Structured Review

Agilent technologies bioanalyser
Library fragment size distribution . <t>Bioanalyser</t> 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) .
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Images

1) 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

2) Product Images from "Exosomes provide a protective and enriched source of miRNA for biomarker profiling compared to intracellular and cell-free blood"

Article Title: Exosomes provide a protective and enriched source of miRNA for biomarker profiling compared to intracellular and cell-free blood

Journal: Journal of Extracellular Vesicles

doi: 10.3402/jev.v3.23743

Small RNA profiles extracted from intracellular, cell-free and exosomal isolation from blood before and after RNaseA treatment. RNA was extracted from samples and run on a Small RNA Bioanalyser assay. Experiments shown here are representative of samples collected from 1 volunteer.
Figure Legend Snippet: Small RNA profiles extracted from intracellular, cell-free and exosomal isolation from blood before and after RNaseA treatment. RNA was extracted from samples and run on a Small RNA Bioanalyser assay. Experiments shown here are representative of samples collected from 1 volunteer.

Techniques Used: Isolation

3) Product Images from "Alterations in acute myeloid leukaemia bone marrow stromal cell exosome content coincide with gains in tyrosine kinase inhibitor resistance"

Article Title: Alterations in acute myeloid leukaemia bone marrow stromal cell exosome content coincide with gains in tyrosine kinase inhibitor resistance

Journal: British journal of haematology

doi: 10.1111/bjh.13551

AML-BMSCs have altered gene expression profiles and release exosomes that are enriched in select mi-RNA. (A) Light micrograph and immunophenotype of primary AML-BMSCs and N-BMSCs showing adherent, fibroblastic morphology and positivity for CD90 and negativity for CD45 epitopes. (B) mRNA expression of stromal transcripts C-X-C Chemokine Ligands CXCL12 , CXCL1 and KITLG ( SCF ). (C) Quantitative expression by polymerase chain reaction of select gene transcripts from AML-BMSCs ( n = 13) normalized to N-BMSCs ( n = 4, n = 3 for CXCL12 ). Expression is calculated relative to GAPDH , p-values reflect mean differences between N-BMSCs and AML-BMSCs for the genes shown. (D) Electron micrograph of 30–100 nm sized, cup-shaped vesicles (top left) showing the presence of the exosome markers CD9 and CD81 from both populations (bottom left). Vesicle size and concentration, by percentage of 100 vesicles measured from transmission electron microscope (middle top) and by nanovesicle tracking analysis (middle bottom) from AML-BMSC and N-BMSC. Bioanalyser electropherogram of RNA from stromal cells and their exosomes (right top and bottom), revealing enrichment of small RNA in stromal exosomes. (E) Graphs display the relative abundance of MIR155 and MIR375 in parent stromal cells versus the exosomes released during the same passage number, expressed relative to snRNA U6 . Each cell-exosome pair is derived from a separate patient. ‘Early passage’ cells were used from their second to fourth passage, and ‘late-passage’ cells were used in their 10–12th passage; * P
Figure Legend Snippet: AML-BMSCs have altered gene expression profiles and release exosomes that are enriched in select mi-RNA. (A) Light micrograph and immunophenotype of primary AML-BMSCs and N-BMSCs showing adherent, fibroblastic morphology and positivity for CD90 and negativity for CD45 epitopes. (B) mRNA expression of stromal transcripts C-X-C Chemokine Ligands CXCL12 , CXCL1 and KITLG ( SCF ). (C) Quantitative expression by polymerase chain reaction of select gene transcripts from AML-BMSCs ( n = 13) normalized to N-BMSCs ( n = 4, n = 3 for CXCL12 ). Expression is calculated relative to GAPDH , p-values reflect mean differences between N-BMSCs and AML-BMSCs for the genes shown. (D) Electron micrograph of 30–100 nm sized, cup-shaped vesicles (top left) showing the presence of the exosome markers CD9 and CD81 from both populations (bottom left). Vesicle size and concentration, by percentage of 100 vesicles measured from transmission electron microscope (middle top) and by nanovesicle tracking analysis (middle bottom) from AML-BMSC and N-BMSC. Bioanalyser electropherogram of RNA from stromal cells and their exosomes (right top and bottom), revealing enrichment of small RNA in stromal exosomes. (E) Graphs display the relative abundance of MIR155 and MIR375 in parent stromal cells versus the exosomes released during the same passage number, expressed relative to snRNA U6 . Each cell-exosome pair is derived from a separate patient. ‘Early passage’ cells were used from their second to fourth passage, and ‘late-passage’ cells were used in their 10–12th passage; * P

