambion), and sample integrity verified on the Agilent Bioanalyser with the RNA Nano chip. .. Illumina Tru-seq paired end strand specific sequencing (Illumina, USA) was carried out on a NextSeq-550 sequencer (Edinburgh Clinical Research Facility, Western General Hospital, Edinburgh, Scotland, UK).

    Article Title: IL-6 and Akt are involved in muscular pathogenesis in myasthenia gravis
    Article Snippet: Total RNA from muscles of MG patients or from muscle controls (Origene Technology) was extracted using the Trizol reagent (Gibco, Paisley, Scotland) and purified, as previously described in the literature [ ]. .. Then the quality control to assess the sample integrity was checked on an Agilent Bioanalyser (Massy, France).

    Article Title: Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS
    Article Snippet: The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality. .. The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality.

    Article Title: The parasitic worm product ES-62 normalises the gut microbiota bone marrow axis in inflammatory arthritis
    Article Snippet: Genomic DNA from the ileum and colon faecal matter was purified using QIAamp DNA Stool Mini Kit (Qiagen, Germany) and stored at −20 °C. .. Barcoded libraries were quantified using a Qubit Fluorometer (ThermoFisher Scientific, UK) and bioanalyser (High Sensitivity DNA analysis Kit, Agilent, UK).

    Article Title: UTX-mediated enhancer and chromatin remodeling suppresses myeloid leukemogenesis through noncatalytic inverse regulation of ETS and GATA programs
    Article Snippet: The pulldown was then purified and eluted using streptavidin-coated Dynal beads ready to be amplified using PCR (MJ Tetrad). .. The PCR was then further purified using Agencourt AMPure XP (and Beckman Coulter Biomek NX96 for liquid handling), followed by quantification of the amplified pulldown product using the Agilent Bioanalyser. .. Samples were exome sequenced as paired-end 75bp inserts using Illumina HiSeq v4 flow-cell chemistry.

    Chromatin Immunoprecipitation:

    Article Title: Cholangiocytes act as Facultative Liver Stem Cells during Impaired Hepatocyte Regeneration
    Article Snippet: The RT2 Profiler PCR Array was run on a Roche LightCycler 480 II with RT2 SYBR Green qPCR Mastermix (Qiagen; 330500), according to the manufactures instructions. .. Samples were treated with DNase (Ambion), and sample integrity verified on the Agilent Bioanalyser with the RNA Nano chip. .. Illumina Tru-seq paired end strand specific sequencing (Illumina, USA) was carried out on a NextSeq-550 sequencer (Edinburgh Clinical Research Facility, Western General Hospital, Edinburgh, Scotland, UK).

    Article Title: The parasitic worm product ES-62 normalises the gut microbiota bone marrow axis in inflammatory arthritis
    Article Snippet: Furthermore, pooling of samples also reduces variation in sample and library preparation, whilst barcoding of these pooled samples allowed analysis of the different treatment groups on a single chip and provided internal controls for comparison of treatment groups within each experiment. .. Barcoded libraries were quantified using a Qubit Fluorometer (ThermoFisher Scientific, UK) and bioanalyser (High Sensitivity DNA analysis Kit, Agilent, UK).

    SDS Page:

    Article Title: Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice
    Article Snippet: Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water. .. Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water.

    Software:

    Article Title: Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice
    Article Snippet: Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water. .. This approach uses lab-on-a-chip technology to quantify protein–protein interactions and has been shown to be comparable in sensitivity to sodium dodecyl sulphate–polyacrylamide gel electrophoresis (SDS-PAGE).

    Real-time Polymerase Chain Reaction:

    Article Title: Cholangiocytes act as Facultative Liver Stem Cells during Impaired Hepatocyte Regeneration
    Article Snippet: Samples were treated with DNase (Ambion), and sample integrity verified on the Agilent Bioanalyser with the RNA Nano chip. .. Multiple indexing adapters were ligated to ds cDNA with subsequent hybridisation onto flow cells, and DNA fragment enrichment by 15 cycle PCR for sequencing.

