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  • 99
    New England Biolabs rna seq samples
    Rna Seq Samples, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 8 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/rna seq samples/product/New England Biolabs
    Average 99 stars, based on 8 article reviews
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    99
    New England Biolabs ultra rna libraryprep kit
    Ultra Rna Libraryprep Kit, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 14 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/ultra rna libraryprep kit/product/New England Biolabs
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    99
    New England Biolabs ultra directional rna seq kit
    NAD + -capped <t>RNAs</t> are present in plant tissues/organs. ( A ) Quantitation of NAD + /NADH levels in <t>RNA.</t> ( A , Left ) NAD + /NADH concentrations in negative (5′ pppRNA) and positive (5′ NAD + -RNA) controls that were generated through in vitro transcription. ( A , Right ) NAD + /NADH concentrations in cellular RNAs from 12-d-old seedlings and inflorescences. Concentrations of NAD + /NADH were calculated by dividing the detected value of NAD + /NADH by the amount of RNAs analyzed. Three independent replicates were performed. Error bars represent SD. **** P
    Ultra Directional Rna Seq Kit, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 1261 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/ultra directional rna seq kit/product/New England Biolabs
    Average 99 stars, based on 1261 article reviews
    Price from $9.99 to $1999.99
    ultra directional rna seq kit - by Bioz Stars, 2020-08
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    99
    New England Biolabs rna ultra ii kit
    NAD + -capped <t>RNAs</t> are present in plant tissues/organs. ( A ) Quantitation of NAD + /NADH levels in <t>RNA.</t> ( A , Left ) NAD + /NADH concentrations in negative (5′ pppRNA) and positive (5′ NAD + -RNA) controls that were generated through in vitro transcription. ( A , Right ) NAD + /NADH concentrations in cellular RNAs from 12-d-old seedlings and inflorescences. Concentrations of NAD + /NADH were calculated by dividing the detected value of NAD + /NADH by the amount of RNAs analyzed. Three independent replicates were performed. Error bars represent SD. **** P
    Rna Ultra Ii Kit, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 41 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/rna ultra ii kit/product/New England Biolabs
    Average 99 stars, based on 41 article reviews
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    99
    New England Biolabs neb next ultra directional rna seq
    NAD + -capped <t>RNAs</t> are present in plant tissues/organs. ( A ) Quantitation of NAD + /NADH levels in <t>RNA.</t> ( A , Left ) NAD + /NADH concentrations in negative (5′ pppRNA) and positive (5′ NAD + -RNA) controls that were generated through in vitro transcription. ( A , Right ) NAD + /NADH concentrations in cellular RNAs from 12-d-old seedlings and inflorescences. Concentrations of NAD + /NADH were calculated by dividing the detected value of NAD + /NADH by the amount of RNAs analyzed. Three independent replicates were performed. Error bars represent SD. **** P
    Neb Next Ultra Directional Rna Seq, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    93
    Illumina Inc ultra directional rna library prep kit
    NAD + -capped <t>RNAs</t> are present in plant tissues/organs. ( A ) Quantitation of NAD + /NADH levels in <t>RNA.</t> ( A , Left ) NAD + /NADH concentrations in negative (5′ pppRNA) and positive (5′ NAD + -RNA) controls that were generated through in vitro transcription. ( A , Right ) NAD + /NADH concentrations in cellular RNAs from 12-d-old seedlings and inflorescences. Concentrations of NAD + /NADH were calculated by dividing the detected value of NAD + /NADH by the amount of RNAs analyzed. Three independent replicates were performed. Error bars represent SD. **** P
    Ultra Directional Rna Library Prep Kit, supplied by Illumina Inc, used in various techniques. Bioz Stars score: 93/100, based on 243 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    99
    New England Biolabs ultra ii directional rna seq kit
    NAD + -capped <t>RNAs</t> are present in plant tissues/organs. ( A ) Quantitation of NAD + /NADH levels in <t>RNA.</t> ( A , Left ) NAD + /NADH concentrations in negative (5′ pppRNA) and positive (5′ NAD + -RNA) controls that were generated through in vitro transcription. ( A , Right ) NAD + /NADH concentrations in cellular RNAs from 12-d-old seedlings and inflorescences. Concentrations of NAD + /NADH were calculated by dividing the detected value of NAD + /NADH by the amount of RNAs analyzed. Three independent replicates were performed. Error bars represent SD. **** P
    Ultra Ii Directional Rna Seq Kit, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 4 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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    88
    New England Biolabs strand specific rna seq library preparation
    (A) The top 15 candidate genes from the haploid screen ordered by the number of times the hit was found in the 35 screens, including the number of independent integration sites and the calculated FDR. (B) Significantly enriched pathways among screen hits ranked according to fold enrichment; colours represent FDR in screen analysis. Numbers next to bars indicate number of hit-genes within category, (C) Significantly enriched GO terms among screen hits as in (B) (D) <t>Workflow</t> to generate Cas9 knockouts in RC9 ESCs. (E) Idealized strategy illustrating gRNAs and genotyping primers. (F) Western analysis using indicated KOs and indicated antibodies. Tubulin or Gapdh were used as loading controls, as indicated. (G) Anti-flag specific Westerns in indicated KO rescue ESCs upon stable forced expression of 3xflag rescue cDNAs driven from a CAG promoter. (H) Rex1GFP levels measured by FACS showing restoration of differentiation behaviour in the indicated rescue cell lines at N30. (I) t-SNE visualization of <t>RNA-seq</t> profiles in 2i and at N24 before and after batch correction. (J) GO enrichment analysis of the top 10% of genes (by absolute logFC) that were differentially expressed between 2i and N24 in WT ESCs (FDR ≤ 0.05, H0: |FC|
    Strand Specific Rna Seq Library Preparation, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 88/100, based on 208 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/strand specific rna seq library preparation/product/New England Biolabs
    Average 88 stars, based on 208 article reviews
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    99
    New England Biolabs nebnext ultra directional rna library prep kit for illumina
    (A) The top 15 candidate genes from the haploid screen ordered by the number of times the hit was found in the 35 screens, including the number of independent integration sites and the calculated FDR. (B) Significantly enriched pathways among screen hits ranked according to fold enrichment; colours represent FDR in screen analysis. Numbers next to bars indicate number of hit-genes within category, (C) Significantly enriched GO terms among screen hits as in (B) (D) <t>Workflow</t> to generate Cas9 knockouts in RC9 ESCs. (E) Idealized strategy illustrating gRNAs and genotyping primers. (F) Western analysis using indicated KOs and indicated antibodies. Tubulin or Gapdh were used as loading controls, as indicated. (G) Anti-flag specific Westerns in indicated KO rescue ESCs upon stable forced expression of 3xflag rescue cDNAs driven from a CAG promoter. (H) Rex1GFP levels measured by FACS showing restoration of differentiation behaviour in the indicated rescue cell lines at N30. (I) t-SNE visualization of <t>RNA-seq</t> profiles in 2i and at N24 before and after batch correction. (J) GO enrichment analysis of the top 10% of genes (by absolute logFC) that were differentially expressed between 2i and N24 in WT ESCs (FDR ≤ 0.05, H0: |FC|
    Nebnext Ultra Directional Rna Library Prep Kit For Illumina, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 3284 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/nebnext ultra directional rna library prep kit for illumina/product/New England Biolabs
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    Image Search Results


