For mid-throughput labs with limited IT resources who are interested in using Element’s AVITI™ System benchtop sequencer, QIAGEN provides sample-to-report NGS workflows with panels validated for use on the AVITI System and out-of-the-box downstream data analysis software solutions.
Step 1: Library Preparation
QIAseq Panels set a new standard for NGS genotyping. Major innovations within this chemistry provide improved ease-of-use, efficiency and expanded variant analysis to simplify and speed-up your NGS workflows.
Step 2: Sequencing
The AVITI™ System from Element Biosciences is an out-of-the-box, plug-and-run benchtop sequencer offering an unrivaled combination of performance, cost, and flexibility. Element’s proprietary Avidity Sequencing™ chemistries enable exceptional accuracy and cost efficiency compared to other benchtop systems. With two random access flow cells, the AVITI™ System is equivalent to having two sequencing systems in one.
Step 3: Cloud-based data analysis
LightSpeed is a new module for QIAGEN CLC Genomics Workbench Premium that empowers laboratories to perform NGS secondary analysis with high accuracy at unprecedented runtimes. FASTQ files produced from the AVITI™ System are uploaded to LightSpeed. Within minutes (or less), LightSpeed produces VCF files containing single nucleotide variants (SNV), insertion–deletion mutation (InDel) and structural variant (SV) calls. The module is deployable using local computers or Amazon Web Services (AWS®) cloud and performs quality and adapter trimming, read mapping, deduplication, local realignment, quality control and variant calling.
Step 4: Data interpretation and reporting
QCI Interpret is an out-of-the-box, fully customizable software solution that enables NGS variant interpretation and reporting for oncology and hereditary applications. VCF files from QCI Secondary Analysis are directly uploaded to QCI Interpret. Users then select a preconfigured workflow, and QCI Interpret automatically filters variants and computes classifications according to ACMG and AMP/ASCO/CAP professional guidelines.
Unlike other tertiary analysis solutions, QCI Interpret uses augmented molecular intelligence (the combination of human and machine curation) to ensure the evidence being considered is accurate, consistent and up-to-date. Users can then review the literature and criteria supporting each variant classification, determine reportability status, and confidently generate a final, patient-specific report with trusted diagnostic, prognostic and therapeutic information.
View a sample report here.
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