nebnext q5  (New England Biolabs)


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    Structured Review

    New England Biolabs nebnext q5
    Nebnext Q5, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 99/100, based on 3 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/nebnext q5/product/New England Biolabs
    Average 99 stars, based on 3 article reviews
    Price from $9.99 to $1999.99
    nebnext q5 - by Bioz Stars, 2020-05
    99/100 stars

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    Related Articles

    Multiplex Assay:

    Article Title: Involvement of condensin in cellular senescence through gene regulation and compartmental reorganization
    Article Snippet: .. Adaptor-ligated DNA fragments were PCR-amplified for 12 cycles using NEBNext Q5 Hot Start HiFi PCR master Mix and NEBNext multiplex oligos (New England Biolabs). .. RNA-seq libraries were sequenced on Illumina NextSeq 500 platform to obtain 76-bp single-end reads.

    Article Title: Natural History of a Satellite DNA Family: From the Ancestral Genome Component to Species-Specific Sequences, Concerted and Non-Concerted Evolution
    Article Snippet: .. The individual libraries (corresponding to individual species) were enriched and indexed by unique barcodes using PCR with NEBNext Q5 HotStart HiFi PCR Master Mix and NEBNext Multiplex Oligos for Illumina (New England BioLabs) according to the manufacturer’s instructions. .. The enriched libraries were purified twice using AMPure magnetic beads (Beckman Coulter, Pasadena, CA, USA).

    Selection:

    Article Title: The Hippo Pathway Prevents YAP/TAZ–Driven Hypertranscription and Controls Neural Progenitor Number
    Article Snippet: .. Sequencing libraries were prepared from 10 ng of DNA using the NEBNext ChIP-Seq Library Prep Reagent Set for Illumina with NEBNext Q5 Hot Start HiFi PCR Master Mix according to the manufacturer’s instructions (New England Biolabs) with the following modifications: a second 1:1 Ampure cleanup was added after adaptor ligation and the Ampure size selection step prior to PCR eliminated. ..

    Ligation:

    Article Title: The Hippo Pathway Prevents YAP/TAZ–Driven Hypertranscription and Controls Neural Progenitor Number
    Article Snippet: .. Sequencing libraries were prepared from 10 ng of DNA using the NEBNext ChIP-Seq Library Prep Reagent Set for Illumina with NEBNext Q5 Hot Start HiFi PCR Master Mix according to the manufacturer’s instructions (New England Biolabs) with the following modifications: a second 1:1 Ampure cleanup was added after adaptor ligation and the Ampure size selection step prior to PCR eliminated. ..

    Synthesized:

    Article Title: Age-associated bimodal transcriptional drift reduces intergenic disparities in transcription
    Article Snippet: .. After end repair of the synthesized double-stranded DNAs using NEBNext End Prep Enzyme Mix in the condition of 20°C for 30 min and 65°C for 30 min, NEBNext Adaptor was added into the 3’ end adenylated DNA with Blunt/TA Ligase Master Mix and the mixture was incubated at 20°C for 15 min. DNA samples were enriched by 15 cycles of PCR reaction consisting of the purified ligates, NEBNext Q5 Hot Start HiFi PCR Master Mix 2X, and index primer. .. First strand cDNA was synthesized with fragmented RNAs and ProtoScript II Reverse Transcriptase.

    Purification:

    Article Title: Age-associated bimodal transcriptional drift reduces intergenic disparities in transcription
    Article Snippet: .. After end repair of the synthesized double-stranded DNAs using NEBNext End Prep Enzyme Mix in the condition of 20°C for 30 min and 65°C for 30 min, NEBNext Adaptor was added into the 3’ end adenylated DNA with Blunt/TA Ligase Master Mix and the mixture was incubated at 20°C for 15 min. DNA samples were enriched by 15 cycles of PCR reaction consisting of the purified ligates, NEBNext Q5 Hot Start HiFi PCR Master Mix 2X, and index primer. .. First strand cDNA was synthesized with fragmented RNAs and ProtoScript II Reverse Transcriptase.

