e7370  (New England Biolabs)


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  • 99
    Name:
    NEBNext Ultra DNA Library Prep Kit for Illumina
    Description:
    NEBNext Ultra DNA Library Prep Kit for Illumina 96 rxns
    Catalog Number:
    e7370l
    Price:
    2118
    Size:
    96 rxns
    Category:
    DNA Template Preparation for PCR
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    Structured Review

    New England Biolabs e7370
    NEBNext Ultra DNA Library Prep Kit for Illumina
    NEBNext Ultra DNA Library Prep Kit for Illumina 96 rxns
    https://www.bioz.com/result/e7370/product/New England Biolabs
    Average 99 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    e7370 - by Bioz Stars, 2020-07
    99/100 stars

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    Related Articles

    Multiplex Assay:

    Article Title: A Method for Selectively Enriching Microbial DNA from Contaminating Vertebrate Host DNA
    Article Snippet: .. Preparation of Next-generation Sequencing Libraries DNA extracted from saliva and leukocytes were used to generate SOLiD 4 libraries using NEBNext® Fast DNA Library Prep Set for Ion Torrent (NEB #E6270) with SOLiD 4 adaptors and primers; mixtures of DNA extracted form E. coli K-12 MG1655 and IMR-90 cells were used to generate Ion Torrent libraries using NEBNext Fast DNA Library Prep Set for Ion Torrent (NEB #E6270); DNA extracted from black molly was used to generate Illumina paired end sequencing libraries using NEBNext Ultra DNA Library Prep Kit and Multiplex Oligos for Illumina (NEB #E7370 and #E7335). .. Briefly, genomic DNA was sheared using a Covaris S2 device to obtain an average fragment size of ∼200 bp.

    Next-Generation Sequencing:

    Article Title: From the Cover: Germline-restricted chromosome (GRC) is widespread among songbirds
    Article Snippet: .. DNA library for NGS sequencing was prepared using the microdissected GRC DNA libraries using the NEBNext Ultra DNA Library Prep kit (New England Biolabs). .. NEBNext Ultra library was sequenced on an Illumina NextSeq 550 system with single-end reads at the “Genomics” core facility of the ICG SB RAS (Novosibirsk, Russia).

    Article Title: A Method for Selectively Enriching Microbial DNA from Contaminating Vertebrate Host DNA
    Article Snippet: .. Preparation of Next-generation Sequencing Libraries DNA extracted from saliva and leukocytes were used to generate SOLiD 4 libraries using NEBNext® Fast DNA Library Prep Set for Ion Torrent (NEB #E6270) with SOLiD 4 adaptors and primers; mixtures of DNA extracted form E. coli K-12 MG1655 and IMR-90 cells were used to generate Ion Torrent libraries using NEBNext Fast DNA Library Prep Set for Ion Torrent (NEB #E6270); DNA extracted from black molly was used to generate Illumina paired end sequencing libraries using NEBNext Ultra DNA Library Prep Kit and Multiplex Oligos for Illumina (NEB #E7370 and #E7335). .. Briefly, genomic DNA was sheared using a Covaris S2 device to obtain an average fragment size of ∼200 bp.

    Generated:

    Article Title: A Comprehensive Analysis of Replicating Merkel Cell Polyomavirus Genomes Delineates the Viral Transcription Program and Suggests a Role for mcv-miR-M1 in Episomal Persistence
    Article Snippet: .. Libraries of RCA products for HTS analysis were generated with the NEBNext Ultra DNA Library Prep Kit for Illumina and sequenced on an Illumina HiSeq2500 instrument. ..

    other:

    Article Title: Illuminating Choices for Library Prep: A Comparison of Library Preparation Methods for Whole Genome Sequencing of Cryptococcus neoformans Using Illumina HiSeq
    Article Snippet: Despite this, more filtered, high confidence SNPs were identified in the isolates prepared with the TruSeq Nano DNA kit, compared to those prepared with the NEBNext Ultra kit.

    Article Title: Illuminating Choices for Library Prep: A Comparison of Library Preparation Methods for Whole Genome Sequencing of Cryptococcus neoformans Using Illumina HiSeq
    Article Snippet: Firstly, we investigated the reads from the isolates sequenced with the TruSeq DNA v2, TruSeq Nano (both Illumina) and NEBNext Ultra DNA kit (New England Biolabs).