    NAD + -capped RNAs are present in plant tissues/organs. ( A ) Quantitation of NAD + /NADH levels in RNA. ( A , Left ) NAD + /NADH concentrations in negative (5′ pppRNA) and positive (5′ NAD + -RNA) controls that were generated through in vitro transcription. ( A , Right ) NAD + /NADH concentrations in cellular RNAs from 12-d-old seedlings and inflorescences. Concentrations of NAD + /NADH were calculated by dividing the detected value of NAD + /NADH by the amount of RNAs analyzed. Three independent replicates were performed. Error bars represent SD. **** P

    Journal: Proceedings of the National Academy of Sciences of the United States of America

    Article Title: NAD+-capped RNAs are widespread in the Arabidopsis transcriptome and can probably be translated

    doi: 10.1073/pnas.1903682116

    Figure Lengend Snippet: NAD + -capped RNAs are present in plant tissues/organs. ( A ) Quantitation of NAD + /NADH levels in RNA. ( A , Left ) NAD + /NADH concentrations in negative (5′ pppRNA) and positive (5′ NAD + -RNA) controls that were generated through in vitro transcription. ( A , Right ) NAD + /NADH concentrations in cellular RNAs from 12-d-old seedlings and inflorescences. Concentrations of NAD + /NADH were calculated by dividing the detected value of NAD + /NADH by the amount of RNAs analyzed. Three independent replicates were performed. Error bars represent SD. **** P

    Article Snippet: The same batch of RNAs was also used for RNA-seq library preparation using the NEBNext Ultra Directional RNA Library Prep Kit for Illumina (E7420; New England Biolabs).