Techniques Used: Expressing, Polymerase Chain Reaction, Concentration Assay, Transmission Assay, Microscopy, Derivative Assay

4) 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

Related Articles

Centrifugation:

Article Title: Exosomes provide a protective and enriched source of miRNA for biomarker profiling compared to intracellular and cell-free blood
Article Snippet: After centrifugation, the aqueous phase was removed and the miRNeasy protocol was followed. .. The total RNA yield (comprising of mostly small RNA), composition and quality was analysed using the Agilent 2,100 Bioanalyser for small RNA profiles with the Small RNA kit (Agilent, Tokyo).

Amplification:

Article Title: Evaluation of the Performance of AmpliSeq and SureSelect Exome Sequencing Libraries for Ion Proton
Article Snippet: .. Finally, captured library fragments were amplified and quality assessed on 2100 Bioanalyser (Agilent Technologies, USA). .. We used Ion library TaqMan™ quantitation kit (Life Technologies, USA) on the 7900 real-time PCR system (Applied Biosystems, USA) for quantitation of both unamplified libraries.

Article Title: Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species, et al. Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species
Article Snippet: .. Fragments were amplified in three subsequent polymerase chain reactions and fragment length (in base pairs) was examined on a bioanalyser (Agilent 2100 bioanalyser, Santa Clara, CA, USA). .. The amplified library was purified using a Pippin Prep (SAGE Science, Beverly, MA, USA) to select the DNA sequencing library in the size range of 150–500 bp.

Article Title: The landscape of cancer genes and mutational processes in breast cancer
Article Snippet: .. Following amplification, the 96 PCR products were pooled, purified using a QiaQuick column (Qiagen) and quantified on a Bioanalyser (Agilent). .. Pooled reactions from different amplimers (up to 50) were normalized for concentration and subsequently also pooled to produce the final template used for sequencing on a single lane of an Illumina GAII DNA Analyser (~5,000 amplimers per lane).

Quantitative RT-PCR:

Article Title: Alterations in acute myeloid leukaemia bone marrow stromal cell exosome content coincide with gains in tyrosine kinase inhibitor resistance
Article Snippet: We determined the spectrum of BMSC exosome RNA using a Bioanalyser (Agilent, Santa Clara, CA, USA) and observed a relatively greater abundance of small RNAs compared with the parent cell ( ). .. Reasoning that stromal cell reprogramming in AML leads to unique exosomal miRNA incorporation, we used quantitative RT-PCR to compare the MIR155 and MIR375 levels in stromal cells from 12 patients (4 normal, 8 AML) and the exosomes released during the culture period.

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 ( ).

Electrophoresis:

Article Title: Quality control on the frontier
Article Snippet: .. 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: Dynamic changes of muscle insulin sensitivity after metabolic surgery
Article Snippet: .. All RNA samples with RNA integrity number RIN ≥7 (Bioanalyser, Agilent Technologies, Germany), were selected for microarray analysis. .. Transcriptome analysis was carried out by Oaklabs (Berlin, Germany) on their experimentally validated ArrayXS Human (design ID 079407, Agilent 60-mer SurePrint technology, Agilent Technologies).

Quantitation Assay:

Article Title: Evaluation of the Performance of AmpliSeq and SureSelect Exome Sequencing Libraries for Ion Proton
Article Snippet: Finally, captured library fragments were amplified and quality assessed on 2100 Bioanalyser (Agilent Technologies, USA). .. We used Ion library TaqMan™ quantitation kit (Life Technologies, USA) on the 7900 real-time PCR system (Applied Biosystems, USA) for quantitation of both unamplified libraries.

