nebnext end repair module  (New England Biolabs)


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  • 99
    Name:
    NEBNext End Repair Module
    Description:
    NEBNext End Repair Module 100 rxns
    Catalog Number:
    e6050l
    Price:
    354
    Size:
    100 rxns
    Category:
    DNA Template Preparation for PCR
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    Structured Review

    New England Biolabs nebnext end repair module
    NEBNext End Repair Module
    NEBNext End Repair Module 100 rxns
    https://www.bioz.com/result/nebnext end repair module/product/New England Biolabs
    Average 99 stars, based on 17 article reviews
    Price from $9.99 to $1999.99
    nebnext end repair module - by Bioz Stars, 2020-08
    99/100 stars

    Images

    1) Product Images from "Stable Patterns of CENH3 Occupancy Through Maize Lineages Containing Genetically Similar Centromeres"

    Article Title: Stable Patterns of CENH3 Occupancy Through Maize Lineages Containing Genetically Similar Centromeres

    Journal: Genetics

    doi: 10.1534/genetics.115.177360

    Genes and repetitive DNA in centromeres. (A) Overlap between CENH3 enrichment and genetic elements. Within the centromere, we assigned each 20-kb locus into one of two categories, “low CENH3 loci” and “high CENH3 loci,” based on whether it exhibited less than or greater than the median CENH3 enrichment. Results are shown for three methods of measuring CENH3 enrichment. The first two are relative to a total nucleosome control produced by MNase digestion of total chromatin and relative to a randomly sheared naked DNA control produced by NEBNext dsDNA Fragmentase ( Gent et al. 2014 ). In both cases, only uniquely mapping reads were considered. In the third method, no control was used, and enrichment was defined by raw read counts, including nonuniquely mapping reads. Errors bars are standard errors of the means for each set of loci. (B) Comparison of genetic elements in centromeric 20-kb loci and whole-genome 20-kb loci, but without regard to relative CENH3 enrichment within centromeres
    Figure Legend Snippet: Genes and repetitive DNA in centromeres. (A) Overlap between CENH3 enrichment and genetic elements. Within the centromere, we assigned each 20-kb locus into one of two categories, “low CENH3 loci” and “high CENH3 loci,” based on whether it exhibited less than or greater than the median CENH3 enrichment. Results are shown for three methods of measuring CENH3 enrichment. The first two are relative to a total nucleosome control produced by MNase digestion of total chromatin and relative to a randomly sheared naked DNA control produced by NEBNext dsDNA Fragmentase ( Gent et al. 2014 ). In both cases, only uniquely mapping reads were considered. In the third method, no control was used, and enrichment was defined by raw read counts, including nonuniquely mapping reads. Errors bars are standard errors of the means for each set of loci. (B) Comparison of genetic elements in centromeric 20-kb loci and whole-genome 20-kb loci, but without regard to relative CENH3 enrichment within centromeres

    Techniques Used: Produced

    Related Articles

    Sample Prep:

    Article Title: Early Feeding Regime of Waste Milk, Milk, and Milk Replacer for Calves Has Different Effects on Rumen Fermentation and the Bacterial Community
    Article Snippet: .. Illumina paired-end sequencing libraries were constructed using the NEBNext DNA sample preparation kit (New England Biolabs, USA). .. Sequencing of amplified bacterial 16S rRNA gene fragments was performed using an IlluminaHiSeq2500 platform (Novogene Bioinformatics Technology Co., Ltd., Beijing, China).

    Ligation:

    Article Title: Multifunctional role of the transcription factor Blimp1 in coordinating plasma cell differentiation
    Article Snippet: .. About 1-5 ng of cDNA or ChIP-precipitated DNA were used as starting material for the generation of sequencing libraries with the NEBNext Quick Ligation Module, NEBNext Endrepair Module and NEBNext dA-Tailing module or NEBNext Ultra Ligation Module and NEBNext End Repair/dA-Tailing module. .. DNA fragments of the following sizes were selected for the different experiments: 200–500 bp for ChIP-seq and 150–700 bp for RNA-seq with AMPure XP beads (Beckman Coulter).