    Techniques: Quantitation Assay, Generated, In Vitro

    NAD-RNAs are poly(A) RNAs. ( A ) RNA gel blot assay to detect NAD-RNAs and non–NAD-RNAs derived from RBCS1B/2B/3B genes. NAD-RNAs (labeled as “N”) were isolated by NAD capture with streptavidin beads, while RNAs in the supernatant were considered as non–NAD-RNAs (indicated as “n”). One-fifth of non–NAD-RNAs in the supernatant were resolved in an agarose gel together with all captured NAD-RNAs. The intensities of bands were measured by ImageJ. The bar plot on the Right shows the relative signal intensities (N vs. n) from 5 independent replicates (after correcting for differences in loading). Error bars represent SD. Dots indicate the values of the 5 replicates. ( B ) Quantification of transcript levels in ADPRC+ vs. ADPRC− samples from seedlings by qRT-PCR. From left to right are 6 nuclear genes, 6 mitochondrial genes, 2 chloroplast genes, 2 rRNAs, and 2 snoRNAs. ( C ) Detection of NAD + -capped poly(A) RNAs by qRT-PCR. After NAD capture from total RNAs, NAD-RNAs were eluted from beads, reverse transcribed by either oligo (dT) (“OligodT ADPRC+/−”) or random primers (“Random ADPRC+/−”), and then detected with gene-specific primers. For B and C , qRT-PCR values were normalized to those of the ADPRC− samples, which were arbitrarily set to 1. Two biological replicates were performed, each with 3 technical replicates. Error bars represent SD. ( D ) Comparison of signal intensity (ADPRC+/ADPRC− ratio) in NAD captureSeq from total RNAs and that from poly(A) RNAs.

    Journal: Proceedings of the National Academy of Sciences of the United States of America

    Article Title: NAD+-capped RNAs are widespread in the Arabidopsis transcriptome and can probably be translated

    doi: 10.1073/pnas.1903682116

    Figure Lengend Snippet: NAD-RNAs are poly(A) RNAs. ( A ) RNA gel blot assay to detect NAD-RNAs and non–NAD-RNAs derived from RBCS1B/2B/3B genes. NAD-RNAs (labeled as “N”) were isolated by NAD capture with streptavidin beads, while RNAs in the supernatant were considered as non–NAD-RNAs (indicated as “n”). One-fifth of non–NAD-RNAs in the supernatant were resolved in an agarose gel together with all captured NAD-RNAs. The intensities of bands were measured by ImageJ. The bar plot on the Right shows the relative signal intensities (N vs. n) from 5 independent replicates (after correcting for differences in loading). Error bars represent SD. Dots indicate the values of the 5 replicates. ( B ) Quantification of transcript levels in ADPRC+ vs. ADPRC− samples from seedlings by qRT-PCR. From left to right are 6 nuclear genes, 6 mitochondrial genes, 2 chloroplast genes, 2 rRNAs, and 2 snoRNAs. ( C ) Detection of NAD + -capped poly(A) RNAs by qRT-PCR. After NAD capture from total RNAs, NAD-RNAs were eluted from beads, reverse transcribed by either oligo (dT) (“OligodT ADPRC+/−”) or random primers (“Random ADPRC+/−”), and then detected with gene-specific primers. For B and C , qRT-PCR values were normalized to those of the ADPRC− samples, which were arbitrarily set to 1. Two biological replicates were performed, each with 3 technical replicates. Error bars represent SD. ( D ) Comparison of signal intensity (ADPRC+/ADPRC− ratio) in NAD captureSeq from total RNAs and that from poly(A) RNAs.

    Article Snippet: The same batch of RNAs was also used for RNA-seq library preparation using the NEBNext Ultra Directional RNA Library Prep Kit for Illumina (E7420; New England Biolabs).