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: Dynamic changes of muscle insulin sensitivity after metabolic surgery
Article Snippet: Paragraph title: Gene expression analyses ... All RNA samples with RNA integrity number RIN ≥7 (Bioanalyser, Agilent Technologies, Germany), were selected for microarray analysis.

Article Title: Alterations in acute myeloid leukaemia bone marrow stromal cell exosome content coincide with gains in tyrosine kinase inhibitor resistance
Article Snippet: However, quantitative analysis revealed altered expression in AML-BMSC for CXCL12 , KITLG and CXCL1 , as well as for genes previously reported in modified stroma in myelodysplastic syndrome ( IGFBP4, ANGPTL4 ) ( ) ( ). .. We determined the spectrum of BMSC exosome RNA using a Bioanalyser (Agilent, Santa Clara, CA, USA) and observed a relatively greater abundance of small RNAs compared with the parent cell ( ).

Article Title: MEK1/2 inhibitor withdrawal reverses acquired resistance driven by BRAFV600E amplification whereas KRASG13D amplification promotes EMT-chemoresistance
Article Snippet: Integrity of the extracted RNA was assessed with the RNA 6000 Nano Assay on the BioAnalyser (Agilent Technologies, Stockport, UK). rRNA (ribosomal ribonucleic acid) was depleted and strand-specific RNA-seq libraries were prepared using the Epicentre strand-specific ScriptSeq RNA-Seq Library Preparation Kit (Illumina, Eindhoven, The Netherlands). .. For gene expression analysis, the count of reads aligning to the gene and ratio per million reads was calculated, and normalized to gene length by reads per kilobase million (RPKM).

Modification:

Article Title: Alterations in acute myeloid leukaemia bone marrow stromal cell exosome content coincide with gains in tyrosine kinase inhibitor resistance
Article Snippet: However, quantitative analysis revealed altered expression in AML-BMSC for CXCL12 , KITLG and CXCL1 , as well as for genes previously reported in modified stroma in myelodysplastic syndrome ( IGFBP4, ANGPTL4 ) ( ) ( ). .. We determined the spectrum of BMSC exosome RNA using a Bioanalyser (Agilent, Santa Clara, CA, USA) and observed a relatively greater abundance of small RNAs compared with the parent cell ( ).

Western Blot:

Article Title: Alterations in acute myeloid leukaemia bone marrow stromal cell exosome content coincide with gains in tyrosine kinase inhibitor resistance
Article Snippet: We isolated vesicles using ultracentrifugation and then used vesicle tracking analysis, electron microscopy and Western blotting to demonstrate a vesicle population conforming in size, morphology and tetraspanin membrane proteins to exosomes ( ) ( ). .. We determined the spectrum of BMSC exosome RNA using a Bioanalyser (Agilent, Santa Clara, CA, USA) and observed a relatively greater abundance of small RNAs compared with the parent cell ( ).

Electron Microscopy:

Article Title: Alterations in acute myeloid leukaemia bone marrow stromal cell exosome content coincide with gains in tyrosine kinase inhibitor resistance
Article Snippet: We isolated vesicles using ultracentrifugation and then used vesicle tracking analysis, electron microscopy and Western blotting to demonstrate a vesicle population conforming in size, morphology and tetraspanin membrane proteins to exosomes ( ) ( ). .. We determined the spectrum of BMSC exosome RNA using a Bioanalyser (Agilent, Santa Clara, CA, USA) and observed a relatively greater abundance of small RNAs compared with the parent cell ( ).

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. .. 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).

Ligation:

Article Title: Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species, et al. Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species
Article Snippet: This combination of DNA, enzyme, adapters, and ligation solution was incubated at 22°C for 1 hr, and the temperature was then increased to 65°C for 30 min to inactivate T4 ligase (Elshire et al., ). .. Fragments were amplified in three subsequent polymerase chain reactions and fragment length (in base pairs) was examined on a bioanalyser (Agilent 2100 bioanalyser, Santa Clara, CA, USA).