    DNA Sequencing:

    Article Title: Comprehensive nucleosome mapping of the human genome in cancer progression
    Article Snippet: .. Mononucleosome DNA Library Preparation MNase digested DNA sequencing libraries were prepared using the NEBNext® Ultra™ DNA Library Prep Kit for Illumina® (NEB #E7370S/L), starting with thirty nanograms of input mononucleosomal DNA. .. Following end prep and adaptor ligation, libraries were cleaned-up with AMPure® XP Beads (Beckman Coulter, Inc. #A63881) without size selection due to the original input of a size population of ~150bp.

    Sequencing:

    Article Title: From the Cover: Germline-restricted chromosome (GRC) is widespread among songbirds
    Article Snippet: .. DNA library for NGS sequencing was prepared using the microdissected GRC DNA libraries using the NEBNext Ultra DNA Library Prep kit (New England Biolabs). .. NEBNext Ultra library was sequenced on an Illumina NextSeq 550 system with single-end reads at the “Genomics” core facility of the ICG SB RAS (Novosibirsk, Russia).

    Article Title: A Method for Selectively Enriching Microbial DNA from Contaminating Vertebrate Host DNA
    Article Snippet: .. Preparation of Next-generation Sequencing Libraries DNA extracted from saliva and leukocytes were used to generate SOLiD 4 libraries using NEBNext® Fast DNA Library Prep Set for Ion Torrent (NEB #E6270) with SOLiD 4 adaptors and primers; mixtures of DNA extracted form E. coli K-12 MG1655 and IMR-90 cells were used to generate Ion Torrent libraries using NEBNext Fast DNA Library Prep Set for Ion Torrent (NEB #E6270); DNA extracted from black molly was used to generate Illumina paired end sequencing libraries using NEBNext Ultra DNA Library Prep Kit and Multiplex Oligos for Illumina (NEB #E7370 and #E7335). .. Briefly, genomic DNA was sheared using a Covaris S2 device to obtain an average fragment size of ∼200 bp.

    Chromatin Immunoprecipitation:

    Article Title: Histone H3.3 sub-variant H3mm7 is required for normal skeletal muscle regeneration
    Article Snippet: .. ChIP-seq ChIP libraries of GFP, H3K27me3, and H3K4me3 were prepared using the NEBNext Ultra DNA Library Prep Kit for Illumina (New England Biolabs) with biological duplicates. .. The libraries were sequenced on Illumina HiSeq 1500 sequencers.

    ChIP-sequencing:

    Article Title: Histone H3.3 sub-variant H3mm7 is required for normal skeletal muscle regeneration
    Article Snippet: .. ChIP-seq ChIP libraries of GFP, H3K27me3, and H3K4me3 were prepared using the NEBNext Ultra DNA Library Prep Kit for Illumina (New England Biolabs) with biological duplicates. .. The libraries were sequenced on Illumina HiSeq 1500 sequencers.