    Techniques: Western Blot, Derivative Assay, Labeling, Isolation, Agarose Gel Electrophoresis, Quantitative RT-PCR

    Puromycin treatment leads to the dissociation of NAD-RNAs from polysomes. ( A ) RNA gel blot assays showing the enrichment of NAD-RNAs in the polysomal fraction. NAD capture was performed with total RNAs or polysomal RNAs, and NAD-RNAs (on beads; labeled as “N”) and non–NAD-RNAs (in supernatant; labeled as “n”; one-fifth of supernatant RNAs were loaded) were resolved in a gel. Hybridization was performed with a probe common to RBCS1B/2B/3B genes. Signal intensity of the bands was measured by ImageJ. Levels of non–NAD-RNAs in total extract and polysomes were arbitrarily set as 1, and the relative abundance of NAD-RNAs is indicated by the numbers. The numbers reflected the N/n ratio without correction for the differences in loading. Note that the “ADPRC−” samples (lanes 4 and 7) had little background, which demonstrated the specificity of NAD capture. Two biological replicates were performed and gave similar results. ( B ) Quantification of transcript levels in ADPRC+ vs. ADPRC− samples by qRT-PCR. NAD capture was performed with total or polysomal RNAs. qRT-PCR values were normalized to those of the ADPRC− samples, which were arbitrarily set to 1. Two biological replicates, each with 3 technical replicates, were performed. Error bars represent SD. *** P

    Journal: Proceedings of the National Academy of Sciences of the United States of America

    Article Title: NAD+-capped RNAs are widespread in the Arabidopsis transcriptome and can probably be translated

    doi: 10.1073/pnas.1903682116

    Figure Lengend Snippet: Puromycin treatment leads to the dissociation of NAD-RNAs from polysomes. ( A ) RNA gel blot assays showing the enrichment of NAD-RNAs in the polysomal fraction. NAD capture was performed with total RNAs or polysomal RNAs, and NAD-RNAs (on beads; labeled as “N”) and non–NAD-RNAs (in supernatant; labeled as “n”; one-fifth of supernatant RNAs were loaded) were resolved in a gel. Hybridization was performed with a probe common to RBCS1B/2B/3B genes. Signal intensity of the bands was measured by ImageJ. Levels of non–NAD-RNAs in total extract and polysomes were arbitrarily set as 1, and the relative abundance of NAD-RNAs is indicated by the numbers. The numbers reflected the N/n ratio without correction for the differences in loading. Note that the “ADPRC−” samples (lanes 4 and 7) had little background, which demonstrated the specificity of NAD capture. Two biological replicates were performed and gave similar results. ( B ) Quantification of transcript levels in ADPRC+ vs. ADPRC− samples by qRT-PCR. NAD capture was performed with total or polysomal RNAs. qRT-PCR values were normalized to those of the ADPRC− samples, which were arbitrarily set to 1. Two biological replicates, each with 3 technical replicates, were performed. Error bars represent SD. *** P

    Article Snippet: The same batch of RNAs was also used for RNA-seq library preparation using the NEBNext Ultra Directional RNA Library Prep Kit for Illumina (E7420; New England Biolabs).

    Techniques: Western Blot, Labeling, Hybridization, Quantitative RT-PCR

    NAD-RNAs are enriched on polysomes. ( A and B ) Scatter plots showing transcript abundance in ADPRC+ vs. ADPRC− samples in NAD captureSeq from total RNAs ( A ) and polysomal RNAs ( B ). Green dots indicate NAD-RNAs; black dots indicate non–NAD-RNAs. “All” represents all expressed genes; “NAD” represents genes producing NAD-RNAs. ( C ) Comparison of signal/noise ratios (ADPRC+/ADPRC− ratios) between total RNA and polysomal RNA NAD captureSeq. Genes that were found to produce NAD-RNAs in either total RNAs or polysomal RNAs were included. ( D ) Comparison of mRNA abundance between total RNA and polysomal RNA samples by mRNA-seq. Blue dots represent PEGs, and green dots show PDGs. ( E and F ) Comparison of signal/noise ratios (ADPRC+/ADPRC− ratios) between total RNA and polysomal RNA NAD captureSeq for PEGs ( E ) and PDGs ( F ).

    Journal: Proceedings of the National Academy of Sciences of the United States of America

    Article Title: NAD+-capped RNAs are widespread in the Arabidopsis transcriptome and can probably be translated

    doi: 10.1073/pnas.1903682116

    Figure Lengend Snippet: NAD-RNAs are enriched on polysomes. ( A and B ) Scatter plots showing transcript abundance in ADPRC+ vs. ADPRC− samples in NAD captureSeq from total RNAs ( A ) and polysomal RNAs ( B ). Green dots indicate NAD-RNAs; black dots indicate non–NAD-RNAs. “All” represents all expressed genes; “NAD” represents genes producing NAD-RNAs. ( C ) Comparison of signal/noise ratios (ADPRC+/ADPRC− ratios) between total RNA and polysomal RNA NAD captureSeq. Genes that were found to produce NAD-RNAs in either total RNAs or polysomal RNAs were included. ( D ) Comparison of mRNA abundance between total RNA and polysomal RNA samples by mRNA-seq. Blue dots represent PEGs, and green dots show PDGs. ( E and F ) Comparison of signal/noise ratios (ADPRC+/ADPRC− ratios) between total RNA and polysomal RNA NAD captureSeq for PEGs ( E ) and PDGs ( F ).

    Article Snippet: The same batch of RNAs was also used for RNA-seq library preparation using the NEBNext Ultra Directional RNA Library Prep Kit for Illumina (E7420; New England Biolabs).

    Techniques:

    (A) The top 15 candidate genes from the haploid screen ordered by the number of times the hit was found in the 35 screens, including the number of independent integration sites and the calculated FDR. (B) Significantly enriched pathways among screen hits ranked according to fold enrichment; colours represent FDR in screen analysis. Numbers next to bars indicate number of hit-genes within category, (C) Significantly enriched GO terms among screen hits as in (B) (D) Workflow to generate Cas9 knockouts in RC9 ESCs. (E) Idealized strategy illustrating gRNAs and genotyping primers. (F) Western analysis using indicated KOs and indicated antibodies. Tubulin or Gapdh were used as loading controls, as indicated. (G) Anti-flag specific Westerns in indicated KO rescue ESCs upon stable forced expression of 3xflag rescue cDNAs driven from a CAG promoter. (H) Rex1GFP levels measured by FACS showing restoration of differentiation behaviour in the indicated rescue cell lines at N30. (I) t-SNE visualization of RNA-seq profiles in 2i and at N24 before and after batch correction. (J) GO enrichment analysis of the top 10% of genes (by absolute logFC) that were differentially expressed between 2i and N24 in WT ESCs (FDR ≤ 0.05, H0: |FC|

    Journal: bioRxiv

    Article Title: Cooperative molecular networks drive a mammalian cell state transition

    doi: 10.1101/2020.03.23.000109

    Figure Lengend Snippet: (A) The top 15 candidate genes from the haploid screen ordered by the number of times the hit was found in the 35 screens, including the number of independent integration sites and the calculated FDR. (B) Significantly enriched pathways among screen hits ranked according to fold enrichment; colours represent FDR in screen analysis. Numbers next to bars indicate number of hit-genes within category, (C) Significantly enriched GO terms among screen hits as in (B) (D) Workflow to generate Cas9 knockouts in RC9 ESCs. (E) Idealized strategy illustrating gRNAs and genotyping primers. (F) Western analysis using indicated KOs and indicated antibodies. Tubulin or Gapdh were used as loading controls, as indicated. (G) Anti-flag specific Westerns in indicated KO rescue ESCs upon stable forced expression of 3xflag rescue cDNAs driven from a CAG promoter. (H) Rex1GFP levels measured by FACS showing restoration of differentiation behaviour in the indicated rescue cell lines at N30. (I) t-SNE visualization of RNA-seq profiles in 2i and at N24 before and after batch correction. (J) GO enrichment analysis of the top 10% of genes (by absolute logFC) that were differentially expressed between 2i and N24 in WT ESCs (FDR ≤ 0.05, H0: |FC|

    Article Snippet: After chemical fragmentation by incubating for 15 min at 94°C the sample was directly subjected to the workflow for strand specific RNA-Seq library preparation (Ultra Directional RNA Library Prep, NEB).

    Techniques: Western Blot, Expressing, FACS, RNA Sequencing Assay