    Article Title: Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS
    Article Snippet: For qPCR validations, RNA was extracted using the RNeasy Plus Mini Kit (Qiagen). .. The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality.

    Article Title: The parasitic worm product ES-62 normalises the gut microbiota bone marrow axis in inflammatory arthritis
    Article Snippet: Barcoded libraries were quantified using a Qubit Fluorometer (ThermoFisher Scientific, UK) and bioanalyser (High Sensitivity DNA analysis Kit, Agilent, UK). .. Barcoded libraries were quantified using a Qubit Fluorometer (ThermoFisher Scientific, UK) and bioanalyser (High Sensitivity DNA analysis Kit, Agilent, UK).

    Article Title: Severe hypertriglyceridemia in Norway: prevalence, clinical and genetic characteristics
    Article Snippet: RNA quantity and -quality measurements were performed using the ND 1000 Spectrophotometer (Saveen Werner, Carlson Circle Tampa, FL) and Agilent Bioanalyser (Agilent Technologies, Santa Clara, CA), respectively. .. RNA quantity and -quality measurements were performed using the ND 1000 Spectrophotometer (Saveen Werner, Carlson Circle Tampa, FL) and Agilent Bioanalyser (Agilent Technologies, Santa Clara, CA), respectively.

    Article Title: Differential mechanisms of asparaginase resistance in B-type acute lymphoblastic leukemia and malignant natural killer cell lines
    Article Snippet: Cells were seeded at 0.2 × 106 cells/ml and treated with or without 5 U/ml of pegylated r-crisantaspase for 6 h. Total RNA was extracted using Trizol solution and RNA quality was assessed by Bioanalyser (Agilent technique, Les Ulis, France). .. Cells were seeded at 0.2 × 106 cells/ml and treated with or without 5 U/ml of pegylated r-crisantaspase for 6 h. Total RNA was extracted using Trizol solution and RNA quality was assessed by Bioanalyser (Agilent technique, Les Ulis, France).

    RNA Extraction:

    Article Title: ‘Degraded’ RNA profiles in Arthropoda and beyond
    Article Snippet: The Agilent bioanalyser is the gold standard for RNA quality analysis prior to deep sequencing and gene expression experiments. .. The Agilent bioanalyser is the gold standard for RNA quality analysis prior to deep sequencing and gene expression experiments.

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: RNA extraction, library preparation and sequencing of RNA isolated from TRIzol was performed according to the manufacturer’s protocol (Invitrogen). .. The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511).

    Article Title: Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS
    Article Snippet: Paragraph title: RNA extraction and sequencing ... The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality.

    Article Title: Brain transcriptional stability upon prion protein-encoding gene invalidation in zygotic or adult mouse
    Article Snippet: Paragraph title: Mouse brain material and DNA or RNA extraction ... RNA concentration was calculated by electro-spectrophotometry and the RNA integrity checked with the Agilent Bioanalyser (Waldbroom, Germany).

    RNA Expression:

    Article Title: Severe hypertriglyceridemia in Norway: prevalence, clinical and genetic characteristics
    Article Snippet: Paragraph title: RNA expression of lipid-related genes in peripheral blood mononuclear cells ... RNA quantity and -quality measurements were performed using the ND 1000 Spectrophotometer (Saveen Werner, Carlson Circle Tampa, FL) and Agilent Bioanalyser (Agilent Technologies, Santa Clara, CA), respectively.

    Agarose Gel Electrophoresis:

    Article Title: Quality control on the frontier
    Article Snippet: The agarose gel image should provide information about the quality of the DNA sample indicating the ratio of degraded DNA to high molecular weight DNA. .. Assays that use fluorescent dyes in conjunction with microfluidic electrophoresis include Bioanalyser (Agilent), Labchip GX (Perkin Elmer), QIAxcel (QIAGEN), and Fragment Analyser (VH bio ltd); these instruments can be used to analyse dsDNA fragments, RNA or prepared NGS libraries where material is precious.