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    New England Biolabs nebnext ultra dna library prep kit for illumina
    TE-NGS sequencing workflow. Enrichment for genomic fragments spanning active TEs and their unique flanking sequence is achieved by several enzymatic steps as described in the main text. First, genomic <t>DNA</t> is sheared, and adapters for sequencing are ligated to the genomic fragments following standard library preparation protocols. Next, a small aliquot (10 ng) of library is used as template for targeted amplification with primers complementary to TE subfamily-specific sequences and to the <t>Illumina</t> Universal PCR (P5) primer. Remaining genomic background fragments and inverted TEs in head-to-head orientation are removed by ssDNA exonuclease digestion after linear PCR amplification with TE-target primers or Illumina Universal primer, respectively. Last, amplification with nested primers targeting TE diagnostic bases, and containing Illumina i7 index and P7 primer sequences generates full double-stranded dual-adapter libraries containing unique indices for each sample and each TE subfamily, allowing for downstream pooling and multiplexing of many samples simultaneously. High throughput sequencing followed by alignment to the reference genome demarcates the TE insertion site by its 3′ end (read 2) and unique flanking sequence (read 1). TE insertions present in the reference genome can be identified by clustering of read pairs, whereas read 2 generated from polymorphic or novel TE insertions absent from the reference will map with lower quality and/or not at all; these TE can be identified by clusters of read 1 alone (see Methods; Supplemental Material for detailed procedures)
    Nebnext Ultra Dna Library Prep Kit For Illumina, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 92/100, based on 819 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/nebnext ultra dna library prep kit for illumina/product/New England Biolabs
    Average 92 stars, based on 819 article reviews
    Price from $9.99 to $1999.99
    nebnext ultra dna library prep kit for illumina - by Bioz Stars, 2020-07
    92/100 stars
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    TE-NGS sequencing workflow. Enrichment for genomic fragments spanning active TEs and their unique flanking sequence is achieved by several enzymatic steps as described in the main text. First, genomic DNA is sheared, and adapters for sequencing are ligated to the genomic fragments following standard library preparation protocols. Next, a small aliquot (10 ng) of library is used as template for targeted amplification with primers complementary to TE subfamily-specific sequences and to the Illumina Universal PCR (P5) primer. Remaining genomic background fragments and inverted TEs in head-to-head orientation are removed by ssDNA exonuclease digestion after linear PCR amplification with TE-target primers or Illumina Universal primer, respectively. Last, amplification with nested primers targeting TE diagnostic bases, and containing Illumina i7 index and P7 primer sequences generates full double-stranded dual-adapter libraries containing unique indices for each sample and each TE subfamily, allowing for downstream pooling and multiplexing of many samples simultaneously. High throughput sequencing followed by alignment to the reference genome demarcates the TE insertion site by its 3′ end (read 2) and unique flanking sequence (read 1). TE insertions present in the reference genome can be identified by clustering of read pairs, whereas read 2 generated from polymorphic or novel TE insertions absent from the reference will map with lower quality and/or not at all; these TE can be identified by clusters of read 1 alone (see Methods; Supplemental Material for detailed procedures)

    Journal: BMC Genomics

    Article Title: A high throughput screen for active human transposable elements

    doi: 10.1186/s12864-018-4485-4

    Figure Lengend Snippet: TE-NGS sequencing workflow. Enrichment for genomic fragments spanning active TEs and their unique flanking sequence is achieved by several enzymatic steps as described in the main text. First, genomic DNA is sheared, and adapters for sequencing are ligated to the genomic fragments following standard library preparation protocols. Next, a small aliquot (10 ng) of library is used as template for targeted amplification with primers complementary to TE subfamily-specific sequences and to the Illumina Universal PCR (P5) primer. Remaining genomic background fragments and inverted TEs in head-to-head orientation are removed by ssDNA exonuclease digestion after linear PCR amplification with TE-target primers or Illumina Universal primer, respectively. Last, amplification with nested primers targeting TE diagnostic bases, and containing Illumina i7 index and P7 primer sequences generates full double-stranded dual-adapter libraries containing unique indices for each sample and each TE subfamily, allowing for downstream pooling and multiplexing of many samples simultaneously. High throughput sequencing followed by alignment to the reference genome demarcates the TE insertion site by its 3′ end (read 2) and unique flanking sequence (read 1). TE insertions present in the reference genome can be identified by clustering of read pairs, whereas read 2 generated from polymorphic or novel TE insertions absent from the reference will map with lower quality and/or not at all; these TE can be identified by clusters of read 1 alone (see Methods; Supplemental Material for detailed procedures)

    Article Snippet: Library construction consisting of end repair, adapter ligation and PCR extension was performed using NEBNext Ultra DNA Library Kit for Illumina (New England Biolabs, Ipswich, Massachusetts; cat. E7370) to generate libraries with full-length adapters including index 1 (i7) for Illumina paired-end sequencing.