    Polymerase Chain Reaction:

    Article Title: Library Construction for Mutation Identification by Whole-Genome Sequencing
    Article Snippet: .. Add the following and mix: 1 μL primer TruSeq-1 @ 25 μM 1 μL primer TruSeq-2 @ 25 μM 25 μL NEBNext Q5 Hot Start HiFi PCR Master Mix Incubate in a thermal cycler: One cycle of: 30 s @ 98 °C 12 cycles of: 10 s @ 98 °C 75 s @ 65 °C One cycle of: 5 min @ 65 °C Hold @ 4 °C ..

    Article Title: Age-associated bimodal transcriptional drift reduces intergenic disparities in transcription
    Article Snippet: .. After end repair of the synthesized double-stranded DNAs using NEBNext End Prep Enzyme Mix in the condition of 20°C for 30 min and 65°C for 30 min, NEBNext Adaptor was added into the 3’ end adenylated DNA with Blunt/TA Ligase Master Mix and the mixture was incubated at 20°C for 15 min. DNA samples were enriched by 15 cycles of PCR reaction consisting of the purified ligates, NEBNext Q5 Hot Start HiFi PCR Master Mix 2X, and index primer. .. First strand cDNA was synthesized with fragmented RNAs and ProtoScript II Reverse Transcriptase.

    Article Title: Involvement of condensin in cellular senescence through gene regulation and compartmental reorganization
    Article Snippet: .. Adaptor-ligated DNA fragments were PCR-amplified for 12 cycles using NEBNext Q5 Hot Start HiFi PCR master Mix and NEBNext multiplex oligos (New England Biolabs). .. RNA-seq libraries were sequenced on Illumina NextSeq 500 platform to obtain 76-bp single-end reads.

    Article Title: The Hippo Pathway Prevents YAP/TAZ–Driven Hypertranscription and Controls Neural Progenitor Number
    Article Snippet: .. Sequencing libraries were prepared from 10 ng of DNA using the NEBNext ChIP-Seq Library Prep Reagent Set for Illumina with NEBNext Q5 Hot Start HiFi PCR Master Mix according to the manufacturer’s instructions (New England Biolabs) with the following modifications: a second 1:1 Ampure cleanup was added after adaptor ligation and the Ampure size selection step prior to PCR eliminated. ..

    Article Title: Short tandem repeat stutter model inferred from direct measurement of in vitro stutter noise
    Article Snippet: .. Experimental validation of the model by using single cell STR data The high fidelity PCR enzymes were used in this study were: NEBNext Q5 Hot Start HiFi PCR Master Mix (NEB), NEBNext Ultra II Q5 Master Mix (NEB), FastStart High Fidelity PCR System, dNTPack (Roche), KOD Hot Start DNA Polymerase (Novagen), KAPA HiFi HotStart PCR Kit (Kapa Biosystems) and PrimeStar Max (Takara). .. A recreation of the original amplicon targeted sequencing protocol as presented in ( ) was performed in order to assess the error rate per polymerase enzyme using the STR stutter model.

    Article Title: Orb-weaving spider Araneus ventricosus genome elucidates the spidroin gene catalogue
    Article Snippet: .. After the USER enzyme treatment, cDNA was amplified by PCR with the following conditions (20 μ L cDNA, 2.5 μ L Index Primer, 2.5 μ L Universal PCR Primer, 25 μ L NEBNext Q5 Hot Start HiFi PCR Master Mix 2X; 98 °C for 30 s and 12 cycles each of 98 °C for 10 s, 65 °C for 75 s and 65 °C for 5 min). .. When the total RNA volume was less than 10 ng, the library was prepared using SMART-Seq v4 Ultra Low Input RNA Kit for Sequencing (Clontech) according to the manufacturer’s protocol, with subsequent fragmentation and Illumina library preparation with Hyper Plus Kit (Kapa Biosystems).