    In Vitro:

    Article Title: Malignant extracellular vesicles carrying MMP1 mRNA facilitate peritoneal dissemination in ovarian cancer
    Article Snippet: To investigate the amount of MMP1 mRNA in EVs by qRT–PCR, values were normalized to GAPDH mRNA, after identifying a correlation between the amount of GAPDH by qRT–PCR and RNA concentration measured by a bioanalyser (Agilent) ( ). .. In general, protein concentration was used to quantify the amount of EVs, but we found that there was no correlation between the particle number and protein concentration among the EVs from patient ascites ( ).

    Next-Generation Sequencing:

    Article Title: Quality control on the frontier
    Article Snippet: The agarose gel image should provide information about the quality of the DNA sample indicating the ratio of degraded DNA to high molecular weight DNA. .. Assays that use fluorescent dyes in conjunction with microfluidic electrophoresis include Bioanalyser (Agilent), Labchip GX (Perkin Elmer), QIAxcel (QIAGEN), and Fragment Analyser (VH bio ltd); these instruments can be used to analyse dsDNA fragments, RNA or prepared NGS libraries where material is precious. .. UV absorbance ratios at 230:260 nm and 260:280 nm can provide additional information regarding purity of the sample, in particular, presence of phenol which absorbs with a peak at 270 nm, can contribute to the over-estimation of DNA concentration, whereas, humic acids that may be present in DNA isolated from soil absorb at 230 nm, as do phelolate ions and thiocyanates that may be used to isolate RNA.

    Article Title: Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS
    Article Snippet: The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality. .. The products were then purified and enriched with PCR amplification to create the final cDNA libraries.

    Laser Capture Microdissection:

    Article Title: cGAS surveillance of micronuclei links genome instability to innate immunity
    Article Snippet: Cells from each batch were processed in LCM compatible 0.5 ml Eppendorf tubes until cDNA amplification and both batches then transferred to a single 96 well plates for library generation using Illumina Nextera reagents. .. Libraries were assessed for size distribution on an Agilent Bioanalyser (Agilent Technologies) with the DNA HS Kit, and then quantified using a Qubit 2.0 Fluorometer (Thermo Fisher Scientific) and the Qubit dsDNA HS assay Kit.

    TLDA Assay:

    Article Title: Differential mechanisms of asparaginase resistance in B-type acute lymphoblastic leukemia and malignant natural killer cell lines
    Article Snippet: Paragraph title: TaqMan Low Density Array ... Cells were seeded at 0.2 × 106 cells/ml and treated with or without 5 U/ml of pegylated r-crisantaspase for 6 h. Total RNA was extracted using Trizol solution and RNA quality was assessed by Bioanalyser (Agilent technique, Les Ulis, France).

    Spectrophotometry:

    Article Title: Accelerated Dosing Frequency of a Pulmonary Formulation of Tissue Plasminogen Activator is Well-Tolerated in Mice
    Article Snippet: Protein concentration was assessed by ultraviolet (UV) spectroscopy (HP8453 spectrophotometer; Agilent Technologies, Palo Alto, CA, USA). .. Mouse tPA protein (5 µg) was incubated in the presence or absence of CPAI (15 µg) in Tris-buffered saline (TBS; ×1) at room temperature for 1 min to 1 h. Each reaction was stopped by the addition of bioanalyser sample buffer (Agilent Technologies, Santa Clara, CA, USA) and heating to 70°C for 10 min. Each denatured sample was then diluted to a final volume of 90 µL with water.

    Article Title: IL-6 and Akt are involved in muscular pathogenesis in myasthenia gravis
    Article Snippet: Then the quality control to assess the sample integrity was checked on an Agilent Bioanalyser (Massy, France). .. Then the quality control to assess the sample integrity was checked on an Agilent Bioanalyser (Massy, France).

    Article Title: Severe hypertriglyceridemia in Norway: prevalence, clinical and genetic characteristics
    Article Snippet: Total RNA was isolated from all PBMC samples using RNeasy mini kit (Qiagen, Hilden, Germany) with lysis buffer containing β-mercaptoethanol, and RNase-Free DNase (Qiagen) and stored at −80 °C. .. RNA quantity and -quality measurements were performed using the ND 1000 Spectrophotometer (Saveen Werner, Carlson Circle Tampa, FL) and Agilent Bioanalyser (Agilent Technologies, Santa Clara, CA), respectively. .. Four hundred ng RNA from all samples were reverse-transcribed using High Capacity RNA-to-cDNA Kit (Applied Biosystems, Foster City, CA).

