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  • 99
    New England Biolabs nebnext kit
    Whole transcriptome profiling of serially diluted Human Brain Reference <t>RNA</t> with ERCC control RNAs. ( A ) Amplification products for 5 ng, 500 pg, 50 pg, 10 pg and 0 pg input RNA. The number of PCR cycles is indicated. ( B ) qPCR for Gapdh on pre-amplified cDNA (0 cycles) and on purified PCR products. Data are mean crossing points with standard deviation. Ct, crossing point. ( C ) Libraries for high-throughput sequencing. L, pooled libraries. ( D ) Correlation analysis of technical replicates for genes with FPKM ≥ 0.001. Pearson r and Spearman rs correlation coefficients are indicated. ( E ) Correlation analysis of ERCC control RNAs. Pearson r and Spearman rs correlation coefficients of the FPKM values are shown for each comparison. ( F ) Scatter plots showing the FPKM level of each ERCC control RNA relative to its calculated number of molecules.
    Nebnext Kit, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 3045 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/nebnext kit/product/New England Biolabs
    Average 99 stars, based on 3045 article reviews
    Price from $9.99 to $1999.99
    nebnext kit - by Bioz Stars, 2020-07
    99/100 stars
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    85
    Intel xeon 6 core e7530 processors
    Whole transcriptome profiling of serially diluted Human Brain Reference <t>RNA</t> with ERCC control RNAs. ( A ) Amplification products for 5 ng, 500 pg, 50 pg, 10 pg and 0 pg input RNA. The number of PCR cycles is indicated. ( B ) qPCR for Gapdh on pre-amplified cDNA (0 cycles) and on purified PCR products. Data are mean crossing points with standard deviation. Ct, crossing point. ( C ) Libraries for high-throughput sequencing. L, pooled libraries. ( D ) Correlation analysis of technical replicates for genes with FPKM ≥ 0.001. Pearson r and Spearman rs correlation coefficients are indicated. ( E ) Correlation analysis of ERCC control RNAs. Pearson r and Spearman rs correlation coefficients of the FPKM values are shown for each comparison. ( F ) Scatter plots showing the FPKM level of each ERCC control RNA relative to its calculated number of molecules.
    Xeon 6 Core E7530 Processors, supplied by Intel, used in various techniques. Bioz Stars score: 85/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/xeon 6 core e7530 processors/product/Intel
    Average 85 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    xeon 6 core e7530 processors - by Bioz Stars, 2020-07
    85/100 stars
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    Image Search Results


    Whole transcriptome profiling of serially diluted Human Brain Reference RNA with ERCC control RNAs. ( A ) Amplification products for 5 ng, 500 pg, 50 pg, 10 pg and 0 pg input RNA. The number of PCR cycles is indicated. ( B ) qPCR for Gapdh on pre-amplified cDNA (0 cycles) and on purified PCR products. Data are mean crossing points with standard deviation. Ct, crossing point. ( C ) Libraries for high-throughput sequencing. L, pooled libraries. ( D ) Correlation analysis of technical replicates for genes with FPKM ≥ 0.001. Pearson r and Spearman rs correlation coefficients are indicated. ( E ) Correlation analysis of ERCC control RNAs. Pearson r and Spearman rs correlation coefficients of the FPKM values are shown for each comparison. ( F ) Scatter plots showing the FPKM level of each ERCC control RNA relative to its calculated number of molecules.

    Journal: Nucleic Acids Research

    Article Title: Whole transcriptome profiling reveals the RNA content of motor axons

    doi: 10.1093/nar/gkv1027

    Figure Lengend Snippet: Whole transcriptome profiling of serially diluted Human Brain Reference RNA with ERCC control RNAs. ( A ) Amplification products for 5 ng, 500 pg, 50 pg, 10 pg and 0 pg input RNA. The number of PCR cycles is indicated. ( B ) qPCR for Gapdh on pre-amplified cDNA (0 cycles) and on purified PCR products. Data are mean crossing points with standard deviation. Ct, crossing point. ( C ) Libraries for high-throughput sequencing. L, pooled libraries. ( D ) Correlation analysis of technical replicates for genes with FPKM ≥ 0.001. Pearson r and Spearman rs correlation coefficients are indicated. ( E ) Correlation analysis of ERCC control RNAs. Pearson r and Spearman rs correlation coefficients of the FPKM values are shown for each comparison. ( F ) Scatter plots showing the FPKM level of each ERCC control RNA relative to its calculated number of molecules.

    Article Snippet: Preparation of total RNAseq libraries Three replicate total RNAseq libraries from 5 ng HBRR input each were prepared using the NEBNext Ultra RNA Library Kit for Illumina (NEB) with omission of the mRNA isolation step.