    Article Title: Natural History of a Satellite DNA Family: From the Ancestral Genome Component to Species-Specific Sequences, Concerted and Non-Concerted Evolution
    Article Snippet: .. The individual libraries (corresponding to individual species) were enriched and indexed by unique barcodes using PCR with NEBNext Q5 HotStart HiFi PCR Master Mix and NEBNext Multiplex Oligos for Illumina (New England BioLabs) according to the manufacturer’s instructions. .. The enriched libraries were purified twice using AMPure magnetic beads (Beckman Coulter, Pasadena, CA, USA).

    Incubation:

    Article Title: Age-associated bimodal transcriptional drift reduces intergenic disparities in transcription
    Article Snippet: .. After end repair of the synthesized double-stranded DNAs using NEBNext End Prep Enzyme Mix in the condition of 20°C for 30 min and 65°C for 30 min, NEBNext Adaptor was added into the 3’ end adenylated DNA with Blunt/TA Ligase Master Mix and the mixture was incubated at 20°C for 15 min. DNA samples were enriched by 15 cycles of PCR reaction consisting of the purified ligates, NEBNext Q5 Hot Start HiFi PCR Master Mix 2X, and index primer. .. First strand cDNA was synthesized with fragmented RNAs and ProtoScript II Reverse Transcriptase.

    Amplification:

    Article Title: Orb-weaving spider Araneus ventricosus genome elucidates the spidroin gene catalogue
    Article Snippet: .. After the USER enzyme treatment, cDNA was amplified by PCR with the following conditions (20 μ L cDNA, 2.5 μ L Index Primer, 2.5 μ L Universal PCR Primer, 25 μ L NEBNext Q5 Hot Start HiFi PCR Master Mix 2X; 98 °C for 30 s and 12 cycles each of 98 °C for 10 s, 65 °C for 75 s and 65 °C for 5 min). .. When the total RNA volume was less than 10 ng, the library was prepared using SMART-Seq v4 Ultra Low Input RNA Kit for Sequencing (Clontech) according to the manufacturer’s protocol, with subsequent fragmentation and Illumina library preparation with Hyper Plus Kit (Kapa Biosystems).

    Sequencing:

    Article Title: The Hippo Pathway Prevents YAP/TAZ–Driven Hypertranscription and Controls Neural Progenitor Number
    Article Snippet: .. Sequencing libraries were prepared from 10 ng of DNA using the NEBNext ChIP-Seq Library Prep Reagent Set for Illumina with NEBNext Q5 Hot Start HiFi PCR Master Mix according to the manufacturer’s instructions (New England Biolabs) with the following modifications: a second 1:1 Ampure cleanup was added after adaptor ligation and the Ampure size selection step prior to PCR eliminated. ..

    ChIP-sequencing:

    Article Title: The Hippo Pathway Prevents YAP/TAZ–Driven Hypertranscription and Controls Neural Progenitor Number
    Article Snippet: .. Sequencing libraries were prepared from 10 ng of DNA using the NEBNext ChIP-Seq Library Prep Reagent Set for Illumina with NEBNext Q5 Hot Start HiFi PCR Master Mix according to the manufacturer’s instructions (New England Biolabs) with the following modifications: a second 1:1 Ampure cleanup was added after adaptor ligation and the Ampure size selection step prior to PCR eliminated. ..

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    New England Biolabs nebnext ultra ii q5 master mix
    Evaluation of three different polymerase master mixes in the first and second stages of PCR, for sequencing library preparation. Amplification reaction mixes were assembled with TaqMan genotyping master mix, HotStarTaq Plus master mix, or <t>NEBNext</t> Ultra II Q5 mix during first-stage PCR. All of the first-stage PCR products were assembled in NEBNext Ultra II <t>Q5</t> master mix ( A ), HotStarTaq Plus master mix ( B ), or TaqMan genotyping master mix ( C ) for second-stage PCR. Libraries were purified with solid-phase reversible immobilization beads and analyzed on an Agilent 2100 DNA bioanalyzer. A 300- to 400-bp target-specific library is indicated by a bracket . Note that the fragments of 100 to 200 bp predominantly contained primer dimers. Green and purple bars indicate lower and upper markers, respectively. All samples were evaluated in triplicate.
    Nebnext Ultra Ii Q5 Master Mix, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 94/100, based on 13 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/nebnext ultra ii q5 master mix/product/New England Biolabs
    Average 94 stars, based on 13 article reviews
    Price from $9.99 to $1999.99
    nebnext ultra ii q5 master mix - by Bioz Stars, 2020-05
    94/100 stars
      Buy from Supplier