    Ethanol Precipitation:

    Article Title: Structural toggle in the RNaseH domain of Prp8 helps balance splicing fidelity and catalytic efficiency
    Article Snippet: .. To 85 μL of double-stranded cDNA from the previous step, 10 μL of 10× NEBNext End Repair Reaction Buffer (500 mM Tris⋅HCl, pH 7.5, 100 mM MgCl2 , 100 mM DTT, 10 mM ATP, and 4 mM dNTPs) and 5 μL of NEBNext End Repair Enzyme Mix (NEB End Repair Module) were added and the reaction was incubated at room temperature for 30 min. Cleanup was then done with phenol-chloroform extraction and ethanol precipitation. ..

    Next-Generation Sequencing:

    Article Title: The Identification of a 1916 Irish Rebel: New Approach for Estimating Relatedness From Low Coverage Homozygous Genomes
    Article Snippet: .. DNA Library Preparation Libraries for next-generation sequencing were built for all three DNA extracts using a modified version of ref. as outlined in ref. , where blunt end repair was performed using NEBNext End-Repair (New England Biolabs Inc.) and Bst was inactivated by heat (20 minutes at 80 °C). .. Thomas Kent’s DNA library was prepared in a dedicated ancient DNA lab whereas the libraries for the DNA of two modern relatives were prepared in a modern DNA lab in UCD Earth Institute’s Area 52.

    Construct:

    Article Title: Early Feeding Regime of Waste Milk, Milk, and Milk Replacer for Calves Has Different Effects on Rumen Fermentation and the Bacterial Community
    Article Snippet: .. Illumina paired-end sequencing libraries were constructed using the NEBNext DNA sample preparation kit (New England Biolabs, USA). .. Sequencing of amplified bacterial 16S rRNA gene fragments was performed using an IlluminaHiSeq2500 platform (Novogene Bioinformatics Technology Co., Ltd., Beijing, China).

    Purification:

    Article Title: Mapping the micro-proteome of the nuclear lamina and lamin associated domains
    Article Snippet: .. Specifically, 0.5-5 μg of column purified DamID material (from above) was end-repaired using the NEBNext End Repair Module (NEB E6050S) following manufacturer’s recommendations. .. After purification using the QIAquick PCR Purification Kit (Qiagen, 28104), 1μg of this material was then ligated in a volume of 20 μL with 1μl of T4 DNA ligase (Roche, 10799009001) at 16°C to generate a randomized library of large fragments.

    Sequencing:

    Article Title: Early Feeding Regime of Waste Milk, Milk, and Milk Replacer for Calves Has Different Effects on Rumen Fermentation and the Bacterial Community
    Article Snippet: .. Illumina paired-end sequencing libraries were constructed using the NEBNext DNA sample preparation kit (New England Biolabs, USA). .. Sequencing of amplified bacterial 16S rRNA gene fragments was performed using an IlluminaHiSeq2500 platform (Novogene Bioinformatics Technology Co., Ltd., Beijing, China).

    Article Title: Multifunctional role of the transcription factor Blimp1 in coordinating plasma cell differentiation
    Article Snippet: .. About 1-5 ng of cDNA or ChIP-precipitated DNA were used as starting material for the generation of sequencing libraries with the NEBNext Quick Ligation Module, NEBNext Endrepair Module and NEBNext dA-Tailing module or NEBNext Ultra Ligation Module and NEBNext End Repair/dA-Tailing module. .. DNA fragments of the following sizes were selected for the different experiments: 200–500 bp for ChIP-seq and 150–700 bp for RNA-seq with AMPure XP beads (Beckman Coulter).

    Incubation:

    Article Title: Structural toggle in the RNaseH domain of Prp8 helps balance splicing fidelity and catalytic efficiency
    Article Snippet: .. To 85 μL of double-stranded cDNA from the previous step, 10 μL of 10× NEBNext End Repair Reaction Buffer (500 mM Tris⋅HCl, pH 7.5, 100 mM MgCl2 , 100 mM DTT, 10 mM ATP, and 4 mM dNTPs) and 5 μL of NEBNext End Repair Enzyme Mix (NEB End Repair Module) were added and the reaction was incubated at room temperature for 30 min. Cleanup was then done with phenol-chloroform extraction and ethanol precipitation. ..

