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Advanta Solid Tumor NGS Library Prep Assay

Confidently analyze multiple somatic variants with a flexible, automated NGS workflow

Highlights

Powerful content 
Confidently interrogate SNVs, indels and CNVs with a comprehensive panel of 53 high-value genes to analyze FFPE and fresh-frozen tissue from multiple solid tumor cancers.

High efficiency 
Maximize laboratory resources by minimizing hands-on time and costly reagent consumption with nanoliter-scale walkaway automation leveraging Fluidigm microfluidic technology.

Flexible workflow 
Streamline NGS library preparation of up to 6 unique assay panels generating actionable insights from both DNA and RNA variants in a single run on the Juno system.

Introducing the Advanta Solid Tumor NGS Library Prep Assay

To advance our understanding of cancer and make strides toward improved patient care, researchers have a growing need to interrogate somatic mutations, often from limited quantities of available samples. Adding to the challenge, translational and clinical researchers in academia and industry face increasing pressure to maximize laboratory efficiency and productivity by controlling costs and implementing automation to reduce hands-on and turnaround time, while ensuring consistent performance and high-quality results.

The Advanta™ Solid Tumor NGS Library Prep Assay with the automated Juno™ system produces targeted amplicon-based barcoded libraries for subsequent analysis on Illumina® NGS platforms. The Advanta Solid Tumor panel is optimized to interrogate a comprehensive selection of high-value, low-variant-frequency somatic mutations within oncology-relevant genes and requires as little as 12.5 ng of DNA starting material per sample.

A key advantage of the Advanta Solid Tumor Assay as a component of the Juno workflow is the flexibility to simultaneously process additional oncology panels in the same run, including the Advanta RNA Fusions NGS Library Prep Assay or custom-designed panels, offering maximal efficiency of time, resources and cost for your laboratory.

Panel content

Actionable hot spots (31 genes)

AKT1, BRAF, CTNNB1, EFGR, ERBB2, ERBB4, FGFR2, FGFR3, FOXL2, GNA11, GNAQ, GNAS, H3F3A, HRAS, IDH1, IDH2, KIT, KRAS, MAP2K1, MAP2K2, MAPK1, MAPK3, MET, MITF, NRAS, PGDFRA, PIK3CA, RAC1, ROS1, SMAD4, TYRP1

CNV targets (24 genes)

AKT1, ALK, BRAC1, BRCA2, CDKN2A, EGFR, ERBB2, FGFR1, FGFR2, FGFR3, HRAS, KIT, MET, NRAS, PDGFRA, PIK3CA, PTEN, RAC1, RB1, RET, RICTOR, TERT, TYRP1, VHL

Full-length coding sequence targets (20 genes)

ALK, BRCA1, BRCA2, CDKN2A, DDR2, HIST1H3B, JAK1, JAK3, NF1, NOTCH1, PALB2, PTEN, RAD51C, RAD51D, RB1, RET, STK11, TERT, TP53, VHL

Figure 1. The Advanta Solid Tumor NGS Library Prep Assay covers 53 genes (total coverage of 234 kb) targeting actionable hot spots, indels and CNVs and includes 20 genes with full-length coding DNA sequence regions. The genes are associated with numerous solid tumor cancers, including but not limited to breast, colon, liver, lung, melanoma, ovarian and pancreatic. The panel covers ~19,000 pathogenic variants and ~35,000 total variants with COSMIC ID references.

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The Juno advantage

The Advanta Solid Tumor NGS Library Prep Assay is optimized to run on the Juno system leveraging the LP 8.8.6 IFC, a microfluidic device approximately the same size and shape as a standard 96-well plate. Sample and assay mixes are dispensed into the IFC, which is then placed on the Juno system for processing.

The Juno workflow greatly reduces pipetting steps, enabling walkaway automation by controlling the concurrent and precise pairing of each sample-assay combination within the IFC’s parallel, nanoliter-scale reaction chambers that support targeted amplification. When using the Advanta Solid Tumor NGS Library Prep Assay, the Juno workflow can prepare NGS libraries for up to 48 samples in a single run, with approximately 50% less hands-on time than other workflows at similar throughput. Enabling scalability of both sample throughput and content, the Juno automated library preparation workflow delivers cost-effective performance you can trust.

Relevant content in a flexible library prep workflow

Solid Tumor Workflow

Figure 2. Workflow for the Advanta Solid Tumor NGS Library Prep Assay. Using the LP 8.8.6 IFC and the Juno system, you can configure the run to meet your operating requirements as they change. Choose to process all samples (up to 48) with one panel of assays, such as the Advanta Solid Tumor NGS Library Prep Assay. Alternatively, you can organize the 48 samples into 6 sets of 8 and simultaneously process each sample set using a different assay panel—all within the same IFC run.

LP 8.8.6 IFC, a unique integrated fluidic circuit enabling content flexibility

8.8.6 IFC

Figure 3. The LP 8.8.6 IFC is configured with 6 partitions, each processing 8 samples with 8 assay pools. The partitioned IFC design offers you flexibility in selecting samples and libraries to generate for each run. For example, you may choose to generate libraries from samples with the Advanta Solid Tumor panel exclusively, or choose to include the Advanta RNA Fusions panel in selected partitions. To create a custom panel of selected markers, access the D3™ assay design portal at fluidigm.com/d3.


Advanta RNA Fusions NGS Library Prep Assay

Fusion transcripts are an important class of somatic alterations because the resulting chimeric proteins can contribute to oncogene activation or tumor suppressor inactivation.

The Advanta RNA Fusions NGS Library Prep Assay is designed to analyze over 380 gene fusion pairs covering more than 1,000 known breakpoints from both solid tumor and hematologic cancers. Similar to the Advanta Solid Tumor panel, the Advanta RNA Fusions panel is optimized for use with the LP 8.8.6 IFC on the Juno platform. Investigators may process all samples in a given run with the Advanta RNA Fusions assay. Or, by taking advantage of the unique partitioning of the LP 8.8.6 IFC, you may process selected samples simultaneously with the Advanta Solid Tumor panel.

Learn more at fluidigm.com/advanta-rnafusions.

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Information in this publication is subject to change without notice.

Fluidigm Products are for Research Use Only. Not for use in diagnostic procedures.