Pharmacogenomics Profiling to Identify Biomarkers of Drug Response

Pharmacogenomics (PGx) can enhance patient care by enabling the use of an individual’s genetic information to help predict drug response and guide optimal drug and dose selection. Ultimately, the goal is to provide safer, more impactful, and cost-effective treatment in patient care. Traditionally, pharmacogenomics is implemented reactively when there is a need to prescribe a high-risk drug. This is often expensive and suffers from a slow turnaround time. The field now recognizes the results and recommendations from pharmacogenomic profiling should be available preemptively in electronic health records and drug prescription systems.

Both pharmacogenomics research and clinical testing are converging from sequencing of the whole genome and testing of single targets, respectively, toward screening a panel of genes of pharmacological importance (pharmacogenes) and associating their variants to drug response. Amplicon-based targeted sequencing is an ideal approach for this screening because it is cost-effective and easy to implement in the laboratory. The workflow is fast and simple to carry out and allows researchers and assay developers to focus only on the pharmacogenes being investigated.

CleanPlex® NGS Panels – Simple, Affordable Solution for Pharmacogenomics Profiling

Obtain Accurate, Reproducible, and Highest-Quality Results to Predict Efficacy and Side Effects of Drugs

It features a highly advanced proprietary primer design algorithm and an innovative, patented background-cleaning chemistry. Researchers select targets or genes that they would like to interrogate, and our experts design and deliver the custom assays in complete kit format (input to sequencing-ready NGS libraries) in just 4 to 6 weeks.

A third-party organization (an advanced molecular diagnostics company focused on precision medicine, non-invasive cancer testing, and digital health) developed CLIA-approved pharmacogenomics (PGx) NGS assay powered by Paragon Genomics’ CleanPlex technology. It was able to leverage CleanPlex technology’s ultra-high amplicon multiplexing capacity and extremely low PCR background to build a large 180-gene high-level evidence PGx panel that is both highly efficient and affordable. The NGS assay features a single-tube workflow that is easy to perform and minimizes the risk of handling errors.

How Does NGS Amplicon Sequencing for Pharmacogenomics Work?

Next-Generation Sequencing technology for Pharmacogenomic genetic testing works by helping to identify potential new biomarkers and genetic variation in genes. PGx samples are traditionally tested from a liquid biopsy such as blood.

Fast, Scalable, and Cost Effective Solution

  • Scalable High-Throughput System. Target thousands of relevant markers in the same assay.
  • Fast Turnaround Time. Get custom assays delivered in 4 to 6 weeks. Our PhD-level expert scientists are here to provide speedy and comprehensive support throughout the design, ordering, and technology adoption process, including excellent after-sales technical support.
  • Cost-Effective Solution. Process thousands of samples at a time on the Illumina® platform.
  • Minimizes consumable consumption. This single-plate workflow reduces consumable costs and loss of material from the material transfer.
  • Streamlined, Automation-Friendly Workflow. Generate sequencing-ready libraries in just 3 hours using a simple, three-step protocol that can be easily automated.
  • High-Quality, Reproducible Results. Prepare high-quality NGS libraries with high marker call rates and efficient use of sequencing reads.

What do you need to get started with a custom panel design?

We only require the targeted bases you’re interested in and the reference genome for the genetic variants of interest. The bases can be provided as a BED file and submitted to our design portal: https://www.paragongenomics.com/panel-design-my-design-requests/

How many samples can I sequence together?

Paragon Genomics NGS technology uses a multiplexed approach that allows users to interrogate large variants of interest across hundreds to thousands of samples. We support 2688 Illumina combinatorial indexes for high-throughput workflows. Our high uniformity of amplification, high mapping rates, and on-target rates enable efficient use of sequencing space. For example, for a 1000 amplicon panel, up to 150 samples can be fit on a Miseq and 1300 samples on a NextSeq with an average of 100X coverage.

What are the benefits of Pharmacogenomics?

Pharmacogenomics can serve as a form of personalized medicine. The benefits of Pharmacogenomic testing include:

  • Improve accuracy and identification of drug and dose selection
  • Decrease potential side effects of drugs during treatment and reduce the chance of adverse drug reactions
  • Provider safer treatment
  • Lower medical costs

What is Pharmacogenomics testing used for?

The primary goal of Pharmacogenomics testing is to identify medications that pose a risk to individuals and to therefore only select medications that will be the most effective and safest option for treatment.

What are the limitations of Pharmacogenomics?

The most significant limitation for PGx at this time is the limited sample size within tests as a result to the rarity and specificity of the drug reaction testing

High-Performance Targeted Sequencing Solution for Pharmacogenomics Profiling

CleanPlex Custom NGS Panels offer excellent performance and a high level of customization to help you build smarter NGS assays. To create a custom panel for pharmacogenomics profiling, schedule a free consultation below by entering your email address.

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