Incubation:

Article Title: Exosomes provide a protective and enriched source of miRNA for biomarker profiling compared to intracellular and cell-free blood
Article Snippet: RNaseA treatment (100 ng/ml, Qiagen, Australia) where indicated involved incubation of samples at 37°C for 10 minutes. .. The total RNA yield (comprising of mostly small RNA), composition and quality was analysed using the Agilent 2,100 Bioanalyser for small RNA profiles with the Small RNA kit (Agilent, Tokyo).

Article Title: Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species, et al. Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species
Article Snippet: This combination of DNA, enzyme, adapters, and ligation solution was incubated at 22°C for 1 hr, and the temperature was then increased to 65°C for 30 min to inactivate T4 ligase (Elshire et al., ). .. Fragments were amplified in three subsequent polymerase chain reactions and fragment length (in base pairs) was examined on a bioanalyser (Agilent 2100 bioanalyser, Santa Clara, CA, USA).

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. .. Samples were assayed and analysed by an Agilent 2100 bioanalyser according to the Protein 200 Plus assay protocol.

Article Title: Microinvasion by Streptococcus pneumoniae induces epithelial innate immunity during colonisation at the human mucosal surface
Article Snippet: RNA samples and sequencing (RNASeq) Mucosal curettage samples and epithelial cell cultures (incubated with or without S. pneumoniae for 3 h) were collected in RNALater (ThermoFisher) and stored at −80 °C. .. Extracted RNA quality was assessed and quantified using a BioAnalyser (Agilent 2100).

DNA Sequencing:

Article Title: Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species, et al. Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species
Article Snippet: Fragments were amplified in three subsequent polymerase chain reactions and fragment length (in base pairs) was examined on a bioanalyser (Agilent 2100 bioanalyser, Santa Clara, CA, USA). .. The amplified library was purified using a Pippin Prep (SAGE Science, Beverly, MA, USA) to select the DNA sequencing library in the size range of 150–500 bp.

Protein Concentration:

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 ( ).

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.

Reverse Transcription Polymerase Chain Reaction:

Article Title: Alterations in acute myeloid leukaemia bone marrow stromal cell exosome content coincide with gains in tyrosine kinase inhibitor resistance
Article Snippet: Reverse transcription polymerase chain reaction (RT-PCR) confirmed the expression of canonical stromal transcripts in both populations ( ) ( ). .. We determined the spectrum of BMSC exosome RNA using a Bioanalyser (Agilent, Santa Clara, CA, USA) and observed a relatively greater abundance of small RNAs compared with the parent cell ( ).

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.

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.

DNA Extraction:

Article Title: Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species, et al. Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species
Article Snippet: Paragraph title: DNA extraction, library preparation, and sequencing ... Fragments were amplified in three subsequent polymerase chain reactions and fragment length (in base pairs) was examined on a bioanalyser (Agilent 2100 bioanalyser, Santa Clara, CA, USA).

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. .. 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).

RNA Sequencing Assay:

Article Title: MEK1/2 inhibitor withdrawal reverses acquired resistance driven by BRAFV600E amplification whereas KRASG13D amplification promotes EMT-chemoresistance
Article Snippet: .. Integrity of the extracted RNA was assessed with the RNA 6000 Nano Assay on the BioAnalyser (Agilent Technologies, Stockport, UK). rRNA (ribosomal ribonucleic acid) was depleted and strand-specific RNA-seq libraries were prepared using the Epicentre strand-specific ScriptSeq RNA-Seq Library Preparation Kit (Illumina, Eindhoven, The Netherlands). .. Sequencing was performed on the Illumina HiSeq (Illumina, Eindhoven, The Netherlands), three samples per lane, 100 bp paired end reads averaging 100 million reads (50 million pairs) per sample.

