NGS Sample Prep & Target Enrichment
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NGS Sample Prep & Target Enrichment includes these areas of focus:
- DNA Fragmentation
- DNA Library Preparation
- FFPE DNA Repair
- NEBNext FFPE DNA Repair Mix
- Illumina® Library Preparation
- NEBNext® Ultra™ II RNA Library Prep
- NEBNext® Ultra™ II DNA Library Prep
- RNA for Illumina®
- DNA for Illumina®
- Ion Torrent® DNA Library Preparation
- DNA for Ion Torrent®
- NEBNext® ARTIC products for SARS-CoV-2 sequencing
- NEBNext® Automation
- RNA Library Preparation
FAQs for NGS Sample Prep & Target Enrichment
Protocols for NGS Sample Prep & Target Enrichment
- Protocol for use with NEBNext® Ultra™ II End Repair/dA-Tailing Module (E7546)
- Protocol for a PCR reaction using NEBNext® Ultra™ II Q5® Master Mix (M0544)
- Setting up the PCR Reactions < 96 Samples and 96 Samples - 96 Single Index Kit (E6609)
- Index Pooling Guidelines - 96 Single Index Kit (E6609)
- Protocol for use with NEBNext Poly(A) mRNA Magnetic Isolation Module (NEB #E7490)
- Protocol for use with FFPE RNA, NEBNext rRNA Depletion Kit (Human/Mouse/Rat) (NEB #E6310)
- Protocol for use with NEBNext rRNA Depletion Kit (Human/Mouse/Rat) (NEB #E6310) and NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (NEB #E7760, #E7765)
- Protocol for use with Purified mRNA or rRNA Depleted RNA and NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (NEB #E7760, #E7765)
- Protocol for use with rRNA Depleted FFPE RNA and NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (NEB #E7760, #E7765)
- Protocol for use with NEBNext® UltraTM II RNA Library Prep Kit for Illumina® E7770 and rRNA Depletion Kit (Human/Mouse/Rat) (NEB #E6310)
- Protocol for use with NEBNext Poly(A) mRNA Magnetic Isolation Module (E7490) and NEBNext Ultra II RNA Library Prep Kit for Illumina (E7770, E7775)
- Protocol for use with FFPE RNA, NEBNext Ulta II RNA Library Prep Kit for Illumina E7770 and rRNA Depletion Kit (Human/Mouse/Rat) (NEB #E6310)
- Protocols for use with Purified mRNA or rRNA Depleted RNA and NEBNext Ultra II RNA Library Prep Kit for Illumina
- Protocol for use with rRNA Depleted FFPE RNA and NEBNext Ultra II RNA Library Prep Kit for Illumina (NEB # E7770, #E7775)
- Protocol for Directional RNA-seq Workflows and NEBNext Ultra II RNA First Strand Synthesis Module (E7771)
- Protocol for Non-directional RNA-seq Workflows and NEBNext Ultra II RNA First Strand Synthesis Module (E7771)
- Appendix A
- Appendix A for use with NEBNext Ultra II RNA First Strand Synthesis Module (E7771)
Application Notes for NGS Sample Prep & Target Enrichment
- Improved methods for site-directed mutagenesis using Gibson Assembly® Master Mix
- Improving NGS library performance with lower input amounts using the NEBNext Ultra II RNA Library Prep Kit for Illumina (non-directional) – Advances in non-strand-specific RNA library construction in a ribosomal RNA depletion workflow
- Increased transcription detection with the NEBNext Single Cell/Low Input RNA Library Prep Kit
- Selective Depletion of Abundant RNAs to Enable Transcriptome Analysis of Low-input and Highly-degraded RNA from FFPE Breast Cancer Samples
- AppNote NEBNext Library Quant Kit
- Improving NGS library performance with lower input amounts using the NEBNext Ultra II RNA Library Prep Kit for Illumina (non-directional) – Advances in non-strand-specific RNA library construction in a poly(A) mRNA enrichment workflow
- Obtain superior NGS library performance with lower input amounts using the NEBNext Ultra II Directional RNA Library Prep Kit for Illumina
- Monarch HMW DNA Extraction Kit improves sample preparation for Oxford Nanopore Technologies sequencing of malaria parasites
- High-yield, Scalable Library Preparation with the NEBNext® Ultra™ II FS DNA Library Prep Kit
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Addressing Challenges in Microbiome DNA Analysis
Microbiome sample analysis is commonly confounded by the presence of host-cell DNA in the sample. The NEBNext® Microbiome DNA Enrichment Kit enables enrichment of non-CpG-methylated DNA from samples contaminated with eukaryotic-cell DNA.
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The Quantitation Question: How does accurate library quantitation influence sequencing?
The determination of the number of sequencing-ready molecules present after library preparation is an important step in the next generation sequencing (NGS) workflow and has a strong influence on the success of both a sequencing run and a sequencing-based experiment.
