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NovoFocus PARPi CDx

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NovoFocus PARPi CDx Overview

NovoFocus-PARPiThe synthetic lethal interaction between PARP inhibition and Homologous Recombination Repair (HRR) deficiency is being successfully exploited therapeutically in ovarian cancer, whereby three PARP inhibitors—olaparib, rucaparib, and niraparib—have received U.S. Food and Drug Administration (FDA) approval as monotherapy either in patients with germline or somatic BRCA1/2 mutations, or as maintenance therapy in platinum-sensitive recurrent disease, regardless of BRCA mutation status. The FDA also approved olaparib for patients with germline BRCA-mutated HER2-negative metastatic breast cancer previously treated with chemotherapy. Furthermore, olaparib has been granted breakthrough therapy designation as a single agent for the treatment of BRCA or ATM gene–mutated, castration-resistant metastatic prostate cancer in patients who have received a prior taxane-based chemotherapy and at least one newer hormonal agent. Patient selection for PARP inhibitor therapy is based on FDA-approved companion diagnostics such as FoundationFocus CDxBRCA and BRACAnalysis CDx.

NovoFocus™ PARPi CDx is a next-generation sequencing (NGS)-based companion diagnostic assay for PARP inhibitor (PARPi) therapies in several types of cancer. This assay is an integrated workflow from sample processing, sequencing, analysis to report generation.

NovoFocus PARPi CDx Advantages

  • Rigorous validation: The accuracy, reproducibility and stability have been validated with Horizon's Reference Standards and clinical samples.
  • Reliable Pathogenicity Interpretation: Based on ACMG/AMP guidelines and an in-house Novogene Chinese BRCA variant database, the NovoACMG pathogenicity interpretation pipeline ensures accuracy and reliability of the test results. It has been validated through the GenQA Classification of BRCA Variants Test.
  • Short Turn-around Time: 10 calendar days from sample receipt to report delivery

NovoFocus™ PARPi CDx Service Workflow


Novogene - NovoFocus Workflow

Sample Requirements

  • 2 mL whole blood or 1 μg germline DNA

Sequencing Strategy

  • NovaSeq 6000, PE150

Sequencing Coverage

  • All coding exons and ± 20 bp intron regions

Turnaround Time

  • 10 calendar days from sample receipt to report delivery

Variant Types Detected

  • SNV, InDel, and CNV

Gene Targets

  • 45 genes including BRCA1/2, ATM, homologous recombination repair genes, mismatch repair genes and others that are related to the efficacy of PARPi therapies according to clinical trials and/or the medical literature.
Gene Targets

NovoACMG Interpretation

The NovoACMG Pipeline is a genetic pathogenicity interpretation pipeline developed by Novogene for this test. With the ACMG guideline as its framework, this pipeline also incorporates the rules from ENIGMA Criteria, China BRCA Interpretation Consensus and NICPBP Criteria. In addition, special consideration is given to Chinese population-specific BRCA variants according to the Novogene Chinese BRCA variant database.

NovoACMG

The Novogene Chinese BRCA variant database is constructed by Novogene to improve the accuracy of variant pathogenicity interpretation for the Chinese population. More than half of the variants in this database are not yet included in the existing public databases (e.g. BIC, ClinVar, ENIGMA and UMD).

Novogene BRCA Variant Database


Novogene BRCA Variant Database

Minimum DNA input and sequencing depth

  • 50 ng DNA and 20X for 95% of test sensitivity

Accuracy

This test demonstrated 100% accuracy in validation experiments using the following reference sample sets:

  • Horizon BRCA Germline I Reference Standards (1 sample with 16 variants)
  • The Chinese National Reference Standards for BRCA gene mutation (25 samples with 32 variants)
  • Novogene’s internal BRCA reference standards (10 samples with 10 variants)

Reproducibility

Test results for the Horizon BRCA Germline I Reference Standards and Novogene’s internal BRCA reference standards were 100% reproducible in within-run and across-reagent batch/operator/instrument reproducibility tests.

Stability

No interference on the test results was found with common interferents in regular clinical blood samples including EDTA, bilirubin, triglyceride, Escherichia coli and Staphylococcus aureus.