Article Title: Microinvasion by Streptococcus pneumoniae induces epithelial innate immunity during colonisation at the human mucosal surface
Article Snippet: Extracted RNA quality was assessed and quantified using a BioAnalyser (Agilent 2100). .. For mucosal curettage samples, library preparation and RNA sequencing (Illumina Hiseq 4000, 15 lanes in total with seven samples per lane, 100 bp and 75 bp paired-end reads) were performed at the Beijing Genome Institute (China) or the Wellcome Sanger Institute (UK), respectively.

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: 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). .. Relative quantification (RQ) was obtained using the equation RQ = 2−ΔΔCt after normalization of the Ct data to that of the reference gene, where Ct is the threshold cycle of fluorescence detection.

Magnetic Beads:

Article Title: Evaluation of the Performance of AmpliSeq and SureSelect Exome Sequencing Libraries for Ion Proton
Article Snippet: Next, the amplified DNA fragments were hybridized to biotinylated RNA library baits and captured using streptavidin-coated magnetic beads. .. Finally, captured library fragments were amplified and quality assessed on 2100 Bioanalyser (Agilent Technologies, USA).

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: Exosomes provide a protective and enriched source of miRNA for biomarker profiling compared to intracellular and cell-free blood
Article Snippet: Paragraph title: Total RNA isolation ... The total RNA yield (comprising of mostly small RNA), composition and quality was analysed using the Agilent 2,100 Bioanalyser for small RNA profiles with the Small RNA kit (Agilent, Tokyo).

Article Title: Quality control on the frontier
Article Snippet: 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: Alterations in acute myeloid leukaemia bone marrow stromal cell exosome content coincide with gains in tyrosine kinase inhibitor resistance
Article Snippet: We isolated vesicles using ultracentrifugation and then used vesicle tracking analysis, electron microscopy and Western blotting to demonstrate a vesicle population conforming in size, morphology and tetraspanin membrane proteins to exosomes ( ) ( ). .. We determined the spectrum of BMSC exosome RNA using a Bioanalyser (Agilent, Santa Clara, CA, USA) and observed a relatively greater abundance of small RNAs compared with the parent cell ( ).

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) ( ).

Article Title: Resistance training regulates gene expression of molecules associated with intramyocellular lipids, glucose signaling and fiber size in old rats
Article Snippet: Paragraph title: RNA Isolation - PCR ... The integrity and quality of the total RNA obtained was tested in a Bioanalyser (Agilent Technologies Inc. USA).

Sequencing:

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: MEK1/2 inhibitor withdrawal reverses acquired resistance driven by BRAFV600E amplification whereas KRASG13D amplification promotes EMT-chemoresistance
Article Snippet: Integrity of the extracted RNA was assessed with the RNA 6000 Nano Assay on the BioAnalyser (Agilent Technologies, Stockport, UK). rRNA (ribosomal ribonucleic acid) was depleted and strand-specific RNA-seq libraries were prepared using the Epicentre strand-specific ScriptSeq RNA-Seq Library Preparation Kit (Illumina, Eindhoven, The Netherlands). .. Sequencing was performed on the Illumina HiSeq (Illumina, Eindhoven, The Netherlands), three samples per lane, 100 bp paired end reads averaging 100 million reads (50 million pairs) per sample.

Article Title: Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species, et al. Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species
Article Snippet: Paragraph title: DNA extraction, library preparation, and sequencing ... Fragments were amplified in three subsequent polymerase chain reactions and fragment length (in base pairs) was examined on a bioanalyser (Agilent 2100 bioanalyser, Santa Clara, CA, USA).

Article Title: Differential mechanisms of asparaginase resistance in B-type acute lymphoblastic leukemia and malignant natural killer cell lines
Article Snippet: 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). .. 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.

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: The landscape of cancer genes and mutational processes in breast cancer
Article Snippet: Paragraph title: Sequencing of pooled PCR amplimers ... Following amplification, the 96 PCR products were pooled, purified using a QiaQuick column (Qiagen) and quantified on a Bioanalyser (Agilent).