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Improving Enzymatic DNA Fragmentation for Next Generation Sequencing Library Construction
Among the available options for DNA fragmentation, enzymatic fragmentation is demonstrably gentler on the sample, yielding less damage at any scale. The new NEBNext® Ultra™ II FS DNA Library Prep Kit for Illumina® includes a single step for enzymatic fragmentation, end repair, and dA tailing.
- The NEBNext Sample Preparation Workflow Poster
- Benefits of Illumina® Library Quantitation with NEBNext® Library Quant Kit (2015)
- High Quality Automation Libraries Prepared from a Broad Range of DNA Input Amounts (2017)
- AGBT 2018 Wellcome Trust Sanger Institute poster: Thurston. S., et al. (2018). A Large Genome Centre Core Pipeline Refresh.
- Examining Sources of Error in PCR by Single-Molecule Sequencing (2017)
- A Robust, Streamlined, Enzyme-based DNA Library Preparation Method Amenable to a Wide Range of DNA Inputs (2019)
- A Single-tube, Low Input Protocol for Long Read Sequencing (2019)
- Application of a Novel, Targeted Sequencing-Based Genotyping Approach for Cost Effective Marker Assessment in O. sativa (2019)
- EM-seq™ Enables Accurate and Precise Methylome Analysis of Challenging DNA Samples (2019)
- Enzymatic Methyl-seq: Next Generation Methylomes (2019)
- High-Throughput Screening of 2300 Genetic Markers in S.lycopersicum using the NEBNext Direct Multiplexed Genotyping Approach (2019)
- Improving Transcriptome Profiling for Single Cell and Low Input RNA (2019)
- NEBNext Direct® Custom Ready Panels Overcome Challenges Associated with Targeted Re-sequencing (2019)
- NEBNext® Ultra™II FS DNA: A Robust Enzyme-based DNA Library Preparation Method Compatible with Plant and Animal Samples (2019)
- Uncovering the Cannabis sativa Methylome Through Enzymatic Methyl-seq (2019)
- A Customizable Approach for Selective Removal of Abundant RNAs Enhances the Sensitivity of Transcript Detection Across Species
- A highly multiplexed target enrichment approach for sample identification and tracking using the NEBNext Direct Genotyping Solution
- EM-seq™ enables accurate and robust methylation detection of cell free DNA and FFPE DNA sample types
- Enzymatic Methyl-seq: Next Generation Methylomes
- Increasing Power to Detect Low-Frequency Variants Using Dual-Unique Molecular Indices
- Increasing Sensitivity of Transcriptome Profiling in Prokaryotic and Eukaryotic Samples by Depleting Abundant RNAs
- NEBNext® Ultra™ II FS DNA: A Robust Enzyme-based DNA Library Preparation Method Compatible with Plant Samples
- An improved multiplex targeted amplicon sequencing of SARS-CoV-2 using Oxford Nanopore Technology
- Enzymatic Methyl-seq enables accurate and robust methylation detection
- Improving multiplex targeted amplicon sequencing of SARS-CoV-2 on Illumina platforms
- Improving transcriptome analysis by incorporating Unique Molecular Identifiers in RNA-sequencing libraries
- Incorporation of Unique Molecular Identifiers (UMIs) into Unique Dual Indexing (UDI) of samples improves the accuracy of quantitative Next Generation Sequencing
- Increasing the sensitivity of transcriptome profiling in eukaryote and blood samples by depleting abundant RNAs
- Primer-monitor.neb.com – streaming detection and notification of new SARS-CoV-2 variants
- Selective removal of abundant RNAs enhances the sensitivity of transcript detection across different prokaryotic and archaeabacterial species
- Genome sequences of the human filarial parasites Mansonella perstans and Mansonella ozzardi
- Genomes of the Wolbachia endosymbionts from the human filarial parasites Mansonella perstans and Mansonella ozzardi reveal multiple origins of nematode-Wolbachia symbiosis
Tools & Resources
Feature Articles
Brochures
Posters
- Vladimir Potapov, Jennifer L. Ong. (2017) Examining Sources of Error in PCR by Single-Molecule Sequencing. PLOS One; PubMedID: 28683110
Publications related to NGS Sample Prep & Target Enrichment
Legal Information
This product is covered by one or more patents, trademarks and/or copyrights owned or controlled by New England Biolabs, Inc (NEB).
While NEB develops and validates its products for various applications, the use of this product may require the buyer to obtain additional third party intellectual property rights for certain applications.
For more information about commercial rights, please email us at [email protected].
This product is intended for research purposes only. This product is not intended to be used for therapeutic or diagnostic purposes in humans or animals.
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NEBNEXT® Ultra II Directional RNA Workflow
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Size Selection and Cleanup with NEBNEXT® Ultra II and SPRI beads
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Tips for Optimizing DNA Inputs in NGS Library Construction
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Tips for Optimizing RNA Inputs in NGS Library Construction
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How Library Preparation Affects Sequencing Accuracy
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Behind the paper: DNA damage is a pervasive cause of sequencing errors, directly confounding variant identification
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NEBNEXT® Ultra II DNA Library Prep Protocol
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12 Quick Tips for NGS Library Preparation