    Techniques: Next-Generation Sequencing, Sequencing, Amplification, Polymerase Chain Reaction, Diagnostic Assay, Multiplexing, Generated

    RCA analysis suggests episomal persistence of MCVSyn genomes. Inverted image of a ethidium bromide-stained agarose gel with input material (lanes 1,3,5,7 and 9) or RCA products (lanes 2,4,6,8, 10 and 11) from mock-transfected PFSK-1 cells (lanes 1 and 2), MCVSyn-transfected PFSK-1 cells at 4 days (lanes 3 and 4) or 136 days (lanes 9 and 10) post transfection, the MCC-derived cell lines WaGa or MKL-1 (lanes 5 and 6 or 7 and 8, respectively) or a water control (lane 11). DNA was subjected to restriction enzyme digestion to produce linear, unit-length viral genomes from concatameric RCA products. For size comparison, lane 12 shows unit length MCVSyn genomes excised from plasmid pMK-MCVSyn. The asterisk marks the position of the bacterial pMK plasmid backbone.

    Journal: PLoS Pathogens

    Article Title: A Comprehensive Analysis of Replicating Merkel Cell Polyomavirus Genomes Delineates the Viral Transcription Program and Suggests a Role for mcv-miR-M1 in Episomal Persistence

    doi: 10.1371/journal.ppat.1004974

    Figure Lengend Snippet: RCA analysis suggests episomal persistence of MCVSyn genomes. Inverted image of a ethidium bromide-stained agarose gel with input material (lanes 1,3,5,7 and 9) or RCA products (lanes 2,4,6,8, 10 and 11) from mock-transfected PFSK-1 cells (lanes 1 and 2), MCVSyn-transfected PFSK-1 cells at 4 days (lanes 3 and 4) or 136 days (lanes 9 and 10) post transfection, the MCC-derived cell lines WaGa or MKL-1 (lanes 5 and 6 or 7 and 8, respectively) or a water control (lane 11). DNA was subjected to restriction enzyme digestion to produce linear, unit-length viral genomes from concatameric RCA products. For size comparison, lane 12 shows unit length MCVSyn genomes excised from plasmid pMK-MCVSyn. The asterisk marks the position of the bacterial pMK plasmid backbone.

    Article Snippet: Libraries of RCA products for HTS analysis were generated with the NEBNext Ultra DNA Library Prep Kit for Illumina and sequenced on an Illumina HiSeq2500 instrument.

    Techniques: Staining, Agarose Gel Electrophoresis, Transfection, Derivative Assay, Plasmid Preparation

    a, ). b , Table showing cases of relapse among the patients with single PV-CTCs isolated. c , Agarose gel showing results of a QC–PCR assay used to determine the genome integrity of each sample. 0–4 bands determine the overall DNA integrity of each sample. DEPArray images of corresponding PV-CTC (cytokeratin (CK)+ stained green, CD45+ stained blue, DAPI+ stained purple) are shown above. d , Examples of copy number profiles detected in single PV-CTCs, CECs and WBC control. Blue and red indicate regions of copy number loss and gain respectively.

    Journal: Nature medicine

    Article Title: Pulmonary venous circulating tumour cell dissemination before tumour resection and disease relapse

    doi: 10.1038/s41591-019-0593-1

    Figure Lengend Snippet: a, ). b , Table showing cases of relapse among the patients with single PV-CTCs isolated. c , Agarose gel showing results of a QC–PCR assay used to determine the genome integrity of each sample. 0–4 bands determine the overall DNA integrity of each sample. DEPArray images of corresponding PV-CTC (cytokeratin (CK)+ stained green, CD45+ stained blue, DAPI+ stained purple) are shown above. d , Examples of copy number profiles detected in single PV-CTCs, CECs and WBC control. Blue and red indicate regions of copy number loss and gain respectively.

    Article Snippet: DNA libraries for PV-CTCs and WBCs were prepared using NEBNext Ultra DNA Library Prep Kit for Illumina (New England BioLabs) with 50 ng of DNA added per library preparation.

    Techniques: Isolation, Agarose Gel Electrophoresis, Polymerase Chain Reaction, Staining

    Analysis of Illumina sequence reads of a black molly ( Poecilia cf. sphenops ) whole fish DNA library before and after enrichment with MBD-Fc protein A paramagnetic beads. Shown is a concordance plot comparing relative abundances of microbial genera between the enriched and unenriched samples.