Article Title: Microinvasion by Streptococcus pneumoniae induces epithelial innate immunity during colonisation at the human mucosal surface
Article Snippet: Paragraph title: RNA samples and sequencing (RNASeq) ... Extracted RNA quality was assessed and quantified using a BioAnalyser (Agilent 2100).

Article Title: A molecular signature for delayed graft function, et al. A molecular signature for delayed graft function
Article Snippet: Prepared libraries were assessed by Qubit® (Life Technologies, Inc. USA) and Bioanalyser (High Sensitivity DNA kit [#5067–4626, Agilent Technologies, Inc., USA]). .. The raw sequence reads in FASTQ format were further analysed using the following pipeline: Initial QC for RNAseq output was analysed using FastQC v.0.11.2 ( https://www.bioinformatics.bbsrc.ac.uk/projects/fastqc ), adapters were removed using trim_galore v.0.3.7 ( https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/ ).

Multiplex Assay:

Article Title: The landscape of cancer genes and mutational processes in breast cancer
Article Snippet: The primary and secondary PCR amplifications were performed as a simultaneous multiplex reaction. .. Following amplification, the 96 PCR products were pooled, purified using a QiaQuick column (Qiagen) and quantified on a Bioanalyser (Agilent).

Purification:

Article Title: Evaluation of the Performance of AmpliSeq and SureSelect Exome Sequencing Libraries for Ion Proton
Article Snippet: After fragmenting 1µg of genomic DNA (100 ng/µl) using Ion Shear Plus Reagents for enzymatic fragmentation, we purified and size-selected the library using AMPure XP beads (Beckman Coulter Life Sciences, USA). .. Finally, captured library fragments were amplified and quality assessed on 2100 Bioanalyser (Agilent Technologies, USA).

Article Title: Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species, et al. Reduced representation sequencing detects only subtle regional structure in a heavily exploited and rapidly recolonizing marine mammal species
Article Snippet: Fragments were amplified in three subsequent polymerase chain reactions and fragment length (in base pairs) was examined on a bioanalyser (Agilent 2100 bioanalyser, Santa Clara, CA, USA). .. The amplified library was purified using a Pippin Prep (SAGE Science, Beverly, MA, USA) to select the DNA sequencing library in the size range of 150–500 bp.

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: The landscape of cancer genes and mutational processes in breast cancer
Article Snippet: .. Following amplification, the 96 PCR products were pooled, purified using a QiaQuick column (Qiagen) and quantified on a Bioanalyser (Agilent). .. Pooled reactions from different amplimers (up to 50) were normalized for concentration and subsequently also pooled to produce the final template used for sequencing on a single lane of an Illumina GAII DNA Analyser (~5,000 amplimers per lane).

Polymerase Chain Reaction:

Article Title: Differential mechanisms of asparaginase resistance in B-type acute lymphoblastic leukemia and malignant natural killer cell lines
Article Snippet: 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). .. 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.

Article Title: Resistance training regulates gene expression of molecules associated with intramyocellular lipids, glucose signaling and fiber size in old rats
Article Snippet: Paragraph title: RNA Isolation - PCR ... The integrity and quality of the total RNA obtained was tested in a Bioanalyser (Agilent Technologies Inc. USA).

Article Title: The landscape of cancer genes and mutational processes in breast cancer
Article Snippet: .. Following amplification, the 96 PCR products were pooled, purified using a QiaQuick column (Qiagen) and quantified on a Bioanalyser (Agilent). .. Pooled reactions from different amplimers (up to 50) were normalized for concentration and subsequently also pooled to produce the final template used for sequencing on a single lane of an Illumina GAII DNA Analyser (~5,000 amplimers per lane).

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.

Mouse Assay:

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).

Chromatin Immunoprecipitation:

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. .. 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).