    Sampling:

    Article Title: A fast and cost-effective microsampling protocol incorporating reduced animal usage for time-series transcriptomics in rodent malaria parasites
    Article Snippet: The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511). .. The RNA pellet was resuspended in 15 μL nuclease-free water, RNA quantity measured by Qubit fluorometer and RNA integrity measured by Agilent Bioanalyser (Agilent RNA 6000 Nano kit Cat#5067-1511).

    Concentration Assay:

    Article Title: Quality control on the frontier
    Article Snippet: Nucleic acids separated by fluorescent agarose gel electrophoresis provide the simplest method for assessing the quality where the concentration of DNA is sufficiently high. .. Assays that use fluorescent dyes in conjunction with microfluidic electrophoresis include Bioanalyser (Agilent), Labchip GX (Perkin Elmer), QIAxcel (QIAGEN), and Fragment Analyser (VH bio ltd); these instruments can be used to analyse dsDNA fragments, RNA or prepared NGS libraries where material is precious.

    Article Title: IL-6 and Akt are involved in muscular pathogenesis in myasthenia gravis
    Article Snippet: Then the quality control to assess the sample integrity was checked on an Agilent Bioanalyser (Massy, France). .. Then the quality control to assess the sample integrity was checked on an Agilent Bioanalyser (Massy, France).

    Article Title: Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS
    Article Snippet: For qPCR validations, RNA was extracted using the RNeasy Plus Mini Kit (Qiagen). .. The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality. .. RNA integrity (RIN) scores were > 8 for all samples used in this work.

    Article Title: UTX-mediated enhancer and chromatin remodeling suppresses myeloid leukemogenesis through noncatalytic inverse regulation of ETS and GATA programs
    Article Snippet: The quantified, size-selected libraries were then diluted down to an appropriate concentration for introduction into the exome capture stage. .. The PCR was then further purified using Agencourt AMPure XP (and Beckman Coulter Biomek NX96 for liquid handling), followed by quantification of the amplified pulldown product using the Agilent Bioanalyser.

    Article Title: Malignant extracellular vesicles carrying MMP1 mRNA facilitate peritoneal dissemination in ovarian cancer
    Article Snippet: The ascites was then used for EV isolation, following the method of EV isolation described above. .. To investigate the amount of MMP1 mRNA in EVs by qRT–PCR, values were normalized to GAPDH mRNA, after identifying a correlation between the amount of GAPDH by qRT–PCR and RNA concentration measured by a bioanalyser (Agilent) ( ). .. In general, protein concentration was used to quantify the amount of EVs, but we found that there was no correlation between the particle number and protein concentration among the EVs from patient ascites ( ).

    Article Title: Brain transcriptional stability upon prion protein-encoding gene invalidation in zygotic or adult mouse
    Article Snippet: RNA extractions for the microarray were made using the RNeasy Lipid Tissue Midi kit (Qiagen cat no. 75842). .. RNA concentration was calculated by electro-spectrophotometry and the RNA integrity checked with the Agilent Bioanalyser (Waldbroom, Germany). .. Pools were obtained by mixing equal amounts of total RNA from each individual sample.

    Migration:

    Article Title: ‘Degraded’ RNA profiles in Arthropoda and beyond
    Article Snippet: Anomalies in the gel migration of the 28S subunit rRNA in denatured samples have mostly appeared in the older literature ( ; ; ). .. The Agilent bioanalyser is the gold standard for RNA quality analysis prior to deep sequencing and gene expression experiments.

    High Throughput Screening Assay:

    Article Title: Intron retention and nuclear loss of SFPQ are molecular hallmarks of ALS
    Article Snippet: The nanodrop was used to assess RNA concentration and the 260/280 ratio, and the Agilent bioanalyser was used to assess quality. .. The products were then purified and enriched with PCR amplification to create the final cDNA libraries.