    Journal: PLoS ONE

    Article Title: A Method for Selectively Enriching Microbial DNA from Contaminating Vertebrate Host DNA

    doi: 10.1371/journal.pone.0076096

    Figure Lengend Snippet: Analysis of Illumina sequence reads of a black molly ( Poecilia cf. sphenops ) whole fish DNA library before and after enrichment with MBD-Fc protein A paramagnetic beads. Shown is a concordance plot comparing relative abundances of microbial genera between the enriched and unenriched samples.

    Article Snippet: Preparation of Next-generation Sequencing Libraries DNA extracted from saliva and leukocytes were used to generate SOLiD 4 libraries using NEBNext® Fast DNA Library Prep Set for Ion Torrent (NEB #E6270) with SOLiD 4 adaptors and primers; mixtures of DNA extracted form E. coli K-12 MG1655 and IMR-90 cells were used to generate Ion Torrent libraries using NEBNext Fast DNA Library Prep Set for Ion Torrent (NEB #E6270); DNA extracted from black molly was used to generate Illumina paired end sequencing libraries using NEBNext Ultra DNA Library Prep Kit and Multiplex Oligos for Illumina (NEB #E7370 and #E7335).

    Techniques: Sequencing, Fluorescence In Situ Hybridization

    MBD-Fc separates human DNA from human-malarial DNA mixtures. (A) Graph of the percentage of 75 bp Illumina reads mapping to the Plasmodium falciparum reference sequence in the mixture before enrichment (Unenriched), after enrichment (Enriched) and the bound fraction following wash and elution as described above (Bound). (B) Evenness of coverage analysis metrics show enriched malaria reads (Enriched Plasmodium ) in line with pure malaria DNA reads ( Plasmodium Only). Unlike the unenriched input sample (Human + Plasmodium ) showing 60% of the Plasmodium genome uncovered (zero depth), enriched sample (Enriched Plasmodium ) showed even coverage of the genome with no regions lacking coverage. The amount of Plasmodium DNA retained in the pellet (Bound Human) following wash and elution was insignificant. (C) GC-content and bias analysis. No base bias was detected in the enriched sample. Average GC content of the enriched sample (Enriched Plasmodium ) matches the pure malaria sample ( Plasmodium Only) and is very close to the theoretical GC coverage (Theoretical).

    Journal: PLoS ONE

    Article Title: A Method for Selectively Enriching Microbial DNA from Contaminating Vertebrate Host DNA

    doi: 10.1371/journal.pone.0076096

    Figure Lengend Snippet: MBD-Fc separates human DNA from human-malarial DNA mixtures. (A) Graph of the percentage of 75 bp Illumina reads mapping to the Plasmodium falciparum reference sequence in the mixture before enrichment (Unenriched), after enrichment (Enriched) and the bound fraction following wash and elution as described above (Bound). (B) Evenness of coverage analysis metrics show enriched malaria reads (Enriched Plasmodium ) in line with pure malaria DNA reads ( Plasmodium Only). Unlike the unenriched input sample (Human + Plasmodium ) showing 60% of the Plasmodium genome uncovered (zero depth), enriched sample (Enriched Plasmodium ) showed even coverage of the genome with no regions lacking coverage. The amount of Plasmodium DNA retained in the pellet (Bound Human) following wash and elution was insignificant. (C) GC-content and bias analysis. No base bias was detected in the enriched sample. Average GC content of the enriched sample (Enriched Plasmodium ) matches the pure malaria sample ( Plasmodium Only) and is very close to the theoretical GC coverage (Theoretical).

    Article Snippet: Preparation of Next-generation Sequencing Libraries DNA extracted from saliva and leukocytes were used to generate SOLiD 4 libraries using NEBNext® Fast DNA Library Prep Set for Ion Torrent (NEB #E6270) with SOLiD 4 adaptors and primers; mixtures of DNA extracted form E. coli K-12 MG1655 and IMR-90 cells were used to generate Ion Torrent libraries using NEBNext Fast DNA Library Prep Set for Ion Torrent (NEB #E6270); DNA extracted from black molly was used to generate Illumina paired end sequencing libraries using NEBNext Ultra DNA Library Prep Kit and Multiplex Oligos for Illumina (NEB #E7370 and #E7335).

    Techniques: Sequencing