qiaseq mirna library kit  (Qiagen)

 
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    Name:
    QIAseq miRNA Library Kit
    Description:
    Gel free miRNA Sample to Insight solution for differential expression analysis and novel discovery using next generation sequencing Kit contents For 12 sequencing prep reactions 3 ligation 5 ligation reverse transcription cDNA cleanup library amplification and library cleanup reagents quality control primers Benefits Gel free miRNA sequencing library prep from as little as 1 ng of total RNA Elimination of adapter dimers and unwanted RNA species resulting in the highest fidelity and most efficient data Bead based method to remove adapter dimers and unwanted RNA species Integrated Unique Molecular Indices UMIs enable quantification of individual miRNA molecules Primary read mapping and differential expression analysis via the GeneGlobe Data Analysis Cen
    Catalog Number:
    331502
    Price:
    1120
    Category:
    QIAseq miRNA Library Kit
    Buy from Supplier


    Structured Review

    Qiagen qiaseq mirna library kit
    QIAseq miRNA Library Kit
    Gel free miRNA Sample to Insight solution for differential expression analysis and novel discovery using next generation sequencing Kit contents For 12 sequencing prep reactions 3 ligation 5 ligation reverse transcription cDNA cleanup library amplification and library cleanup reagents quality control primers Benefits Gel free miRNA sequencing library prep from as little as 1 ng of total RNA Elimination of adapter dimers and unwanted RNA species resulting in the highest fidelity and most efficient data Bead based method to remove adapter dimers and unwanted RNA species Integrated Unique Molecular Indices UMIs enable quantification of individual miRNA molecules Primary read mapping and differential expression analysis via the GeneGlobe Data Analysis Cen
    https://www.bioz.com/result/qiaseq mirna library kit/product/Qiagen
    Average 99 stars, based on 32 article reviews
    Price from $9.99 to $1999.99
    qiaseq mirna library kit - by Bioz Stars, 2020-07
    99/100 stars

    Images

    1) Product Images from "Evaluation of methodologies for microRNA biomarker detection by next generation sequencing"

    Article Title: Evaluation of methodologies for microRNA biomarker detection by next generation sequencing

    Journal: RNA Biology

    doi: 10.1080/15476286.2018.1514236

    Overview of the small RNA sequencing workflow, compared methodologies for library preparation and computational analysis pipeline. (a) Schematic illustration of small RNA sequencing (sRNA-seq) library preparation. With exception of the SMARTer smRNA-Seq kit, all kits employed a ligation-based approach to attach 3′ and 5′ adapter to the miRNA. In the QIAseq protocol, a unique barcode is attached at the RT stage (orange dotted line), so-called unique molecular indices (UMI). Illumina adapter (purple and blue) and sequencing index (light purple) for multiplexing are added during the PCR amplification. Several steps of the protocol may introduce bias to the sequencing libraries as indicated by the yellow warning triangles. (b) Table summary of the key features of the four assessed sRNA-seq kits. (c) Small RNA sequencing data analysis pipeline. In the case of QIAseq, UMIs were trimmed alongside the adapters to allow side-by-side comparison by a single computational pipeline. Abbreviations: Nextflex Small RNA-Seq Kit v3 (Nextflex), NEBNext Small RNA Library Prep Set (NEBNext) and QIAseq miRNA Library Kit (QIAseq).
    Figure Legend Snippet: Overview of the small RNA sequencing workflow, compared methodologies for library preparation and computational analysis pipeline. (a) Schematic illustration of small RNA sequencing (sRNA-seq) library preparation. With exception of the SMARTer smRNA-Seq kit, all kits employed a ligation-based approach to attach 3′ and 5′ adapter to the miRNA. In the QIAseq protocol, a unique barcode is attached at the RT stage (orange dotted line), so-called unique molecular indices (UMI). Illumina adapter (purple and blue) and sequencing index (light purple) for multiplexing are added during the PCR amplification. Several steps of the protocol may introduce bias to the sequencing libraries as indicated by the yellow warning triangles. (b) Table summary of the key features of the four assessed sRNA-seq kits. (c) Small RNA sequencing data analysis pipeline. In the case of QIAseq, UMIs were trimmed alongside the adapters to allow side-by-side comparison by a single computational pipeline. Abbreviations: Nextflex Small RNA-Seq Kit v3 (Nextflex), NEBNext Small RNA Library Prep Set (NEBNext) and QIAseq miRNA Library Kit (QIAseq).

    Techniques Used: RNA Sequencing Assay, Ligation, Sequencing, Multiplexing, Polymerase Chain Reaction, Amplification, Introduce

    2) Product Images from "Multisite Evaluation of Next-Generation Methods for Small RNA Quantification"

    Article Title: Multisite Evaluation of Next-Generation Methods for Small RNA Quantification

    Journal: Journal of Biomolecular Techniques : JBT

    doi: 10.7171/jbt.20-3102-001

    miRNA detection and bias. Percentages of Miltenyi Biotec miRXplore miRNA detected above 5 CPM in MUR ( A ) and in MUR-D ( B ) are shown. Percentages and amplitude of Miltenyi Biotec miRXplore miRNA detected that deviated from the median are shown in MUR ( C ) or MUR-D ( D ). The darkest shade is within 2-fold of the median; the medium shade is 2–10-fold either up or down vs. the expected value; the lightest shade is > 10× either increased or decreased. Percentages of reads increased > 10× from median in MUR ( E ) or MUR-D ( F ). CLO-S and C, Takara Bio (Clontech) SMARTer smRNA-Seq Kit; DIA and D, Diagenode CATS Small RNA-Seq Kit; ILMN and I, Illumina TruSeq Small RNA Library Prep Kit; LEX and L, Lexogen Small RNA-Seq Library Prep Kit; Nano, NanoString nCounter miRNA Expression Assay; NEB and N, New England Biolabs NEBNext Small RNA Library Prep Set; PEB and P, PerkinElmer NextFlex Small RNA-Seq Kit v.3; QIA and Q, Qiagen QIAseq miRNA Library Kit; SOM and S, Somagenics RealSeq-AC miRNA Library Kit; TRI and T, Trilink CleanTag Small RNA Library Prep Kit.
    Figure Legend Snippet: miRNA detection and bias. Percentages of Miltenyi Biotec miRXplore miRNA detected above 5 CPM in MUR ( A ) and in MUR-D ( B ) are shown. Percentages and amplitude of Miltenyi Biotec miRXplore miRNA detected that deviated from the median are shown in MUR ( C ) or MUR-D ( D ). The darkest shade is within 2-fold of the median; the medium shade is 2–10-fold either up or down vs. the expected value; the lightest shade is > 10× either increased or decreased. Percentages of reads increased > 10× from median in MUR ( E ) or MUR-D ( F ). CLO-S and C, Takara Bio (Clontech) SMARTer smRNA-Seq Kit; DIA and D, Diagenode CATS Small RNA-Seq Kit; ILMN and I, Illumina TruSeq Small RNA Library Prep Kit; LEX and L, Lexogen Small RNA-Seq Library Prep Kit; Nano, NanoString nCounter miRNA Expression Assay; NEB and N, New England Biolabs NEBNext Small RNA Library Prep Set; PEB and P, PerkinElmer NextFlex Small RNA-Seq Kit v.3; QIA and Q, Qiagen QIAseq miRNA Library Kit; SOM and S, Somagenics RealSeq-AC miRNA Library Kit; TRI and T, Trilink CleanTag Small RNA Library Prep Kit.

    Techniques Used: RNA Sequencing Assay, Expressing

    Study design and workflow metrics. A ) Schematic of study design is shown. MUR, MUR-D, and HBR were processed using 9 different smRNA profiling methods at 4 sites each. The general methodologies included sequential ligation (Illumina, TriLink, Qiagen, NEB, PerkinElmer, Lexogen), template switching (Takara, Diagenode), circularization (Somagenics), and NanoString probe-based hybridization. B ) Total start-to-finish preparation time for each kit as reported by sites. C ) Mean “ease of use” reported by each site (scale: 1 = uncomfortable, 5 = comfortable). D ) Library preparation success rates. Light color blocks are successfully produced libraries. Dark colors are failed libraries. CLO and CLO-S, Takara Bio (Clontech) SMARTer smRNA-Seq Kit; DIA, Diagenode CATS Small RNA-Seq Kit; ILL and ILMN, Illumina TruSeq Small RNA Library Prep Kit; LEX, Lexogen Small RNA-Seq Library Prep Kit; NANO, NanoString nCounter miRNA Expression Assay; NEB, New England Biolabs NEBNext Small RNA Library Prep Set; PEB, PerkinElmer NextFlex Small RNA-Seq Kit v.3; QIA, Qiagen QIAseq miRNA Library Kit; SOM, Somagenics RealSeq-AC miRNA Library Kit; TRI, Trilink CleanTag Small RNA Library Prep Kit.
    Figure Legend Snippet: Study design and workflow metrics. A ) Schematic of study design is shown. MUR, MUR-D, and HBR were processed using 9 different smRNA profiling methods at 4 sites each. The general methodologies included sequential ligation (Illumina, TriLink, Qiagen, NEB, PerkinElmer, Lexogen), template switching (Takara, Diagenode), circularization (Somagenics), and NanoString probe-based hybridization. B ) Total start-to-finish preparation time for each kit as reported by sites. C ) Mean “ease of use” reported by each site (scale: 1 = uncomfortable, 5 = comfortable). D ) Library preparation success rates. Light color blocks are successfully produced libraries. Dark colors are failed libraries. CLO and CLO-S, Takara Bio (Clontech) SMARTer smRNA-Seq Kit; DIA, Diagenode CATS Small RNA-Seq Kit; ILL and ILMN, Illumina TruSeq Small RNA Library Prep Kit; LEX, Lexogen Small RNA-Seq Library Prep Kit; NANO, NanoString nCounter miRNA Expression Assay; NEB, New England Biolabs NEBNext Small RNA Library Prep Set; PEB, PerkinElmer NextFlex Small RNA-Seq Kit v.3; QIA, Qiagen QIAseq miRNA Library Kit; SOM, Somagenics RealSeq-AC miRNA Library Kit; TRI, Trilink CleanTag Small RNA Library Prep Kit.

    Techniques Used: Ligation, Hybridization, Produced, RNA Sequencing Assay, Expressing

    Relative expression of miRNAs. A ) Correlation scatter plots of miRNAs detected in MUR and MUR-D for the QIA method, with miRNAs scored in log2 mapped reads per million. B ) Correlation scatter plot of miRNAs detected in MUR-D using LEX vs. ILL kits, with miRNAs scored in log2 mapped reads per million. C ) Unsupervised hierarchical clustering heatmap of log2 transformed CPM across all methods. C (prep kit), Takara Bio (Clontech) SMARTer smRNA-Seq Kit; C (prep type), circularization; D, Diagenode CATS Small RNA-Seq Kit; ILL and I, Illumina TruSeq Small RNA Library Prep Kit; L (prep type), sequential ligation; LEX and L (prep kit), Lexogen Small RNA-Seq Library Prep Kit; N, New England Biolabs NEBNext Small RNA Library Prep Set; Nano, NanoString nCounter miRNA Expression Assay; NO, No size selection; P, PerkinElmer NextFlex Small RNA-Seq Kit v.3; QIA and Q, Qiagen QIAseq miRNA Library Kit; S, Somagenics RealSeq-AC miRNA Library Kit; SAGE, pippin prep; SPRI, solid phase reversible immobilization; T (prep kit), Trilink CleanTag Small Library Prep Kit; T (prep type), template switching.
    Figure Legend Snippet: Relative expression of miRNAs. A ) Correlation scatter plots of miRNAs detected in MUR and MUR-D for the QIA method, with miRNAs scored in log2 mapped reads per million. B ) Correlation scatter plot of miRNAs detected in MUR-D using LEX vs. ILL kits, with miRNAs scored in log2 mapped reads per million. C ) Unsupervised hierarchical clustering heatmap of log2 transformed CPM across all methods. C (prep kit), Takara Bio (Clontech) SMARTer smRNA-Seq Kit; C (prep type), circularization; D, Diagenode CATS Small RNA-Seq Kit; ILL and I, Illumina TruSeq Small RNA Library Prep Kit; L (prep type), sequential ligation; LEX and L (prep kit), Lexogen Small RNA-Seq Library Prep Kit; N, New England Biolabs NEBNext Small RNA Library Prep Set; Nano, NanoString nCounter miRNA Expression Assay; NO, No size selection; P, PerkinElmer NextFlex Small RNA-Seq Kit v.3; QIA and Q, Qiagen QIAseq miRNA Library Kit; S, Somagenics RealSeq-AC miRNA Library Kit; SAGE, pippin prep; SPRI, solid phase reversible immobilization; T (prep kit), Trilink CleanTag Small Library Prep Kit; T (prep type), template switching.

    Techniques Used: Expressing, Transformation Assay, RNA Sequencing Assay, Ligation, Selection

    Related Articles

    Sequencing:

    Article Title: PIWI proteins contribute to apoptosis during the UPR in human airway epithelial cells
    Article Snippet: .. Small RNA sequencing libraries were prepared using QIAseq miRNA library kit (Qiagen) following the manufacturer’s instructions and followed by sequencing on an Illumina NextSeq instrument. .. Using Qiagen’s Gene Globe Software, sequencing reads were aligned to the human reference genome assembly (hg19) followed by transcript assembly and estimation of the relative abundances.

    Article Title: Evaluation of methodologies for microRNA biomarker detection by next generation sequencing
    Article Snippet: .. In this study, we have benchmarked four commercial kits intended for Illumina sequencing: Nextflex Small RNA-Seq Kit v3, Bioo Scientific (BSC); SMARTer smRNA-Seq Kit, Clontech/Takara (CLT); NEBNext Small RNA Library Prep Set, New England Biolabs (NEB) and QIAseq miRNA Library Kit, Qiagen (QIA). .. All methodologies can generate miRNA sequencing libraries from low input amounts (1–100 ng) and are therefore suitable to process RNA derived from biofluids.

    Article Title: Identification of miRNA-mRNA associations in hepatocellular carcinoma using hierarchical integrative model
    Article Snippet: .. Indexed sequencing libraries were prepared from 200 ng total RNA using the QIAseq miRNA Library Kit (Qiagen) in the GESR according to the manufacturer’s instructions. .. Sequencing was performed on the NextSeq 550 System (Illumina) using 1 × 75 bp paired-end (SE75) read mode.

    RNA Sequencing Assay:

    Article Title: PIWI proteins contribute to apoptosis during the UPR in human airway epithelial cells
    Article Snippet: .. Small RNA sequencing libraries were prepared using QIAseq miRNA library kit (Qiagen) following the manufacturer’s instructions and followed by sequencing on an Illumina NextSeq instrument. .. Using Qiagen’s Gene Globe Software, sequencing reads were aligned to the human reference genome assembly (hg19) followed by transcript assembly and estimation of the relative abundances.

    Article Title: Multisite Evaluation of Next-Generation Methods for Small RNA Quantification
    Article Snippet: .. Most of the kits tested, including Illumina TruSeq Small RNA Library Prep Kit, Lexogen Small RNA-Seq Library Prep Kit, New England Biolabs NEBNext Small RNA Library Prep Set, PerkinElmer (formerly Bioo Scientific) NextFlex Small RNA-Seq Kit v.3, Qiagen QIAseq miRNA Library Kit, and Trilink CleanTag Small RNA Library Prep Kit all use variants of this methodology. .. The Takara SMARTer smRNA Kit and the Diagenode CATS Small RNA-Seq Kit both begin by polyadenylation of the 3′ nucleotide of the smRNA followed by reverse transcription and template switching.

    Article Title: Evaluation of methodologies for microRNA biomarker detection by next generation sequencing
    Article Snippet: .. In this study, we have benchmarked four commercial kits intended for Illumina sequencing: Nextflex Small RNA-Seq Kit v3, Bioo Scientific (BSC); SMARTer smRNA-Seq Kit, Clontech/Takara (CLT); NEBNext Small RNA Library Prep Set, New England Biolabs (NEB) and QIAseq miRNA Library Kit, Qiagen (QIA). .. All methodologies can generate miRNA sequencing libraries from low input amounts (1–100 ng) and are therefore suitable to process RNA derived from biofluids.

    Expressing:

    Article Title: Gene Expression and Epigenetic Changes in Mice Following Inhalation of Copper(II) Oxide Nanoparticles
    Article Snippet: .. 2.4. miRNA Expression Analysis Small RNA libraries were prepared from 150 ng of total RNA using Qiaseq miRNA library kit (QIAGEN Manchester Ltd; Manchester, UK). ..

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  • Bioz Stars
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  • 99
    Qiagen qiaseq mirna library kit
    Overview of the small RNA sequencing workflow, compared methodologies for library preparation and computational analysis pipeline. (a) Schematic illustration of small RNA sequencing (sRNA-seq) library preparation. With exception of the SMARTer smRNA-Seq kit, all kits employed a ligation-based approach to attach 3′ and 5′ adapter to the <t>miRNA.</t> In the <t>QIAseq</t> protocol, a unique barcode is attached at the RT stage (orange dotted line), so-called unique molecular indices (UMI). Illumina adapter (purple and blue) and sequencing index (light purple) for multiplexing are added during the PCR amplification. Several steps of the protocol may introduce bias to the sequencing libraries as indicated by the yellow warning triangles. (b) Table summary of the key features of the four assessed sRNA-seq kits. (c) Small RNA sequencing data analysis pipeline. In the case of QIAseq, UMIs were trimmed alongside the adapters to allow side-by-side comparison by a single computational pipeline. Abbreviations: Nextflex Small RNA-Seq Kit v3 (Nextflex), NEBNext Small RNA Library Prep Set (NEBNext) and QIAseq miRNA Library Kit (QIAseq).
    Qiaseq Mirna Library Kit, supplied by Qiagen, used in various techniques. Bioz Stars score: 99/100, based on 26 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/qiaseq mirna library kit/product/Qiagen
    Average 99 stars, based on 26 article reviews
    Price from $9.99 to $1999.99
    qiaseq mirna library kit - by Bioz Stars, 2020-07
    99/100 stars
      Buy from Supplier

    Image Search Results


    Overview of the small RNA sequencing workflow, compared methodologies for library preparation and computational analysis pipeline. (a) Schematic illustration of small RNA sequencing (sRNA-seq) library preparation. With exception of the SMARTer smRNA-Seq kit, all kits employed a ligation-based approach to attach 3′ and 5′ adapter to the miRNA. In the QIAseq protocol, a unique barcode is attached at the RT stage (orange dotted line), so-called unique molecular indices (UMI). Illumina adapter (purple and blue) and sequencing index (light purple) for multiplexing are added during the PCR amplification. Several steps of the protocol may introduce bias to the sequencing libraries as indicated by the yellow warning triangles. (b) Table summary of the key features of the four assessed sRNA-seq kits. (c) Small RNA sequencing data analysis pipeline. In the case of QIAseq, UMIs were trimmed alongside the adapters to allow side-by-side comparison by a single computational pipeline. Abbreviations: Nextflex Small RNA-Seq Kit v3 (Nextflex), NEBNext Small RNA Library Prep Set (NEBNext) and QIAseq miRNA Library Kit (QIAseq).

    Journal: RNA Biology

    Article Title: Evaluation of methodologies for microRNA biomarker detection by next generation sequencing

    doi: 10.1080/15476286.2018.1514236

    Figure Lengend Snippet: Overview of the small RNA sequencing workflow, compared methodologies for library preparation and computational analysis pipeline. (a) Schematic illustration of small RNA sequencing (sRNA-seq) library preparation. With exception of the SMARTer smRNA-Seq kit, all kits employed a ligation-based approach to attach 3′ and 5′ adapter to the miRNA. In the QIAseq protocol, a unique barcode is attached at the RT stage (orange dotted line), so-called unique molecular indices (UMI). Illumina adapter (purple and blue) and sequencing index (light purple) for multiplexing are added during the PCR amplification. Several steps of the protocol may introduce bias to the sequencing libraries as indicated by the yellow warning triangles. (b) Table summary of the key features of the four assessed sRNA-seq kits. (c) Small RNA sequencing data analysis pipeline. In the case of QIAseq, UMIs were trimmed alongside the adapters to allow side-by-side comparison by a single computational pipeline. Abbreviations: Nextflex Small RNA-Seq Kit v3 (Nextflex), NEBNext Small RNA Library Prep Set (NEBNext) and QIAseq miRNA Library Kit (QIAseq).

    Article Snippet: In this study, we have benchmarked four commercial kits intended for Illumina sequencing: Nextflex Small RNA-Seq Kit v3, Bioo Scientific (BSC); SMARTer smRNA-Seq Kit, Clontech/Takara (CLT); NEBNext Small RNA Library Prep Set, New England Biolabs (NEB) and QIAseq miRNA Library Kit, Qiagen (QIA).

    Techniques: RNA Sequencing Assay, Ligation, Sequencing, Multiplexing, Polymerase Chain Reaction, Amplification, Introduce

    miRNA detection and bias. Percentages of Miltenyi Biotec miRXplore miRNA detected above 5 CPM in MUR ( A ) and in MUR-D ( B ) are shown. Percentages and amplitude of Miltenyi Biotec miRXplore miRNA detected that deviated from the median are shown in MUR ( C ) or MUR-D ( D ). The darkest shade is within 2-fold of the median; the medium shade is 2–10-fold either up or down vs. the expected value; the lightest shade is > 10× either increased or decreased. Percentages of reads increased > 10× from median in MUR ( E ) or MUR-D ( F ). CLO-S and C, Takara Bio (Clontech) SMARTer smRNA-Seq Kit; DIA and D, Diagenode CATS Small RNA-Seq Kit; ILMN and I, Illumina TruSeq Small RNA Library Prep Kit; LEX and L, Lexogen Small RNA-Seq Library Prep Kit; Nano, NanoString nCounter miRNA Expression Assay; NEB and N, New England Biolabs NEBNext Small RNA Library Prep Set; PEB and P, PerkinElmer NextFlex Small RNA-Seq Kit v.3; QIA and Q, Qiagen QIAseq miRNA Library Kit; SOM and S, Somagenics RealSeq-AC miRNA Library Kit; TRI and T, Trilink CleanTag Small RNA Library Prep Kit.

    Journal: Journal of Biomolecular Techniques : JBT

    Article Title: Multisite Evaluation of Next-Generation Methods for Small RNA Quantification

    doi: 10.7171/jbt.20-3102-001

    Figure Lengend Snippet: miRNA detection and bias. Percentages of Miltenyi Biotec miRXplore miRNA detected above 5 CPM in MUR ( A ) and in MUR-D ( B ) are shown. Percentages and amplitude of Miltenyi Biotec miRXplore miRNA detected that deviated from the median are shown in MUR ( C ) or MUR-D ( D ). The darkest shade is within 2-fold of the median; the medium shade is 2–10-fold either up or down vs. the expected value; the lightest shade is > 10× either increased or decreased. Percentages of reads increased > 10× from median in MUR ( E ) or MUR-D ( F ). CLO-S and C, Takara Bio (Clontech) SMARTer smRNA-Seq Kit; DIA and D, Diagenode CATS Small RNA-Seq Kit; ILMN and I, Illumina TruSeq Small RNA Library Prep Kit; LEX and L, Lexogen Small RNA-Seq Library Prep Kit; Nano, NanoString nCounter miRNA Expression Assay; NEB and N, New England Biolabs NEBNext Small RNA Library Prep Set; PEB and P, PerkinElmer NextFlex Small RNA-Seq Kit v.3; QIA and Q, Qiagen QIAseq miRNA Library Kit; SOM and S, Somagenics RealSeq-AC miRNA Library Kit; TRI and T, Trilink CleanTag Small RNA Library Prep Kit.

    Article Snippet: Most of the kits tested, including Illumina TruSeq Small RNA Library Prep Kit, Lexogen Small RNA-Seq Library Prep Kit, New England Biolabs NEBNext Small RNA Library Prep Set, PerkinElmer (formerly Bioo Scientific) NextFlex Small RNA-Seq Kit v.3, Qiagen QIAseq miRNA Library Kit, and Trilink CleanTag Small RNA Library Prep Kit all use variants of this methodology.

    Techniques: RNA Sequencing Assay, Expressing

    Study design and workflow metrics. A ) Schematic of study design is shown. MUR, MUR-D, and HBR were processed using 9 different smRNA profiling methods at 4 sites each. The general methodologies included sequential ligation (Illumina, TriLink, Qiagen, NEB, PerkinElmer, Lexogen), template switching (Takara, Diagenode), circularization (Somagenics), and NanoString probe-based hybridization. B ) Total start-to-finish preparation time for each kit as reported by sites. C ) Mean “ease of use” reported by each site (scale: 1 = uncomfortable, 5 = comfortable). D ) Library preparation success rates. Light color blocks are successfully produced libraries. Dark colors are failed libraries. CLO and CLO-S, Takara Bio (Clontech) SMARTer smRNA-Seq Kit; DIA, Diagenode CATS Small RNA-Seq Kit; ILL and ILMN, Illumina TruSeq Small RNA Library Prep Kit; LEX, Lexogen Small RNA-Seq Library Prep Kit; NANO, NanoString nCounter miRNA Expression Assay; NEB, New England Biolabs NEBNext Small RNA Library Prep Set; PEB, PerkinElmer NextFlex Small RNA-Seq Kit v.3; QIA, Qiagen QIAseq miRNA Library Kit; SOM, Somagenics RealSeq-AC miRNA Library Kit; TRI, Trilink CleanTag Small RNA Library Prep Kit.

    Journal: Journal of Biomolecular Techniques : JBT

    Article Title: Multisite Evaluation of Next-Generation Methods for Small RNA Quantification

    doi: 10.7171/jbt.20-3102-001

    Figure Lengend Snippet: Study design and workflow metrics. A ) Schematic of study design is shown. MUR, MUR-D, and HBR were processed using 9 different smRNA profiling methods at 4 sites each. The general methodologies included sequential ligation (Illumina, TriLink, Qiagen, NEB, PerkinElmer, Lexogen), template switching (Takara, Diagenode), circularization (Somagenics), and NanoString probe-based hybridization. B ) Total start-to-finish preparation time for each kit as reported by sites. C ) Mean “ease of use” reported by each site (scale: 1 = uncomfortable, 5 = comfortable). D ) Library preparation success rates. Light color blocks are successfully produced libraries. Dark colors are failed libraries. CLO and CLO-S, Takara Bio (Clontech) SMARTer smRNA-Seq Kit; DIA, Diagenode CATS Small RNA-Seq Kit; ILL and ILMN, Illumina TruSeq Small RNA Library Prep Kit; LEX, Lexogen Small RNA-Seq Library Prep Kit; NANO, NanoString nCounter miRNA Expression Assay; NEB, New England Biolabs NEBNext Small RNA Library Prep Set; PEB, PerkinElmer NextFlex Small RNA-Seq Kit v.3; QIA, Qiagen QIAseq miRNA Library Kit; SOM, Somagenics RealSeq-AC miRNA Library Kit; TRI, Trilink CleanTag Small RNA Library Prep Kit.

