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MiSeq i100 Series applications and methods
Simplest workflow, fastest results
Perform a wide range of applications on our fastest, simplest benchtop sequencer, with flexible output and read-to-use workflows optimized for novice users
Featured application resources
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Key applications and methods
Whether you use our predesigned supported workflows or build your own, we have options to support every step of the workflow.
Supported sample-to-analysis workflows: The MiSeq i100 and MiSeq i100 Plus Systems offer supported sample-to-analysis workflows for various methods. These workflows include library prep kits, panels, sequencing on the MiSeq i100 Series, DRAGEN secondary analysis, and data interpretation (where applicable). Additional workflows will be supported in the future.
Microbiome and pathogen discovery
Targeted, culture-free sequencing of complex biological samples to identify and compare bacterial taxa present in microbial communities.
Supported sample-to-analysis workflow
16S amplicon sequencing
Culture-free NGS method that identifies microbes in complex samples. A cost-effective, culture-free method for identification of bacterial strains not found using traditional methods.
Library prep
Sequencing
Data analysis & interpretation
Resources
Shotgun DNA sequencing
Functional characterization of all microbial genomes present in a complex sample. Fast, integrated library prep completes in < 4 hr with minimal hands-on time.
Library prep
Sequencing
Data analysis & interpretation
Resources
Shotgun RNA sequencing
Functional quantification of all coding and noncoding RNAs present in complex samples. Efficient depletion of ribosomal RNA and human globin mRNA across multiple species and sample types.
Sequencing
Data analysis & interpretation
Resources
Single-genome microbial sequencing
Microbial sequencing and analysis of a single, known organism, whether from an isolated, cultured bacterial colony or a primary sample being surveilled for a determined pathogen of interest.
Supported sample-to-analysis workflow
Microbial WGS
Comprehensive method for mapping, finishing, or comparing microbial genomes for deep insights. Fast, integrated library prep completes in < 4 hr with minimal hands-on time.
Library prep
Sequencing
Data analysis & interpretation
DRAGEN sWGS onboard MiSeq i100
Resources
Tuberculosis ID and drug resistance characterization
Targeted NGS panel for identification of Mycobacterium tuberculosis complex strains. Prepare sequencing libraries from as little as 9 pg of DNA.
Library prep
Panel + library prep
Sequencing
Data analysis & interpretation
Supported sample-to-analysis workflow
SARS-CoV-2 sequencing
Comprehensive, amplicon-based assay for characterization of the SARS-CoV-2 virus. Low- to-mid-throughput NGS assay enables labs of any size to surveil novel SARS-CoV-2 variants.
Library prep
Panel
Library prep
Sequencing
Data analysis & interpretation
Resources
Supported sample-to-analysis workflow
Influenza sequencing
Multiplexed, amplicon-based assay for WGS of influenza A/B viruses for public health surveillance and research studies. Automation-friendly RT-PCR and tagmentation-based workflow for influenza A/B analyses.
Library prep
Panel + library prep
Sequencing
Data analysis & interpretation
Supported sample-to-analysis workflow
Flexible microbial sequencing
Custom, user-defined targeted sequencing for identification and characterization of specific microbes of interest. Compatible with custom, published, or commercially available primer sets targeting microbes of interest.
Library prep
Sequencing
Data analysis & interpretation
Multipathogen sequencing
Multipathogen sequencing via amplicon-based NGS involves analyzing genomic regions of interest with ultradeep sequencing of PCR amplicons. Enables full characterization of viruses.
Supported sample-to-analysis workflow
Viral public health threat sequencing
Obtain WGS data for characterization of a broad range of viruses, including SARS-CoV-2, influenza, and poliovirus. Perform concurrent analysis of RNA and DNA viruses compatible with a range of sample types.
Library prep
Panel + kit
Sequencing
Data analysis & interpretation
DRAGEN Microbial Enrichment Plus onboard MiSeq i100
Resources
Common respiratory virus sequencing
Targeted, streamlined detection of common respiratory viruses, such as SARS-CoV-2 and influenza A/B. Target enrichment through hybrid–capture methods provides highly sensitive detection without the need for high read depth.