    Techniques: Amplification, Polymerase Chain Reaction, Real-time Polymerase Chain Reaction, Purification, Standard Deviation, Next-Generation Sequencing

    161-MAP vaccination alters the transcriptome. (A) Total RNA was extracted from CT26 s.c. tumors of Scr-MAP and 161-MAP vaccinated mice at day 26 ( n = 3 each), and RNAseq data were obtained as described in the methods. Functional gene networks were derived from significantly differentially expressed genes (DEG, p -adj

    Journal: Oncoimmunology

    Article Title: Inhibition of tumor growth and metastasis by EMMPRIN multiple antigenic peptide (MAP) vaccination is mediated by immune modulation

    doi: 10.1080/2162402X.2016.1261778

    Figure Lengend Snippet: 161-MAP vaccination alters the transcriptome. (A) Total RNA was extracted from CT26 s.c. tumors of Scr-MAP and 161-MAP vaccinated mice at day 26 ( n = 3 each), and RNAseq data were obtained as described in the methods. Functional gene networks were derived from significantly differentially expressed genes (DEG, p -adj

    Article Snippet: Six RNAseq libraries (NEBNext® Ultra™ RNA Library Prep Kit for Illumina, cat no. E7530) were produced according to manufacturer protocol using 800 ng total RNA. mRNAs pull-up was performed using Magnetic Isolation Module (NEB, cat no. E7490).

    Techniques: Mouse Assay, Functional Assay, Derivative Assay

    Several euchromatin markers are enriched at HBV cccDNA, and suppression of HBx-mRNA expression via FANA antisense oligonucleotides leads to a reduction in episomal HBV DNA in HepG2.2.15 cells. a This figure outlines (from top to bottom) RNA-seq data for cccDNA mRNA transcription (consensus data from HepaRG, HepG2.2.15 and HepG2 H1.3), as well as ChIP-seq derived enrichment of Pol2 (dark blue tracks), H3K4me3 (cyan), H3K36me3 (green), H3K27me3 (red) and HBx (gray). Enrichment peaks are indicated at the top, and read coverage is presented below. Results from RNA-seq suggest that remarkable amounts of mRNA are synthesized from ORF S and ORF X. ChIP-seq reveals that in these cells ‘active’ transcription markers, such as Pol2 and H3K4me3, are enriched at HBV cccDNA. The highest amount of H3K36me3 seemed to be present at the 3′-ends of ORF S and ORF X, whereas comparably low amounts of H3K27me3 were associated with cccDNA. b This diagram presents the localization of ORFs, CpG islands (major CpG islands: I–III; minor CpG islands not detected in all genotypes: IV–VI) and the GC content (adapted from Hensel et al. [ 66 ]). c This figure outlines a time course of episomal HBV DNA quantification by PCR in HepG2.2.15 cells under the influence of FANA oligonucleotide treatment targeting HBx-mRNA. Specifically, two different oligos (HBx-oligo1/HBx-oligo2) or an oligo mixture (HBx-oligo-mix) was used to suppress HBx-mRNA. For normalization, we performed similar experiments where a scrambled non-sense FANA oligonucleotide was used. This figure demonstrates the increasing attenuation of HBV DNA over time under the influence of FANA oligonucleotide anti-HBx treatment

    Journal: Epigenetics & Chromatin

    Article Title: Episomal HBV persistence within transcribed host nuclear chromatin compartments involves HBx

    doi: 10.1186/s13072-018-0204-2

    Figure Lengend Snippet: Several euchromatin markers are enriched at HBV cccDNA, and suppression of HBx-mRNA expression via FANA antisense oligonucleotides leads to a reduction in episomal HBV DNA in HepG2.2.15 cells. a This figure outlines (from top to bottom) RNA-seq data for cccDNA mRNA transcription (consensus data from HepaRG, HepG2.2.15 and HepG2 H1.3), as well as ChIP-seq derived enrichment of Pol2 (dark blue tracks), H3K4me3 (cyan), H3K36me3 (green), H3K27me3 (red) and HBx (gray). Enrichment peaks are indicated at the top, and read coverage is presented below. Results from RNA-seq suggest that remarkable amounts of mRNA are synthesized from ORF S and ORF X. ChIP-seq reveals that in these cells ‘active’ transcription markers, such as Pol2 and H3K4me3, are enriched at HBV cccDNA. The highest amount of H3K36me3 seemed to be present at the 3′-ends of ORF S and ORF X, whereas comparably low amounts of H3K27me3 were associated with cccDNA. b This diagram presents the localization of ORFs, CpG islands (major CpG islands: I–III; minor CpG islands not detected in all genotypes: IV–VI) and the GC content (adapted from Hensel et al. [ 66 ]). c This figure outlines a time course of episomal HBV DNA quantification by PCR in HepG2.2.15 cells under the influence of FANA oligonucleotide treatment targeting HBx-mRNA. Specifically, two different oligos (HBx-oligo1/HBx-oligo2) or an oligo mixture (HBx-oligo-mix) was used to suppress HBx-mRNA. For normalization, we performed similar experiments where a scrambled non-sense FANA oligonucleotide was used. This figure demonstrates the increasing attenuation of HBV DNA over time under the influence of FANA oligonucleotide anti-HBx treatment

    Article Snippet: For mRNA enrichment, we used the NEBNext Poly(A) mRNA Magnetic Isolation Module (NEB) and then the NEBNext Ultra RNA Kit (NEB) for Illumina-compatible library preparation upon manufacturer’s recommendations.

    Techniques: Expressing, RNA Sequencing Assay, Chromatin Immunoprecipitation, Derivative Assay, Synthesized, Polymerase Chain Reaction