Software:

Article Title: MEK1/2 inhibitor withdrawal reverses acquired resistance driven by BRAFV600E amplification whereas KRASG13D amplification promotes EMT-chemoresistance
Article Snippet: Integrity of the extracted RNA was assessed with the RNA 6000 Nano Assay on the BioAnalyser (Agilent Technologies, Stockport, UK). rRNA (ribosomal ribonucleic acid) was depleted and strand-specific RNA-seq libraries were prepared using the Epicentre strand-specific ScriptSeq RNA-Seq Library Preparation Kit (Illumina, Eindhoven, The Netherlands). .. Parental to resistant differential expression for individual cell lines was measured using DESeq bioconductor software, and cross-sample consistent differential expression significance was confirmed using paired analysis with edgeR bioconductor 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. .. Data were analysed using the bioanalyser software.

Real-time Polymerase Chain Reaction:

Article Title: Evaluation of the Performance of AmpliSeq and SureSelect Exome Sequencing Libraries for Ion Proton
Article Snippet: Finally, captured library fragments were amplified and quality assessed on 2100 Bioanalyser (Agilent Technologies, USA). .. We used Ion library TaqMan™ quantitation kit (Life Technologies, USA) on the 7900 real-time PCR system (Applied Biosystems, USA) for quantitation of both unamplified libraries.

Article Title: Differential mechanisms of asparaginase resistance in B-type acute lymphoblastic leukemia and malignant natural killer cell lines
Article Snippet: 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). .. 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.

RNA Extraction:

Article Title: Microinvasion by Streptococcus pneumoniae induces epithelial innate immunity during colonisation at the human mucosal surface
Article Snippet: RNA extraction was performed using the RNEasy micro kit (Qiagen) and genomic DNA was removed with on column DNA digestion or with the Turbo DNA-free Kit (Qiagen). .. Extracted RNA quality was assessed and quantified using a BioAnalyser (Agilent 2100).

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) ( ). .. Thus, in in vitro experiments using the EVs from ascites , the same particle number of EVs (9 × 109 particles per well) was used for the treatment of HMPCs.

Next-Generation Sequencing:

Article Title: Quality control on the frontier
Article Snippet: .. 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.

TLDA Assay:

Article Title: Differential mechanisms of asparaginase resistance in B-type acute lymphoblastic leukemia and malignant natural killer cell lines
Article Snippet: .. 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). .. The reverse transcription was performed using High Capacity RNA-to-cDNA Master Mix (Life Technologies, Carlsbad, CA, USA) with 1 μg of total RNA in a volume of 20 μl.

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.

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: 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 ( ).

Article Title: The landscape of cancer genes and mutational processes in breast cancer
Article Snippet: Following amplification, the 96 PCR products were pooled, purified using a QiaQuick column (Qiagen) and quantified on a Bioanalyser (Agilent). .. Pooled reactions from different amplimers (up to 50) were normalized for concentration and subsequently also pooled to produce the final template used for sequencing on a single lane of an Illumina GAII DNA Analyser (~5,000 amplimers per lane).

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    Agilent technologies 2100 bioanalyser system
    Depicts the integrity of RNA isolated at 30 °C from different Coffea arabica tissues (mature and immature leaf, fruit, root) and from leaves belonging to 3 different coffee species, Coffea arabica, C. canephora and C. eugenoides . The isolated RNA were analysed by electrophoretic separation using 2% agarose gel ( A ) and the Agilent <t>2100</t> <t>bioanalyser</t> system with the RNA 6000 Nano ™ kits ( B ). The total RNA fraction contained ribosomal RNA, mRNA and small RNA had a RIN value ranging between 7.5 and 8.5.
    2100 Bioanalyser System, supplied by Agilent technologies, used in various techniques. Bioz Stars score: 99/100, based on 7 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    Depicts the integrity of RNA isolated at 30 °C from different Coffea arabica tissues (mature and immature leaf, fruit, root) and from leaves belonging to 3 different coffee species, Coffea arabica, C. canephora and C. eugenoides . The isolated RNA were analysed by electrophoretic separation using 2% agarose gel ( A ) and the Agilent 2100 bioanalyser system with the RNA 6000 Nano ™ kits ( B ). The total RNA fraction contained ribosomal RNA, mRNA and small RNA had a RIN value ranging between 7.5 and 8.5.