    Lysis:

    Article Title: Severe hypertriglyceridemia in Norway: prevalence, clinical and genetic characteristics
    Article Snippet: Total RNA was isolated from all PBMC samples using RNeasy mini kit (Qiagen, Hilden, Germany) with lysis buffer containing β-mercaptoethanol, and RNase-Free DNase (Qiagen) and stored at −80 °C. .. RNA quantity and -quality measurements were performed using the ND 1000 Spectrophotometer (Saveen Werner, Carlson Circle Tampa, FL) and Agilent Bioanalyser (Agilent Technologies, Santa Clara, CA), respectively.

    Gradient Centrifugation:

    Article Title: Severe hypertriglyceridemia in Norway: prevalence, clinical and genetic characteristics
    Article Snippet: We analyzed a range of lipid-related genes (Additional file : Table S2) in peripheral blood mononuclear cells (PBMC) obtained from heparinized blood by gradient centrifugation in Isopaque-Ficoll (Lymphoprep, Nycomed, Oslo, Norway). .. RNA quantity and -quality measurements were performed using the ND 1000 Spectrophotometer (Saveen Werner, Carlson Circle Tampa, FL) and Agilent Bioanalyser (Agilent Technologies, Santa Clara, CA), respectively.

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    Agilent technologies bioanalyzer
    Selected <t>bioanalyzer</t> electropherogram overlays from purified DNA (red) or 10% whole blood (blue). Results from five representative donors illustrate examples of a confirmed heterozyote (A) , heterozygote with a 10% blood under the default FU cutoff (B) , and suspected heterozygote with split peaks as an allelic differentiator and a larger artifact (C) , confirmed homozygote (D) , homozygote with two smaller artifacts (E) .
    Bioanalyzer, supplied by Agilent technologies, used in various techniques. Bioz Stars score: 99/100, based on 1579 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Selected bioanalyzer electropherogram overlays from purified DNA (red) or 10% whole blood (blue). Results from five representative donors illustrate examples of a confirmed heterozyote (A) , heterozygote with a 10% blood under the default FU cutoff (B) , and suspected heterozygote with split peaks as an allelic differentiator and a larger artifact (C) , confirmed homozygote (D) , homozygote with two smaller artifacts (E) .

    Journal: BMC Medical Genetics

    Article Title: PCR amplification of a triple-repeat genetic target directly from whole blood in 15 minutes as a proof-of-principle PCR study for direct sample analysis for a clinically relevant target

    doi: 10.1186/s12881-014-0130-5

    Figure Lengend Snippet: Selected bioanalyzer electropherogram overlays from purified DNA (red) or 10% whole blood (blue). Results from five representative donors illustrate examples of a confirmed heterozyote (A) , heterozygote with a 10% blood under the default FU cutoff (B) , and suspected heterozygote with split peaks as an allelic differentiator and a larger artifact (C) , confirmed homozygote (D) , homozygote with two smaller artifacts (E) .

    Article Snippet: Using the same 15-minute PCR assay with optimized whole blood concentration set at 10%, we increased our sample set to 40 donors to test the reliability of detection methods by using both agarose gels (Figure ) and an Agilent bioanalyzer (Figure ).

    Techniques: Purification

    Rapid PCR screening of DM1 with Agilent bioanalyzer detection. 10 ng purified donor DNA (P) or 10% direct whole blood (B) from 40 numerically-indicated donors with detection using the Agilent 2100 Bioanalyzer DNA 1000 kit. N (no template control); M (marker; the 200 to 100 base pair range is indicated).

    Journal: BMC Medical Genetics

    Article Title: PCR amplification of a triple-repeat genetic target directly from whole blood in 15 minutes as a proof-of-principle PCR study for direct sample analysis for a clinically relevant target

    doi: 10.1186/s12881-014-0130-5

    Figure Lengend Snippet: Rapid PCR screening of DM1 with Agilent bioanalyzer detection. 10 ng purified donor DNA (P) or 10% direct whole blood (B) from 40 numerically-indicated donors with detection using the Agilent 2100 Bioanalyzer DNA 1000 kit. N (no template control); M (marker; the 200 to 100 base pair range is indicated).