    Article Title: Sequencing and phasing cancer mutations in lung cancers using a long-read portable sequencer
    Article Snippet: .. For the end-repair, the template was incubated at 20 °C for 20 min with 10 μl End-repair buffer and 5 μl End-repair enzyme mix (NEBNext End Repair Module, New England Biolabs). .. The template was purified using 100 μl Agencourt AMPure XP beads (Beckman Coulter, Inc.) and eluted into 25 μl H2 O.

    Modification:

    Article Title: The Identification of a 1916 Irish Rebel: New Approach for Estimating Relatedness From Low Coverage Homozygous Genomes
    Article Snippet: .. DNA Library Preparation Libraries for next-generation sequencing were built for all three DNA extracts using a modified version of ref. as outlined in ref. , where blunt end repair was performed using NEBNext End-Repair (New England Biolabs Inc.) and Bst was inactivated by heat (20 minutes at 80 °C). .. Thomas Kent’s DNA library was prepared in a dedicated ancient DNA lab whereas the libraries for the DNA of two modern relatives were prepared in a modern DNA lab in UCD Earth Institute’s Area 52.

    Chromatin Immunoprecipitation:

    Article Title: Multifunctional role of the transcription factor Blimp1 in coordinating plasma cell differentiation
    Article Snippet: .. About 1-5 ng of cDNA or ChIP-precipitated DNA were used as starting material for the generation of sequencing libraries with the NEBNext Quick Ligation Module, NEBNext Endrepair Module and NEBNext dA-Tailing module or NEBNext Ultra Ligation Module and NEBNext End Repair/dA-Tailing module. .. DNA fragments of the following sizes were selected for the different experiments: 200–500 bp for ChIP-seq and 150–700 bp for RNA-seq with AMPure XP beads (Beckman Coulter).

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  • 99
    New England Biolabs nebnext end repair module
    Genes and repetitive DNA in centromeres. (A) Overlap between CENH3 enrichment and genetic elements. Within the centromere, we assigned each 20-kb locus into one of two categories, “low CENH3 loci” and “high CENH3 loci,” based on whether it exhibited less than or greater than the median CENH3 enrichment. Results are shown for three methods of measuring CENH3 enrichment. The first two are relative to a total nucleosome control produced by MNase digestion of total chromatin and relative to a randomly sheared naked DNA control produced by <t>NEBNext</t> dsDNA Fragmentase ( Gent et al. 2014 ). In both cases, only uniquely mapping reads were considered. In the third method, no control was used, and enrichment was defined by raw read counts, including nonuniquely mapping reads. Errors bars are standard errors of the means for each set of loci. (B) Comparison of genetic elements in centromeric 20-kb loci and whole-genome 20-kb loci, but without regard to relative CENH3 enrichment within centromeres
    Nebnext End Repair Module, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 17 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/nebnext end repair module/product/New England Biolabs
    Average 99 stars, based on 17 article reviews
    Price from $9.99 to $1999.99
    nebnext end repair module - by Bioz Stars, 2020-08
    99/100 stars
      Buy from Supplier

    99
    New England Biolabs end repair da tailing module
    Genes and repetitive DNA in centromeres. (A) Overlap between CENH3 enrichment and genetic elements. Within the centromere, we assigned each 20-kb locus into one of two categories, “low CENH3 loci” and “high CENH3 loci,” based on whether it exhibited less than or greater than the median CENH3 enrichment. Results are shown for three methods of measuring CENH3 enrichment. The first two are relative to a total nucleosome control produced by MNase digestion of total chromatin and relative to a randomly sheared naked DNA control produced by <t>NEBNext</t> dsDNA Fragmentase ( Gent et al. 2014 ). In both cases, only uniquely mapping reads were considered. In the third method, no control was used, and enrichment was defined by raw read counts, including nonuniquely mapping reads. Errors bars are standard errors of the means for each set of loci. (B) Comparison of genetic elements in centromeric 20-kb loci and whole-genome 20-kb loci, but without regard to relative CENH3 enrichment within centromeres
    End Repair Da Tailing Module, 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
    https://www.bioz.com/result/end repair da tailing module/product/New England Biolabs
    Average 99 stars, based on 4 article reviews
    Price from $9.99 to $1999.99
    end repair da tailing module - by Bioz Stars, 2020-08
    99/100 stars
      Buy from Supplier