    89
    New England Biolabs q5
    Evaluation of three different polymerase master mixes in the first and second stages of PCR, for sequencing library preparation. Amplification reaction mixes were assembled with TaqMan genotyping master mix, HotStarTaq Plus master mix, or <t>NEBNext</t> Ultra II Q5 mix during first-stage PCR. All of the first-stage PCR products were assembled in NEBNext Ultra II <t>Q5</t> master mix ( A ), HotStarTaq Plus master mix ( B ), or TaqMan genotyping master mix ( C ) for second-stage PCR. Libraries were purified with solid-phase reversible immobilization beads and analyzed on an Agilent 2100 DNA bioanalyzer. A 300- to 400-bp target-specific library is indicated by a bracket . Note that the fragments of 100 to 200 bp predominantly contained primer dimers. Green and purple bars indicate lower and upper markers, respectively. All samples were evaluated in triplicate.
    Q5, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 89/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/q5/product/New England Biolabs
    Average 89 stars, based on 1 article reviews
    Price from $9.99 to $1999.99
    q5 - by Bioz Stars, 2020-05
    89/100 stars
      Buy from Supplier

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    Evaluation of three different polymerase master mixes in the first and second stages of PCR, for sequencing library preparation. Amplification reaction mixes were assembled with TaqMan genotyping master mix, HotStarTaq Plus master mix, or NEBNext Ultra II Q5 mix during first-stage PCR. All of the first-stage PCR products were assembled in NEBNext Ultra II Q5 master mix ( A ), HotStarTaq Plus master mix ( B ), or TaqMan genotyping master mix ( C ) for second-stage PCR. Libraries were purified with solid-phase reversible immobilization beads and analyzed on an Agilent 2100 DNA bioanalyzer. A 300- to 400-bp target-specific library is indicated by a bracket . Note that the fragments of 100 to 200 bp predominantly contained primer dimers. Green and purple bars indicate lower and upper markers, respectively. All samples were evaluated in triplicate.

    Journal: The Journal of Molecular Diagnostics : JMD

    Article Title: Rational “Error Elimination” Approach to Evaluating Molecular Barcoded Next-Generation Sequencing Data Identifies Low-Frequency Mutations in Hematologic Malignancies

    doi: 10.1016/j.jmoldx.2019.01.008

    Figure Lengend Snippet: Evaluation of three different polymerase master mixes in the first and second stages of PCR, for sequencing library preparation. Amplification reaction mixes were assembled with TaqMan genotyping master mix, HotStarTaq Plus master mix, or NEBNext Ultra II Q5 mix during first-stage PCR. All of the first-stage PCR products were assembled in NEBNext Ultra II Q5 master mix ( A ), HotStarTaq Plus master mix ( B ), or TaqMan genotyping master mix ( C ) for second-stage PCR. Libraries were purified with solid-phase reversible immobilization beads and analyzed on an Agilent 2100 DNA bioanalyzer. A 300- to 400-bp target-specific library is indicated by a bracket . Note that the fragments of 100 to 200 bp predominantly contained primer dimers. Green and purple bars indicate lower and upper markers, respectively. All samples were evaluated in triplicate.

    Article Snippet: The second stage of PCR was performed in 40 μL volume using 1× NEBNext Ultra II Q5 master mix, HotStarTaq Plus master mix, or 1× TaqMan genotyping master mix; 17 μL of purified product from the first-stage PCR; and 0.5 μmol/L Illumina index primers (San Diego, CA).

    Techniques: Polymerase Chain Reaction, Sequencing, Amplification, Purification