    Article Snippet: Using the same 15-minute PCR assay with optimized whole blood concentration set at 10%, we increased our sample set to 40 donors to test the reliability of detection methods by using both agarose gels (Figure ) and an Agilent bioanalyzer (Figure ).

    Techniques: Polymerase Chain Reaction, Purification, Marker

    DM1 screening using the Gene Link Genemer Kit with Agilent bioanalyzer detection. 100 ng purified donor DNA (P) from 40 numerically-indicated donors with detection using the Agilent 2100 Bioanalyzer DNA 1000 kit. N (no template control); M (marker; the 200 to 100 base pair range is indicated).

    Journal: BMC Medical Genetics

    Article Title: PCR amplification of a triple-repeat genetic target directly from whole blood in 15 minutes as a proof-of-principle PCR study for direct sample analysis for a clinically relevant target

    doi: 10.1186/s12881-014-0130-5

    Figure Lengend Snippet: DM1 screening using the Gene Link Genemer Kit with Agilent bioanalyzer detection. 100 ng purified donor DNA (P) from 40 numerically-indicated donors with detection using the Agilent 2100 Bioanalyzer DNA 1000 kit. N (no template control); M (marker; the 200 to 100 base pair range is indicated).

    Article Snippet: Using the same 15-minute PCR assay with optimized whole blood concentration set at 10%, we increased our sample set to 40 donors to test the reliability of detection methods by using both agarose gels (Figure ) and an Agilent bioanalyzer (Figure ).

    Techniques: Purification, Marker

    Selected bioanalyzer electropherogram overlays from purified DNA (red) using the Gene Link Myotonic Dystrophy Genemer Kit. Results from five representative donors illustrate examples of a confirmed heterozyote (A) , heterozygote with a 10% blood under the default FU cutoff (B) , and suspected heterozygote with split peaks as an allelic differentiator and a larger artifact (C) , confirmed homozygote (D) , homozygote with two smaller artifacts (E) .

    Journal: BMC Medical Genetics

    Article Title: PCR amplification of a triple-repeat genetic target directly from whole blood in 15 minutes as a proof-of-principle PCR study for direct sample analysis for a clinically relevant target

    doi: 10.1186/s12881-014-0130-5

    Figure Lengend Snippet: Selected bioanalyzer electropherogram overlays from purified DNA (red) using the Gene Link Myotonic Dystrophy Genemer Kit. Results from five representative donors illustrate examples of a confirmed heterozyote (A) , heterozygote with a 10% blood under the default FU cutoff (B) , and suspected heterozygote with split peaks as an allelic differentiator and a larger artifact (C) , confirmed homozygote (D) , homozygote with two smaller artifacts (E) .

    Article Snippet: Using the same 15-minute PCR assay with optimized whole blood concentration set at 10%, we increased our sample set to 40 donors to test the reliability of detection methods by using both agarose gels (Figure ) and an Agilent bioanalyzer (Figure ).

    Techniques: Purification

    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 effect of blood storage at 22°C in K3 EDTA and ProTeck tubes on plasma DNA was studied using Agilent Bioanalyzer ( ). shows overlaid electropherograms of plasma cfDNA extracted from blood stored in K3 EDTA tubes at days 0, 3, 7, 14 and 28.

    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 effect of blood storage at 22°C in K3 EDTA and ProTeck tubes on plasma DNA was studied using Agilent Bioanalyzer ( ). shows overlaid electropherograms of plasma cfDNA extracted from blood stored in K3 EDTA tubes at days 0, 3, 7, 14 and 28.

    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 effect of blood storage at 22°C in K3 EDTA and ProTeck tubes on plasma DNA was studied using Agilent Bioanalyzer ( ). shows overlaid electropherograms of plasma cfDNA extracted from blood stored in K3 EDTA tubes at days 0, 3, 7, 14 and 28.

    Techniques: