truseq rna sample preparation kit Illumina Inc Search Results


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  • 90
    Illumina Inc truseq rna access library prep kit
    Boxplot of the coefficients of determination ( R 2 values) of the <t>RNA-seq</t> log fold change values vs TaqMan qPCR measurements. The boxes are coloured by protocol: red for RNA Access, green for Ribo-Zero, and blue for <t>TruSeq.</t> Darker shades indicate boxes for samples to which a more severe degradation protocol was applied
    Truseq Rna Access Library Prep Kit, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 90/100, based on 251 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna access library prep kit/product/Illumina Inc
    Average 90 stars, based on 251 article reviews
    Price from $9.99 to $1999.99
    truseq rna access library prep kit - by Bioz Stars, 2020-02
    90/100 stars
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    93
    Illumina Inc truseq rna sample preparation kits
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Sample Preparation Kits, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 93/100, based on 694 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna sample preparation kits/product/Illumina Inc
    Average 93 stars, based on 694 article reviews
    Price from $9.99 to $1999.99
    truseq rna sample preparation kits - by Bioz Stars, 2020-02
    93/100 stars
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    79
    Illumina Inc truseq rna sample preperation kit
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Sample Preperation Kit, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 79/100, based on 6 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna sample preperation kit/product/Illumina Inc
    Average 79 stars, based on 6 article reviews
    Price from $9.99 to $1999.99
    truseq rna sample preperation kit - by Bioz Stars, 2020-02
    79/100 stars
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    78
    Illumina Inc truseq rna sample prepv2 kit
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Sample Prepv2 Kit, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 78/100, based on 8 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna sample prepv2 kit/product/Illumina Inc
    Average 78 stars, based on 8 article reviews
    Price from $9.99 to $1999.99
    truseq rna sample prepv2 kit - by Bioz Stars, 2020-02
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    84
    Illumina Inc truseq rna cd indices
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Cd Indices, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 84/100, based on 8 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna cd indices/product/Illumina Inc
    Average 84 stars, based on 8 article reviews
    Price from $9.99 to $1999.99
    truseq rna cd indices - by Bioz Stars, 2020-02
    84/100 stars
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    99
    Illumina Inc truseq rna sample preparation kit v2
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Sample Preparation Kit V2, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 99/100, based on 3986 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna sample preparation kit v2/product/Illumina Inc
    Average 99 stars, based on 3986 article reviews
    Price from $9.99 to $1999.99
    truseq rna sample preparation kit v2 - by Bioz Stars, 2020-02
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    79
    Illumina Inc standard truseq rna sample preparation kit
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Standard Truseq Rna Sample Preparation Kit, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 79/100, based on 5 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/standard truseq rna sample preparation kit/product/Illumina Inc
    Average 79 stars, based on 5 article reviews
    Price from $9.99 to $1999.99
    standard truseq rna sample preparation kit - by Bioz Stars, 2020-02
    79/100 stars
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    86
    Illumina Inc truseq rna sample preparation kit v2 protocol
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Sample Preparation Kit V2 Protocol, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 86/100, based on 73 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna sample preparation kit v2 protocol/product/Illumina Inc
    Average 86 stars, based on 73 article reviews
    Price from $9.99 to $1999.99
    truseq rna sample preparation kit v2 protocol - by Bioz Stars, 2020-02
    86/100 stars
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    90
    Illumina Inc truseq rna sample preparation kit v2 guide
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Sample Preparation Kit V2 Guide, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 90/100, based on 54 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna sample preparation kit v2 guide/product/Illumina Inc
    Average 90 stars, based on 54 article reviews
    Price from $9.99 to $1999.99
    truseq rna sample preparation kit v2 guide - by Bioz Stars, 2020-02
    90/100 stars
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    77
    Illumina Inc truseq rna sample preparation kit v2low throughput protocol
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Sample Preparation Kit V2low Throughput Protocol, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 77/100, based on 5 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna sample preparation kit v2low throughput protocol/product/Illumina Inc
    Average 77 stars, based on 5 article reviews
    Price from $9.99 to $1999.99
    truseq rna sample preparation kit v2low throughput protocol - by Bioz Stars, 2020-02
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    90
    Illumina Inc truseq rna access enrichment
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Access Enrichment, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 90/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna access enrichment/product/Illumina Inc
    Average 90 stars, based on 3 article reviews
    Price from $9.99 to $1999.99
    truseq rna access enrichment - by Bioz Stars, 2020-02
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    84
    Illumina Inc total stranded rna library kit
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Total Stranded Rna Library Kit, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 84/100, based on 16 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/total stranded rna library kit/product/Illumina Inc
    Average 84 stars, based on 16 article reviews
    Price from $9.99 to $1999.99
    total stranded rna library kit - by Bioz Stars, 2020-02
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    83
    Illumina Inc truseq rna sample preparation kit v2 seta
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Sample Preparation Kit V2 Seta, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 83/100, based on 7 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna sample preparation kit v2 seta/product/Illumina Inc
    Average 83 stars, based on 7 article reviews
    Price from $9.99 to $1999.99
    truseq rna sample preparation kit v2 seta - by Bioz Stars, 2020-02
    83/100 stars
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    78
    Illumina Inc strand non specific rna seq library preparation truseq rna sample prep kits v1
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Strand Non Specific Rna Seq Library Preparation Truseq Rna Sample Prep Kits V1, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 78/100, based on 8 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/strand non specific rna seq library preparation truseq rna sample prep kits v1/product/Illumina Inc
    Average 78 stars, based on 8 article reviews
    Price from $9.99 to $1999.99
    strand non specific rna seq library preparation truseq rna sample prep kits v1 - by Bioz Stars, 2020-02
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    86
    Illumina Inc strand non specific rna seq library preparation truseq rna sample prep kits v2
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Strand Non Specific Rna Seq Library Preparation Truseq Rna Sample Prep Kits V2, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 86/100, based on 29 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/strand non specific rna seq library preparation truseq rna sample prep kits v2/product/Illumina Inc
    Average 86 stars, based on 29 article reviews
    Price from $9.99 to $1999.99
    strand non specific rna seq library preparation truseq rna sample prep kits v2 - by Bioz Stars, 2020-02
    86/100 stars
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    77
    Illumina Inc truseq rna sample preparation kit version 2 manual
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Sample Preparation Kit Version 2 Manual, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 77/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna sample preparation kit version 2 manual/product/Illumina Inc
    Average 77 stars, based on 3 article reviews
    Price from $9.99 to $1999.99
    truseq rna sample preparation kit version 2 manual - by Bioz Stars, 2020-02
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    90
    Illumina Inc truseq rna exome kit
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Exome Kit, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 90/100, based on 4 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna exome kit/product/Illumina Inc
    Average 90 stars, based on 4 article reviews
    Price from $9.99 to $1999.99
    truseq rna exome kit - by Bioz Stars, 2020-02
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    80
    Illumina Inc truseq rna sample preparation kit v2 reagents
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Sample Preparation Kit V2 Reagents, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 80/100, based on 8 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna sample preparation kit v2 reagents/product/Illumina Inc
    Average 80 stars, based on 8 article reviews
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    77
    Illumina Inc libraries createdusing truseq rna sample preparation kit v2
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Libraries Createdusing Truseq Rna Sample Preparation Kit V2, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 77/100, based on 5 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/libraries createdusing truseq rna sample preparation kit v2/product/Illumina Inc
    Average 77 stars, based on 5 article reviews
    Price from $9.99 to $1999.99
    libraries createdusing truseq rna sample preparation kit v2 - by Bioz Stars, 2020-02
    77/100 stars
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    85
    Illumina Inc truseq rna sample preparation kit v3 prepared single end sequencing
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
    Truseq Rna Sample Preparation Kit V3 Prepared Single End Sequencing, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 85/100, based on 9 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/truseq rna sample preparation kit v3 prepared single end sequencing/product/Illumina Inc
    Average 85 stars, based on 9 article reviews
    Price from $9.99 to $1999.99
    truseq rna sample preparation kit v3 prepared single end sequencing - by Bioz Stars, 2020-02
    85/100 stars
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    90
    Illumina Inc truseq stranded total rna sample prep
    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC <t>RNA</t> (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by <t>TruSeq</t> method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.
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    Effect of adapter modifications on tagged library population. Libraries were prepped with 1000 ng human brain total <t>RNA</t> and the CleanTag library prep protocol or recommended manufacturers conditions for Illumina and NEB kits. Data analysis performed by TSRI. A) Correlation plot of unmodified adapters and modified CleanTag adapters within the CleanTag library prep. Tagged miRNA are plotted after Log2 transformation. B) Venn diagram of CleanTag kit, Illumina <t>TruSeq</t> kit, and NEBNext kit depicting number of brain miRNA identified in all 3 replicates for each workflow.
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    gas6 may only have subtle roles in caudal hindbrain development. a WT and gas6 mutant embryos were assayed for expression of valentino (r5/r6) (i), hoxb3a (r5-spinal cord) (ii), hoxa3 (r5/r6) (iii), islet1 (cranial nerves)(iv) and dm20 (oligodendrocyte marker) (vi) by ISH, as well as for the presence of OPCs and abducens neurons by crossing to the Tg (olig2:EGFP) vu12 line (v). In column (iv), yellow brackets mark cranial nerve V, blue brackets mark cranial nerve VII and red brackets mark cranial nerve X. White brackets indicate the presence of abducens (cranial nerve VI) in column (v). b Schemes showing RNA-seq library synthesis. Hindbrain tissue was dissected from 48 hpf gas6 mutant embryos in the olig2:eGFP background. Total RNA was collected from pools of hindbrain tissue and was used in library synthesis following the <t>TruSeq</t> Stranded <t>mRNA</t> Library Prep Kit (Illumina) protocol. c 1590 differentially expressed genes were identified from RNA-Seq where 41 out of the 928 up-regulated genes and 78 out of the 662 down-regulated genes were expressed in the hindbrain. GO terms related to Biological Processes were identified in both up-regulated and down-regulated genes using DAVID. d A subset of differentially expressed genes was validated via qPCR from independently collected hindbrain tissue samples. e ISH analysis of representative differentially expressed hindbrain genes (i) neurod6b , (ii) atoh1b and (iii) olig4 show no detectable change in expression pattern in gas6 mutant embryos
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    Polyomavirus genome and work flow. (A) Polyomavirus genome including origin and polyadenylation sites. Early gene splicing shown in blue. Late gene splicing shown in red. (B) Schematic of read-through of the polyadenylation site during the late phase of infection. Late transcripts must read through the entire viral genome at least once to allow for the late leader exon (L) to splice properly. This results in spliced late mRNAs with at least two tandem repeats of the late leader exon. (C) Work flow of experiments. NIH 3T6 cells were infected with the Py59RA strain of polyomavirus and either harvested at different time points or treated with aphidicolin to block DNA replication and keep the infection in the early phase for 48 hours. Total <t>RNA</t> was collected and used to synthesize stranded cDNA libraries using the Illumina <t>TruSeq</t> Stranded Total RNA Preparation kit. Samples were run on the Hiseq 2000 sequencer and aligned to both the Py59RA and mouse host genomes.
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    Polyomavirus genome and work flow. (A) Polyomavirus genome including origin and polyadenylation sites. Early gene splicing shown in blue. Late gene splicing shown in red. (B) Schematic of read-through of the polyadenylation site during the late phase of infection. Late transcripts must read through the entire viral genome at least once to allow for the late leader exon (L) to splice properly. This results in spliced late mRNAs with at least two tandem repeats of the late leader exon. (C) Work flow of experiments. NIH 3T6 cells were infected with the Py59RA strain of polyomavirus and either harvested at different time points or treated with aphidicolin to block DNA replication and keep the infection in the early phase for 48 hours. Total <t>RNA</t> was collected and used to synthesize stranded cDNA libraries using the Illumina <t>TruSeq</t> Stranded Total RNA Preparation kit. Samples were run on the Hiseq 2000 sequencer and aligned to both the Py59RA and mouse host genomes.
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    Polyomavirus genome and work flow. (A) Polyomavirus genome including origin and polyadenylation sites. Early gene splicing shown in blue. Late gene splicing shown in red. (B) Schematic of read-through of the polyadenylation site during the late phase of infection. Late transcripts must read through the entire viral genome at least once to allow for the late leader exon (L) to splice properly. This results in spliced late mRNAs with at least two tandem repeats of the late leader exon. (C) Work flow of experiments. NIH 3T6 cells were infected with the Py59RA strain of polyomavirus and either harvested at different time points or treated with aphidicolin to block DNA replication and keep the infection in the early phase for 48 hours. Total <t>RNA</t> was collected and used to synthesize stranded cDNA libraries using the Illumina <t>TruSeq</t> Stranded Total RNA Preparation kit. Samples were run on the Hiseq 2000 sequencer and aligned to both the Py59RA and mouse host genomes.
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    a Average percentage of reads mapped to the human transcriptome to <t>RNA</t> biotypes for Illumina <t>TruSeq</t> and BiooScientific NEXTFlex for the plasma samples. The percentages presented here are averaged over the 6 different volumes for each kit respectively. b PCA plot of the plasma samples show clustering of the samples by kit-type and not by input volume. c Number of miRNAs detected at three expression thresholds: > 1 read per million mapped to the genome (RPM), > 10 RPM and > 100 RPM for all the plasma samples for Illumina TruSeq and BiooScientific NEXTFlex
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    a Average percentage of reads mapped to the human transcriptome to <t>RNA</t> biotypes for Illumina <t>TruSeq</t> and BiooScientific NEXTFlex for the plasma samples. The percentages presented here are averaged over the 6 different volumes for each kit respectively. b PCA plot of the plasma samples show clustering of the samples by kit-type and not by input volume. c Number of miRNAs detected at three expression thresholds: > 1 read per million mapped to the genome (RPM), > 10 RPM and > 100 RPM for all the plasma samples for Illumina TruSeq and BiooScientific NEXTFlex
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    a Average percentage of reads mapped to the human transcriptome to <t>RNA</t> biotypes for Illumina <t>TruSeq</t> and BiooScientific NEXTFlex for the plasma samples. The percentages presented here are averaged over the 6 different volumes for each kit respectively. b PCA plot of the plasma samples show clustering of the samples by kit-type and not by input volume. c Number of miRNAs detected at three expression thresholds: > 1 read per million mapped to the genome (RPM), > 10 RPM and > 100 RPM for all the plasma samples for Illumina TruSeq and BiooScientific NEXTFlex
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    a Average percentage of reads mapped to the human transcriptome to <t>RNA</t> biotypes for Illumina <t>TruSeq</t> and BiooScientific NEXTFlex for the plasma samples. The percentages presented here are averaged over the 6 different volumes for each kit respectively. b PCA plot of the plasma samples show clustering of the samples by kit-type and not by input volume. c Number of miRNAs detected at three expression thresholds: > 1 read per million mapped to the genome (RPM), > 10 RPM and > 100 RPM for all the plasma samples for Illumina TruSeq and BiooScientific NEXTFlex
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    a Average percentage of reads mapped to the human transcriptome to <t>RNA</t> biotypes for Illumina <t>TruSeq</t> and BiooScientific NEXTFlex for the plasma samples. The percentages presented here are averaged over the 6 different volumes for each kit respectively. b PCA plot of the plasma samples show clustering of the samples by kit-type and not by input volume. c Number of miRNAs detected at three expression thresholds: > 1 read per million mapped to the genome (RPM), > 10 RPM and > 100 RPM for all the plasma samples for Illumina TruSeq and BiooScientific NEXTFlex
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    Image Search Results


    Boxplot of the coefficients of determination ( R 2 values) of the RNA-seq log fold change values vs TaqMan qPCR measurements. The boxes are coloured by protocol: red for RNA Access, green for Ribo-Zero, and blue for TruSeq. Darker shades indicate boxes for samples to which a more severe degradation protocol was applied

    Journal: BMC Genomics

    Article Title: A comprehensive assessment of RNA-seq protocols for degraded and low-quantity samples

    doi: 10.1186/s12864-017-3827-y

    Figure Lengend Snippet: Boxplot of the coefficients of determination ( R 2 values) of the RNA-seq log fold change values vs TaqMan qPCR measurements. The boxes are coloured by protocol: red for RNA Access, green for Ribo-Zero, and blue for TruSeq. Darker shades indicate boxes for samples to which a more severe degradation protocol was applied

    Article Snippet: Sequencing libraries Poly-A enriched strand-specific libraries were generated with the TruSeq mRNA V2 sample preparation kit (#RS-122-2001, Illumina), ribosomal RNA depleted strand-specific RNA libraries with the TruSeq Stranded Total RNA LT sample preparation kit with Ribo-Zero Gold (#RS-122-2301and (#RS-122-2302, Illumina), and transcriptome capture based libraries with the TruSeq RNA Access Library Prep Kit (#RS-301-2001, Illumina).

    Techniques: RNA Sequencing Assay, Real-time Polymerase Chain Reaction

    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC RNA (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by TruSeq method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.

    Journal: Scientific Reports

    Article Title: Normalization of human RNA-seq experiments using chimpanzee RNA as a spike-in standard

    doi: 10.1038/srep31923

    Figure Lengend Snippet: Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC RNA (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by TruSeq method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.

    Article Snippet: After second strand synthesis using the second strand master mix in the TruSeq RNA Sample Preparation Kit, cDNA was subjected to the library preparation procedure using NexTera DNA Sample Preparation Kit (Illumina).

    Techniques: Expressing, Generated

    Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC RNA (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by TruSeq method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.

    Journal: Scientific Reports

    Article Title: Normalization of human RNA-seq experiments using chimpanzee RNA as a spike-in standard

    doi: 10.1038/srep31923

    Figure Lengend Snippet: Improved comparability across degradation effects and library preparation methods. ( a ) Correlation of unnormalized reads from normally processed iPSC RNA (HICL) and in-process degraded iPSC RNA (HICL_D). Reads for 51,552 loci over the read cutoff of 40 were plotted. ( b ) Correlation of SNV-normalized reads from the HICL and HICL_D samples. ( c ) Agreement of estimates for gene expression in HICL and HICL_D samples estimated by unnormalized reads and SNV-normalized reads. ( d ) Correlation of unnormalized reads generated by TruSeq method (HICL) and NexTera method (HICL_N). Reads for 53,585 loci were plotted. ( e ) Correlation of SNV-normalized reads from the HICL and HICL_N samples. ( f ) Agreement of estimates for gene expression in HICL and HICL_N samples estimated by unnormalized reads and SNV-normalized reads.

    Article Snippet: Preparation of NGS library Normal NGS library was constructed using TruSeq RNA Sample Preparation Kit v2 (Illumina) following the manufacturer’s instruction starting from 2 μg of total RNA.

    Techniques: Expressing, Generated

    Effect of adapter modifications on tagged library population. Libraries were prepped with 1000 ng human brain total RNA and the CleanTag library prep protocol or recommended manufacturers conditions for Illumina and NEB kits. Data analysis performed by TSRI. A) Correlation plot of unmodified adapters and modified CleanTag adapters within the CleanTag library prep. Tagged miRNA are plotted after Log2 transformation. B) Venn diagram of CleanTag kit, Illumina TruSeq kit, and NEBNext kit depicting number of brain miRNA identified in all 3 replicates for each workflow.

    Journal: PLoS ONE

    Article Title: Small RNA Library Preparation Method for Next-Generation Sequencing Using Chemical Modifications to Prevent Adapter Dimer Formation

    doi: 10.1371/journal.pone.0167009

    Figure Lengend Snippet: Effect of adapter modifications on tagged library population. Libraries were prepped with 1000 ng human brain total RNA and the CleanTag library prep protocol or recommended manufacturers conditions for Illumina and NEB kits. Data analysis performed by TSRI. A) Correlation plot of unmodified adapters and modified CleanTag adapters within the CleanTag library prep. Tagged miRNA are plotted after Log2 transformation. B) Venn diagram of CleanTag kit, Illumina TruSeq kit, and NEBNext kit depicting number of brain miRNA identified in all 3 replicates for each workflow.

    Article Snippet: Samples prepared with modified adapters were compared to the TruSeq small RNA Library Preparation Kit (Illumina).

    Techniques: Modification, Transformation Assay

    NGS data comparison between CleanTag and TruSeq Small RNA Library Preparation Kit. Libraries prepared with TruSeq Small RNA Library Preparation Kit or CleanTag workflow with total human brain RNA input and gel purification. Samples sequenced on a HiSeq 2500 SR, 1x 100bp. Human total brain RNA at A) 100 ng, or B) 10 ng input. Data analysis performed using Geneious. Statistical analysis performed with GraphPad-One way ANOVA Turkeys multiple comparison test.

    Journal: PLoS ONE

    Article Title: Small RNA Library Preparation Method for Next-Generation Sequencing Using Chemical Modifications to Prevent Adapter Dimer Formation

    doi: 10.1371/journal.pone.0167009

    Figure Lengend Snippet: NGS data comparison between CleanTag and TruSeq Small RNA Library Preparation Kit. Libraries prepared with TruSeq Small RNA Library Preparation Kit or CleanTag workflow with total human brain RNA input and gel purification. Samples sequenced on a HiSeq 2500 SR, 1x 100bp. Human total brain RNA at A) 100 ng, or B) 10 ng input. Data analysis performed using Geneious. Statistical analysis performed with GraphPad-One way ANOVA Turkeys multiple comparison test.

    Article Snippet: Samples prepared with modified adapters were compared to the TruSeq small RNA Library Preparation Kit (Illumina).

    Techniques: Next-Generation Sequencing, Gel Purification

    Comparison of crude and bead purified libraries using CleanTag or TruSeq small RNA library prep kit. Bioanalyzer traces of libraries prepared using 1000 ng human total brain RNA input. Crude or AMPure XP purified PCR products with A) TruSeq small RNA library preparation kit, or B) CleanTag small RNA library preparation kit.

    Journal: PLoS ONE

    Article Title: Small RNA Library Preparation Method for Next-Generation Sequencing Using Chemical Modifications to Prevent Adapter Dimer Formation

    doi: 10.1371/journal.pone.0167009

    Figure Lengend Snippet: Comparison of crude and bead purified libraries using CleanTag or TruSeq small RNA library prep kit. Bioanalyzer traces of libraries prepared using 1000 ng human total brain RNA input. Crude or AMPure XP purified PCR products with A) TruSeq small RNA library preparation kit, or B) CleanTag small RNA library preparation kit.

    Article Snippet: Samples prepared with modified adapters were compared to the TruSeq small RNA Library Preparation Kit (Illumina).

    Techniques: Purification, Polymerase Chain Reaction

    gas6 may only have subtle roles in caudal hindbrain development. a WT and gas6 mutant embryos were assayed for expression of valentino (r5/r6) (i), hoxb3a (r5-spinal cord) (ii), hoxa3 (r5/r6) (iii), islet1 (cranial nerves)(iv) and dm20 (oligodendrocyte marker) (vi) by ISH, as well as for the presence of OPCs and abducens neurons by crossing to the Tg (olig2:EGFP) vu12 line (v). In column (iv), yellow brackets mark cranial nerve V, blue brackets mark cranial nerve VII and red brackets mark cranial nerve X. White brackets indicate the presence of abducens (cranial nerve VI) in column (v). b Schemes showing RNA-seq library synthesis. Hindbrain tissue was dissected from 48 hpf gas6 mutant embryos in the olig2:eGFP background. Total RNA was collected from pools of hindbrain tissue and was used in library synthesis following the TruSeq Stranded mRNA Library Prep Kit (Illumina) protocol. c 1590 differentially expressed genes were identified from RNA-Seq where 41 out of the 928 up-regulated genes and 78 out of the 662 down-regulated genes were expressed in the hindbrain. GO terms related to Biological Processes were identified in both up-regulated and down-regulated genes using DAVID. d A subset of differentially expressed genes was validated via qPCR from independently collected hindbrain tissue samples. e ISH analysis of representative differentially expressed hindbrain genes (i) neurod6b , (ii) atoh1b and (iii) olig4 show no detectable change in expression pattern in gas6 mutant embryos

    Journal: Neural Development

    Article Title: Analysis of novel caudal hindbrain genes reveals different regulatory logic for gene expression in rhombomere 4 versus 5/6 in embryonic zebrafish

    doi: 10.1186/s13064-018-0112-y

    Figure Lengend Snippet: gas6 may only have subtle roles in caudal hindbrain development. a WT and gas6 mutant embryos were assayed for expression of valentino (r5/r6) (i), hoxb3a (r5-spinal cord) (ii), hoxa3 (r5/r6) (iii), islet1 (cranial nerves)(iv) and dm20 (oligodendrocyte marker) (vi) by ISH, as well as for the presence of OPCs and abducens neurons by crossing to the Tg (olig2:EGFP) vu12 line (v). In column (iv), yellow brackets mark cranial nerve V, blue brackets mark cranial nerve VII and red brackets mark cranial nerve X. White brackets indicate the presence of abducens (cranial nerve VI) in column (v). b Schemes showing RNA-seq library synthesis. Hindbrain tissue was dissected from 48 hpf gas6 mutant embryos in the olig2:eGFP background. Total RNA was collected from pools of hindbrain tissue and was used in library synthesis following the TruSeq Stranded mRNA Library Prep Kit (Illumina) protocol. c 1590 differentially expressed genes were identified from RNA-Seq where 41 out of the 928 up-regulated genes and 78 out of the 662 down-regulated genes were expressed in the hindbrain. GO terms related to Biological Processes were identified in both up-regulated and down-regulated genes using DAVID. d A subset of differentially expressed genes was validated via qPCR from independently collected hindbrain tissue samples. e ISH analysis of representative differentially expressed hindbrain genes (i) neurod6b , (ii) atoh1b and (iii) olig4 show no detectable change in expression pattern in gas6 mutant embryos

    Article Snippet: For each RNA-seq experiment, three libraries were synthesized from 3μg RNA for each WT and mutant sample using the TruSeq Stranded mRNA Library Prep Kit (Illumina).

    Techniques: Mutagenesis, Expressing, Marker, In Situ Hybridization, RNA Sequencing Assay, Real-time Polymerase Chain Reaction

    Polyomavirus genome and work flow. (A) Polyomavirus genome including origin and polyadenylation sites. Early gene splicing shown in blue. Late gene splicing shown in red. (B) Schematic of read-through of the polyadenylation site during the late phase of infection. Late transcripts must read through the entire viral genome at least once to allow for the late leader exon (L) to splice properly. This results in spliced late mRNAs with at least two tandem repeats of the late leader exon. (C) Work flow of experiments. NIH 3T6 cells were infected with the Py59RA strain of polyomavirus and either harvested at different time points or treated with aphidicolin to block DNA replication and keep the infection in the early phase for 48 hours. Total RNA was collected and used to synthesize stranded cDNA libraries using the Illumina TruSeq Stranded Total RNA Preparation kit. Samples were run on the Hiseq 2000 sequencer and aligned to both the Py59RA and mouse host genomes.

    Journal: PLoS Pathogens

    Article Title: Global Analysis of Mouse Polyomavirus Infection Reveals Dynamic Regulation of Viral and Host Gene Expression and Promiscuous Viral RNA Editing

    doi: 10.1371/journal.ppat.1005166

    Figure Lengend Snippet: Polyomavirus genome and work flow. (A) Polyomavirus genome including origin and polyadenylation sites. Early gene splicing shown in blue. Late gene splicing shown in red. (B) Schematic of read-through of the polyadenylation site during the late phase of infection. Late transcripts must read through the entire viral genome at least once to allow for the late leader exon (L) to splice properly. This results in spliced late mRNAs with at least two tandem repeats of the late leader exon. (C) Work flow of experiments. NIH 3T6 cells were infected with the Py59RA strain of polyomavirus and either harvested at different time points or treated with aphidicolin to block DNA replication and keep the infection in the early phase for 48 hours. Total RNA was collected and used to synthesize stranded cDNA libraries using the Illumina TruSeq Stranded Total RNA Preparation kit. Samples were run on the Hiseq 2000 sequencer and aligned to both the Py59RA and mouse host genomes.

    Article Snippet: Total RNA was harvested at 12, 18, 24, and 36-hours post infection from three biological replicates for each condition and was used in the synthesis of stranded cDNA sequencing libraries using the Illumina TruSeq Stranded Total RNA Sample Preparation Kit.

    Techniques: Flow Cytometry, Infection, Blocking Assay

    a Average percentage of reads mapped to the human transcriptome to RNA biotypes for Illumina TruSeq and BiooScientific NEXTFlex for the plasma samples. The percentages presented here are averaged over the 6 different volumes for each kit respectively. b PCA plot of the plasma samples show clustering of the samples by kit-type and not by input volume. c Number of miRNAs detected at three expression thresholds: > 1 read per million mapped to the genome (RPM), > 10 RPM and > 100 RPM for all the plasma samples for Illumina TruSeq and BiooScientific NEXTFlex

    Journal: BMC Genomics

    Article Title: Evaluation of commercially available small RNASeq library preparation kits using low input RNA

    doi: 10.1186/s12864-018-4726-6

    Figure Lengend Snippet: a Average percentage of reads mapped to the human transcriptome to RNA biotypes for Illumina TruSeq and BiooScientific NEXTFlex for the plasma samples. The percentages presented here are averaged over the 6 different volumes for each kit respectively. b PCA plot of the plasma samples show clustering of the samples by kit-type and not by input volume. c Number of miRNAs detected at three expression thresholds: > 1 read per million mapped to the genome (RPM), > 10 RPM and > 100 RPM for all the plasma samples for Illumina TruSeq and BiooScientific NEXTFlex

    Article Snippet: Illumina TruSeq small RNA library preparation Small RNA libraries were generated using Illumina TruSeq Small RNA Sample kit (RS-200-0048; Illumina).

    Techniques: Expressing

    Schematic of study design. Tissue RNA from brain, liver and placenta were sequenced at two sites at two input amounts (1 μg and 10 ng) using three different RNA sequencing kits (Illumina TruSeq, NEB Next and BiooScientific NEXTFlex). RNA from plasma samples at 5 different input volumes (200 μL – 5 mL) were sequenced at Site 1 using only TruSeq and BiooScientific. The green arrow depicts the flow of one of the tissue samples – brain using NEB Next and the red arrows, the plasma samples. The RNASeq results from the tissue samples were then validated using three different platforms (qPCR, EdgeSeq performed by Site1 and Fireplex performed by Site2). For a full list of samples sequenced, please refer to Additional file 1 : Table S1

    Journal: BMC Genomics

    Article Title: Evaluation of commercially available small RNASeq library preparation kits using low input RNA

    doi: 10.1186/s12864-018-4726-6

    Figure Lengend Snippet: Schematic of study design. Tissue RNA from brain, liver and placenta were sequenced at two sites at two input amounts (1 μg and 10 ng) using three different RNA sequencing kits (Illumina TruSeq, NEB Next and BiooScientific NEXTFlex). RNA from plasma samples at 5 different input volumes (200 μL – 5 mL) were sequenced at Site 1 using only TruSeq and BiooScientific. The green arrow depicts the flow of one of the tissue samples – brain using NEB Next and the red arrows, the plasma samples. The RNASeq results from the tissue samples were then validated using three different platforms (qPCR, EdgeSeq performed by Site1 and Fireplex performed by Site2). For a full list of samples sequenced, please refer to Additional file 1 : Table S1

    Article Snippet: Illumina TruSeq small RNA library preparation Small RNA libraries were generated using Illumina TruSeq Small RNA Sample kit (RS-200-0048; Illumina).

    Techniques: RNA Sequencing Assay, Flow Cytometry, Real-time Polymerase Chain Reaction