    Article Snippet: Most of the kits tested, including Illumina TruSeq Small RNA Library Prep Kit, Lexogen Small RNA-Seq Library Prep Kit, New England Biolabs NEBNext Small RNA Library Prep Set, PerkinElmer (formerly Bioo Scientific) NextFlex Small RNA-Seq Kit v.3, Qiagen QIAseq miRNA Library Kit, and Trilink CleanTag Small RNA Library Prep Kit all use variants of this methodology.

    Techniques: Ligation, Hybridization, Produced, RNA Sequencing Assay, Expressing

    Relative expression of miRNAs. A ) Correlation scatter plots of miRNAs detected in MUR and MUR-D for the QIA method, with miRNAs scored in log2 mapped reads per million. B ) Correlation scatter plot of miRNAs detected in MUR-D using LEX vs. ILL kits, with miRNAs scored in log2 mapped reads per million. C ) Unsupervised hierarchical clustering heatmap of log2 transformed CPM across all methods. C (prep kit), Takara Bio (Clontech) SMARTer smRNA-Seq Kit; C (prep type), circularization; D, Diagenode CATS Small RNA-Seq Kit; ILL and I, Illumina TruSeq Small RNA Library Prep Kit; L (prep type), sequential ligation; LEX and L (prep kit), Lexogen Small RNA-Seq Library Prep Kit; N, New England Biolabs NEBNext Small RNA Library Prep Set; Nano, NanoString nCounter miRNA Expression Assay; NO, No size selection; P, PerkinElmer NextFlex Small RNA-Seq Kit v.3; QIA and Q, Qiagen QIAseq miRNA Library Kit; S, Somagenics RealSeq-AC miRNA Library Kit; SAGE, pippin prep; SPRI, solid phase reversible immobilization; T (prep kit), Trilink CleanTag Small Library Prep Kit; T (prep type), template switching.

    Journal: Journal of Biomolecular Techniques : JBT

    Article Title: Multisite Evaluation of Next-Generation Methods for Small RNA Quantification

    doi: 10.7171/jbt.20-3102-001

    Figure Lengend Snippet: Relative expression of miRNAs. A ) Correlation scatter plots of miRNAs detected in MUR and MUR-D for the QIA method, with miRNAs scored in log2 mapped reads per million. B ) Correlation scatter plot of miRNAs detected in MUR-D using LEX vs. ILL kits, with miRNAs scored in log2 mapped reads per million. C ) Unsupervised hierarchical clustering heatmap of log2 transformed CPM across all methods. C (prep kit), Takara Bio (Clontech) SMARTer smRNA-Seq Kit; C (prep type), circularization; D, Diagenode CATS Small RNA-Seq Kit; ILL and I, Illumina TruSeq Small RNA Library Prep Kit; L (prep type), sequential ligation; LEX and L (prep kit), Lexogen Small RNA-Seq Library Prep Kit; N, New England Biolabs NEBNext Small RNA Library Prep Set; Nano, NanoString nCounter miRNA Expression Assay; NO, No size selection; P, PerkinElmer NextFlex Small RNA-Seq Kit v.3; QIA and Q, Qiagen QIAseq miRNA Library Kit; S, Somagenics RealSeq-AC miRNA Library Kit; SAGE, pippin prep; SPRI, solid phase reversible immobilization; T (prep kit), Trilink CleanTag Small Library Prep Kit; T (prep type), template switching.

    Article Snippet: Most of the kits tested, including Illumina TruSeq Small RNA Library Prep Kit, Lexogen Small RNA-Seq Library Prep Kit, New England Biolabs NEBNext Small RNA Library Prep Set, PerkinElmer (formerly Bioo Scientific) NextFlex Small RNA-Seq Kit v.3, Qiagen QIAseq miRNA Library Kit, and Trilink CleanTag Small RNA Library Prep Kit all use variants of this methodology.

    Techniques: Expressing, Transformation Assay, RNA Sequencing Assay, Ligation, Selection