    Journal: Scientific Reports

    Article Title: A single-step method for RNA isolation from tropical crops in the field

    doi: 10.1038/srep38368

    Figure Lengend Snippet: Depicts the integrity of RNA isolated at 30 °C from different Coffea arabica tissues (mature and immature leaf, fruit, root) and from leaves belonging to 3 different coffee species, Coffea arabica, C. canephora and C. eugenoides . The isolated RNA were analysed by electrophoretic separation using 2% agarose gel ( A ) and the Agilent 2100 bioanalyser system with the RNA 6000 Nano ™ kits ( B ). The total RNA fraction contained ribosomal RNA, mRNA and small RNA had a RIN value ranging between 7.5 and 8.5.

    Article Snippet: A spectrophotometric analysis and electrophoretic separation using agarose and the Agilent 2100 bioanalyser system using more than 120 samples confirmed RNA quality with an A 260/280 ratio of 1.84 ± 0.1 and a RNA integrity number (RIN) value of 8–9.

    Techniques: Isolation, Agarose Gel Electrophoresis

    Comparison of the effectiveness of RNAzol RT (RNA extraction in field) and TRIzol Reagent or spin-columns kit (RNA extraction in laboratory with recommended cold conditions) to isolate total RNA. ( A ) Electrophoretic separation using 2% agarose gel of RNA extracted from the same four samples using the three methods. ( B ) Electropherogram and Electrophoresis of representative sample of RNA analysed with the Agilent 2100 bioanalyser system with the RNA 6000 Nano ™ kits. The white arrow shows genomic DNA contaminants.

    Journal: Scientific Reports

    Article Title: A single-step method for RNA isolation from tropical crops in the field

    doi: 10.1038/srep38368

    Figure Lengend Snippet: Comparison of the effectiveness of RNAzol RT (RNA extraction in field) and TRIzol Reagent or spin-columns kit (RNA extraction in laboratory with recommended cold conditions) to isolate total RNA. ( A ) Electrophoretic separation using 2% agarose gel of RNA extracted from the same four samples using the three methods. ( B ) Electropherogram and Electrophoresis of representative sample of RNA analysed with the Agilent 2100 bioanalyser system with the RNA 6000 Nano ™ kits. The white arrow shows genomic DNA contaminants.

    Article Snippet: A spectrophotometric analysis and electrophoretic separation using agarose and the Agilent 2100 bioanalyser system using more than 120 samples confirmed RNA quality with an A 260/280 ratio of 1.84 ± 0.1 and a RNA integrity number (RIN) value of 8–9.

    Techniques: RNA Extraction, Agarose Gel Electrophoresis, Electrophoresis

    Depicts the integrity of RNA isolated at 30 °C from leaf tissue samples from Coffea arabica, Manihot esculenta, Oryza sativa and Zea mais . ( A ) The left-hand side of the figure shows the electrophoresis analysis by agarose gel. ( B ) The right-hand side of the figure shows the Agilent 2100 bioanalyser electrophoresis for each sample. The total RNA fraction had a RIN value ranging between 8 and 9.

    Journal: Scientific Reports

    Article Title: A single-step method for RNA isolation from tropical crops in the field

    doi: 10.1038/srep38368

    Figure Lengend Snippet: Depicts the integrity of RNA isolated at 30 °C from leaf tissue samples from Coffea arabica, Manihot esculenta, Oryza sativa and Zea mais . ( A ) The left-hand side of the figure shows the electrophoresis analysis by agarose gel. ( B ) The right-hand side of the figure shows the Agilent 2100 bioanalyser electrophoresis for each sample. The total RNA fraction had a RIN value ranging between 8 and 9.

    Article Snippet: A spectrophotometric analysis and electrophoretic separation using agarose and the Agilent 2100 bioanalyser system using more than 120 samples confirmed RNA quality with an A 260/280 ratio of 1.84 ± 0.1 and a RNA integrity number (RIN) value of 8–9.

    Techniques: Isolation, Electrophoresis, Agarose Gel Electrophoresis