Library prep
Panel + kit
Sequencing
Data analysis & interpretation
DRAGEN Microbial Enrichment Plus onboard MiSeq i100
Supported sample-to-analysis workflow
Respiratory pathogen and AMR sequencing
NGS-based panel that targets > 280 respiratory pathogens and > 2000 antimicrobial resistance markers with streamlined, sample-to-results workflow.
Library prep
Panel + kit
Sequencing
Data analysis & interpretation
DRAGEN Microbial Enrichment Plus onboard MiSeq i100
Supported sample-to-analysis workflow
Urinary tract pathogen and AMR sequencing
NGS-based panel that targets > 170 uropathogens and > 3700 antimicrobial resistance markers with streamlined, sample-to-results workflow.
Library prep
Panel + kit
Sequencing
Data analysis & interpretation
DRAGEN Microbial Enrichment Plus onboard MiSeq i100
Targeted cancer sequencing
Targeted cancer sequencing, comprising a focused selection of genes associated with specific cancer types or pathways, complement broader genomic profiling approaches and offer users multiple options to interrogate and understand cancer biology.
Supported sample-to-analysis workflow
Multicancer CNV and fusion analysis
Targeted detection of multiple variants, including CNVs and gene fusions. Single-tube SLIMamp workflow provides fast library prep and turnaround time.
Library prep
Library prep
SLIMamp Amplicon Prep
Sequencing
Data analysis & interpretation
Supported sample-to-analysis workflow
Myeloid cancer gene detection
Targeted interrogation of 58 genes of interest highly relevant to myeloid cancers. Single-tube SLIMamp workflow provides fast library prep and turnaround time.
Library prep
Library prep
SLIMamp Amplicon Prep
Sequencing
Data analysis & interpretation
Resources
Supported sample-to-analysis workflow
Solid tumor fusion detection
Focused detection of multiple gene rearrangement regions of interest across solid tumor types. Single-tube SLIMamp workflow provides fast library prep and turnaround time.
Library prep
Panel
Pillar oncoReveal Multi-Cancer RNA Fusion v2 Panel
Library prep
SLIMamp Amplicon Prep
Sequencing
Data analysis & interpretation
Cancer gene expression and fusion detection
Comprehensive assessment of 1385 cancer-related RNA transcripts. In-depth and cost-effective assessment of cancer-related transcripts across most sample types, including FFPE samples.
Library prep
Panel
Library prep
SLIMamp Amplicon Prep
Sequencing
Data analysis & interpretation
Resources
Supported sample-to-analysis workflow
BRCA gene sequencing
Targeted sequencing panel for BRCA1/2 mutations and copy number variations. Single-tube SLIMamp workflow provides fast library prep and turnaround time.
Library prep
Library prep
SLIMamp Amplicon Prep
Sequencing
Data analysis & interpretation
Data analysis
Data interpretation
Supported sample-to-analysis workflow
Hereditary cancer gene sequencing
Targeted sequencing panel that assesses germline mutations across 113 genes and 125 SNPs associated with genetic cancer risk predispostion. Expert-defined content developed with input from key opinion leaders.
Library prep
Library prep
Sequencing
Data analysis & interpretation
Data analysis
Data interpretation
Supported sample-to-analysis workflow
B-cell and/or T-cell receptor sequencing
Analyze B- or T-cell receptor diversity and clonal expansion to gain insights into the adaptive immune system. Flexible library prep from a wide range of RNA input amounts from as little as 10 ng up to 3 μg of RNA.
Library prep
Sequencing
Data analysis & interpretation
Takara Data Analysis
Related content
Introduction to starting a run
MiSeq i100 Series: Introduction to starting a run
This video walks you step-by-step through planning your run, preparing your samples for sequencing, and setting up the instrument.
Experience the quality, precision, and ease of use in every step with our library prep portfolio advancements.
Learn about our fastest, most robust, highest-quality sequencing chemistry to date.
Speak to a specialist or attend an event
Looking for more? Reach out to talk to a specialist about the MiSeq i100 Series or explore a variety of events introducing the MiSeq i100 Series, from roadshows in cities around the world to webinars and more.
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