    99
    New England Biolabs ultra ii end repair da tailing module
    Genes and repetitive DNA in centromeres. (A) Overlap between CENH3 enrichment and genetic elements. Within the centromere, we assigned each 20-kb locus into one of two categories, “low CENH3 loci” and “high CENH3 loci,” based on whether it exhibited less than or greater than the median CENH3 enrichment. Results are shown for three methods of measuring CENH3 enrichment. The first two are relative to a total nucleosome control produced by MNase digestion of total chromatin and relative to a randomly sheared naked DNA control produced by <t>NEBNext</t> dsDNA Fragmentase ( Gent et al. 2014 ). In both cases, only uniquely mapping reads were considered. In the third method, no control was used, and enrichment was defined by raw read counts, including nonuniquely mapping reads. Errors bars are standard errors of the means for each set of loci. (B) Comparison of genetic elements in centromeric 20-kb loci and whole-genome 20-kb loci, but without regard to relative CENH3 enrichment within centromeres
    Ultra Ii End Repair Da Tailing Module, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 2 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/ultra ii end repair da tailing module/product/New England Biolabs
    Average 99 stars, based on 2 article reviews
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    Image Search Results


    Genes and repetitive DNA in centromeres. (A) Overlap between CENH3 enrichment and genetic elements. Within the centromere, we assigned each 20-kb locus into one of two categories, “low CENH3 loci” and “high CENH3 loci,” based on whether it exhibited less than or greater than the median CENH3 enrichment. Results are shown for three methods of measuring CENH3 enrichment. The first two are relative to a total nucleosome control produced by MNase digestion of total chromatin and relative to a randomly sheared naked DNA control produced by NEBNext dsDNA Fragmentase ( Gent et al. 2014 ). In both cases, only uniquely mapping reads were considered. In the third method, no control was used, and enrichment was defined by raw read counts, including nonuniquely mapping reads. Errors bars are standard errors of the means for each set of loci. (B) Comparison of genetic elements in centromeric 20-kb loci and whole-genome 20-kb loci, but without regard to relative CENH3 enrichment within centromeres

    Journal: Genetics

    Article Title: Stable Patterns of CENH3 Occupancy Through Maize Lineages Containing Genetically Similar Centromeres

    doi: 10.1534/genetics.115.177360

    Figure Lengend Snippet: Genes and repetitive DNA in centromeres. (A) Overlap between CENH3 enrichment and genetic elements. Within the centromere, we assigned each 20-kb locus into one of two categories, “low CENH3 loci” and “high CENH3 loci,” based on whether it exhibited less than or greater than the median CENH3 enrichment. Results are shown for three methods of measuring CENH3 enrichment. The first two are relative to a total nucleosome control produced by MNase digestion of total chromatin and relative to a randomly sheared naked DNA control produced by NEBNext dsDNA Fragmentase ( Gent et al. 2014 ). In both cases, only uniquely mapping reads were considered. In the third method, no control was used, and enrichment was defined by raw read counts, including nonuniquely mapping reads. Errors bars are standard errors of the means for each set of loci. (B) Comparison of genetic elements in centromeric 20-kb loci and whole-genome 20-kb loci, but without regard to relative CENH3 enrichment within centromeres

    Article Snippet: We end-repaired and 5′-phosphorylated using the End Repair Module (New England Biolabs #E6050L), A-tailed with Klenow exo- (New England Biolabs #M0212S), and ligated to adapters (8.3 nM) with a Quick Ligase Kit (New England Biolabs #M2200S).

    Techniques: Produced