Cell3™ Target: Custom Panel for cfDNA
- Custom Panels for cfDNA
- Custom NGS Solutions for Exceptional Accuracy
Cell3™ Target offers highly precise and flexibly customizable NGS panels. Utilizing hybridization capture and Illumina technology, it reliably detects low-frequency variants in cfDNA, enhancing sensitivity for cancer diagnostics, prenatal testing, and liquid biopsies. With an efficient workflow that takes less than two hours, we provide rapid and high-quality results tailored to your needs.
Advantages of Cell3™ Target for cfDNA Analysis
Accurate Analysis of Diverse Variant Types
We accurately detect a wide range of variants, including:
- SNVs (Single Nucleotide Variants)
- InDels (Insertions and Deletions)
- CNVs (Copy Number Variants)
- SVs (Structural Variants)
This comprehensive capability ensures detailed genomic profiling for various applications, enhancing the reliability of diagnostics and research outcomes.
Ultra-Sensitive Variant Detection
Our product achieves ultra-sensitive variant detection by employing dual indexing and Unique Molecular Identifiers (UMIs) to reduce errors. This enables the identification of low-frequency variants down to a variant allele frequency (VAF) of 0.1%. Such precision is critical for applications in cancer diagnostics and monitoring, ensuring accurate and reliable results.
Broad Sample Compatibility
Our technology demonstrates a proven track record of applicability to cfDNA derived from a wide range of samples, including blood, urine, saliva, and rectal mucosa.
This versatility allows for comprehensive genomic analysis across different biological sources, enhancing the potential for diagnostic and research applications in various settings.
Extensive Applications
Our technology is suitable for a variety of fields, including cancer diagnostics, minimal residual disease (MRD) detection, non-invasive prenatal testing (NIPT), and liquid biopsy. This broad applicability enhances its utility in both clinical and research settings, supporting advanced genomic analysis and improving patient care across multiple domains.
User Story
Early Detection of OSCC Using Salivary cfDNA
Dr. Ahmed, a researcher at King’s College London, faced the challenge of early detection of oral squamous cell carcinoma (OSCC). Traditional imaging diagnostics made it difficult to identify recurrences at an early and treatable stage. To address this issue, Dr. Ahmed’s team utilized Nonacus’s custom panel to analyze cfDNA from saliva samples of OSCC patients.
By employing Nonacus’s custom panel specifically designed for OSCC, Dr. Ahmed’s team successfully detected somatic mutations in the saliva samples. This innovative approach allowed for sequencing a 12-gene panel at a depth of 20,000-fold, enabling high sensitivity and specificity in detection. The allele frequencies of the mutations detected in saliva ranged from 0.004 to 0.061.
The use of Nonacus’s custom panel significantly improved the early detection of OSCC recurrences. This study confirmed that cfDNA derived from saliva is a reliable means of detecting tumor-derived mutations, demonstrating an 82% detection rate. This non-invasive method enhances patient prognosis and streamlines the management of OSCC.
Ahmed, Ahmed A., et al. “Mutation detection in saliva from oral cancer patients.” Oral Oncology 151 (2024).
Design Your Own Panel
- Complete Control
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With our user-friendly online panel design tool, you can freely customize your NGS panel design. Adjust every element of the panel to meet your clinical and research needs.
- Flexible Input Options
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Easily input BED files, gene lists, and genomic coordinates, allowing for flexible customization based on your specific objectives.
- Advanced Algorithms
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Utilizing cutting-edge algorithms, our tool maximizes target regions and ensures uniform coverage, guaranteeing high efficiency and accuracy even with small panels.
- Instant Feedback
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No need to wait for design assistance. Once you submit your design, you’ll receive immediate feedback on target coverage and probe information, streamlining your workflow.
Whether you are creating a new panel or customizing an existing one, our panel design tool makes it easy to design NGS panel effortlessly.
Optimization of Sequencing Performance and Cost Efficiency
Cell3™ Target is designed to ensure uniform coverage, making it ideal for cfDNA applications that require high sequencing depth.
- Achieve high on-target rates and uniform coverage even with small panels of fewer than 500 probes
- Detect variants from 25 ng of cfDNA down to a variant allele frequency (VAF) of 0.1%
- Deliver high performance without compromising sensitivity, all while keeping costs low
Enhanced On-Target Efficiency and Reliable Detection of Low-Frequency Variants
Cell3™ Target delivers exceptional on-target performance while minimizing off-target sequencing reads, ensuring uniform coverage across both small and large panels. Whether sequencing a single gene or up to 1,000 genes, this technology guarantees higher efficiency and accuracy compared to other capture methods. By leveraging this advanced technology, we enhance the sensitivity for detecting low-frequency variants in cfDNA.
In tests using SeraCare’s standard reference, Cell3™ Target provided accurate and reliable results even at a low VAF of 0.6%.
Figure 1 Sequencing metrics summary showing equivalent coverage uniformity and increased on target capture between Nonacus and competitor A.
Figure 2 Expected vs. observed VAF using the HBB gene capture panel with artifical gDNA at known VAF of 0.0%, 1.0% and 2.5%.
Order Information
The Cell3™ Target panels are available with two types of library preparation kits:
- Fragmentation-Compatible Kit: Designed for use with DNA samples (Genomic, FF, FFPE).
- Non-Fragmentation-Compatible Kit: Specifically intended for use with cfDNA samples.
| Panel Size | Panel Size from XS(50 probe)-XXL(25000 probe) | |
|---|---|---|
| Panel size based on probe number | Frag | Non-Frag |
| 48 Sample | NGS_C3C_(size)_FR_48 | NGS_C3C_(size)_NF_48 |
| 96 Sample | NGS_C3C_(size)_FR_96_A/B/C/D | NGS_C3C_(size)_NF_96_A/B/C/D |
- A: Adapter plate with indexes 1–96
- B: Adapter plate with indexes 97–192
- C: Adapter plate with indexes 193–288
- D: Adapter plate with indexes 289–384
*To provide flexibility for multiplexing samples, the kit for 96 samples includes an adapter plate.
