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    COVIDSeq Assay (96 samples)

    This low- to mid-throughput NGS assay enables labs of any size to identify and track the emergence and prevalence of novel SARS-CoV-2 variants.

    Overview

    COVIDSEQ Assay (96 samples) is a comprehensive amplicon-based next-generation sequencing (NGS) assay designed to help research labs identify novel SARS-CoV-2 variants. 

    • Detects genome of SARS-CoV-2 RNA using ARTIC v5.4.2 primers

    • Supports a seamless and flexible end-to-end workflow

    Rapid, cost-effective sequencing

    Designed to run a low number of samples, the COVIDSeq Assay (96 samples) offers a low-throughput configuration ideal for Illumina benchtop sequencing systems, enabling smaller labs to perform decentralized surveillance of new variants.

    Uniform genome coverage

    96 amplicons provide full coverage across SARS-CoV-2 genome for in-depth characterization of new variants

    Integrated solution

    Kit includes all reagents for cDNA conversion, amplification, and library prep. A 63°C annealing temperature during PCR improves variant analysis and insights.

    Streamlined data analysis

    Assess lineage and annotate mutations with open software tools, including the DRAGEN Microbial Amplicon App in BaseSpace Sequence Hub.

    Specifications

    Automation capability Liquid handling robot(s)
    Automation details Explore available automation methods
    Content specifications Whole viral genome coverage of SARS-CoV-2 including the spike protein locus 
    Description The COVIDSeq Assay (96 samples) is a low- to mid-throughput NGS assay intended to be processed on any Illumina benchtop sequencing system for research applications.
    Instruments MiSeq System, iSeq 100 System, NextSeq 550 System, NextSeq 2000 System, NextSeq 1000 System, MiSeqDx in Research Mode, MiniSeq System, NextSeq 550Dx in Research Mode, NovaSeq 6000Dx in Research Mode, NextSeq 500 System, NovaSeq 6000 System, MiSeq i100 System, MiSeq i100 Plus System
    Method Amplicon sequencing, Targeted RNA sequencing
    Multiplexing 8-plex on the iSeq System 30–48 plex on the MiSeq System 48-plex on the MiniSeq System
    Nucleic acid type RNA
    Sample type details Nasopharyngeal, oropharyngeal, mid-turbinate nasal swab, and wastewater samples
    Species category Virus
    Species details SARS-CoV-2
    Strand specificity Non-stranded
    Technology Sequencing

    Required products

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    FAQs

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    NovaSeq X Series ordering

    Advanced chemistry, optics, and informatics combine to deliver exceptional sequencing speed and data quality, outstanding throughput, and scalability.

    MiSeq Reagent Kit v3

    Optimized reagent kit that provides increased cluster density and read length, improving sequencing quality scores compared to earlier versions.

    TruSight Oncology 500

    Enable CGP with a large pan-cancer panel covering all major variant classes plus gene signatures (TMB, MSI, and HRD) from FFPE tissue.

    Illumina DNA Prep

    A fast, integrated workflow for preparing libraries for use in a wide range of sequencing applications.

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