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NovoPM™ Cancer Panel

Service Overview
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Novogene - NovoPMThe Novogene Precision Medicine (NovoPM™) comprehensive cancer genomic profiling test is a next-generation sequencing (NGS)-based assay that analyzes more than 500 genes for clinically important alterations. These genes are known to be relevant for the diagnosis and/or treatment of various solid tumors according to National Comprehensive Cancer Network (NCCN) guidelines and medical literature.

Several powerful analyses are also included with the panel: Tumor Mutation Burden (TMB) analysis, Blood Tumor Mutation Burden (bTMB) analysis, and Microsatellite Instability (MSI) analysis.

The NovoPM Advantage

  • Comprehensive Results: NovoPM™ interrogates the complete coding regions of 548 genes and the introns of 21 genes, can detect all four types of genomic abnormalities (SNV, InDel, CNV and fusion) and also generates results (TMB, bTMB and MSI) that can help guide cancer immunotherapies.
  • Flexible Test: This test is applicable to both tissue and ctDNA samples. Paired tumor/normal samples or tumor samples alone are acceptable.
  • Reliable Performance: Comprehensive analytical validation has been completed and the test includes rigorous quality control measures.
  • Competitive Price: With the world’s largest sequencing capacity and superior process efficiency, Novogene provides highly competitive prices for all our services.
  • Ultra-Fast Sample Importation (when necessary): As a high-tech life science company in Beijing, Novogene can utilize a government-authorized green channel for ultra-fast importation of clinical samples through Beijing Customs, when necessary.

NovoPM™ Service Overview

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Sequencing Strategy

  • HiSeq X or NovaSeq 6000 platforms, paired-end 150bp

Data Quality Guarantee

  • We guarantee that ≥ 80% of bases have a sequencing quality score ≥ Q30, which exceeds Illumina’s official guarantee of ≥ 75%

Sample Requirements

  • For FFPE tissue: Approximately ten 4-µm sections, each with tissue area ≥ 25 mm2, tumor content ≥ 20%
  • For extracted tissue DNA: Total DNA≥500 ng; DNA concentration (quantified by Qubit)≥20 ng/μL, total volume≥10 μL; Purity: OD260/280=1.8-2.0 without degradation or RNA contamination
  • For plasma: 4 mL (for ctDNA extraction)
  • For extracted ctDNA: Total ctDNA≥60 ng; DNA concentration (quantified by Qubit)≥3 ng/μL, total volume≥10 μL; Purity: without genomic DNA contamination
  • For whole blood: 10 mL (for ctDNA and white blood cell DNA extraction)
  • For extracted white blood cell DNA: Total DNA≥1 μg; DNA concentration (quantified by Qubit)≥20 ng/μL, total volume≥10 μL; Purity: OD260/280=1.8-2.0 without degradation or RNA contamination

Turnaround Time

  • 13 calendar days for FFPE samples from sample receipt in our laboratory to reporting; 12 calendar days from sample receipt to the delivery of raw sequencing data.
  • 10 calendar days for ctDNA samples from sample receipt in our laboratory to reporting; 9 calendar days from sample receipt to delivery of raw sequencing data.

Recommended Sequencing Depth

  • For tissue samples: 8Gb raw data with at least 1000X effective average sequencing depth
  • For plasma or whole-blood samples: 17Gb raw data with at least 2000X effective average sequencing depth
  • Sensitivity for SNV: 1.0% for tissue DNA and 0.5% for ctDNA

Interested in learning more about our NovoPM™ comprehensive genomic profiling test? Click on the link below to fill out a short form and download our informational brochure.

View brochure & validation reports

Project Example

Seeking potential therapeutic options, a 48-year-old female patient of non-small cell lung cancer with multiple lymph node metastases in China underwent a biopsy which was then sent to our lab for analysis with NovoPM. A rare somatic mutation was discovered for which there was a CFDA-approved targeted therapy. The patient responded well to this treatment with significantly extended survival and higher life quality (see details in “Clinical Outcomes” below). This case demonstrated the tremendous clinical value of comprehensive genomic analysis with a large panel like NovoPM, especially in cancer patients who have exhausted other treatment options.

Patient information

Age Cancer Type Sample Type
48 Non small cell lung cancer (NSCLC) Tissue Biopsy

Diagnostic Details

Diagnostic Result
Novel ROS1 fusion (SLC34A2-ROS1, chr6:117653720 – chr4:25678781)
Variant Summary
The SLC34A2-ROS1 fusion variant is a common ROS1 fusion in NSCLC accounting for the second highest ROS1 fusion prevalence in NSCLC 1, 2. It is likely generated from an intra-chromosomal deletion and fusion. The novel SLC34A2-ROS1 fusion variant (chr6:117653720 – chr4:25678781, 3′UTR of SLC34A2 in exon 13 was disrupted and inverted to connect a position of intronic_e32_e31 of ROS1) had never been reported before.
References:

  1. Awad MM, Katayama R, Mctigue M, et al. Acquired resistance to crizotinib from a mutation in CD74–ROS1. N Engl J Med. 2013; 368(25):2395–2401.
  2. Rimkunas VM, Crosby KE, Li D, et al. Analysis of receptor tyrosine kinase ROS1-positive tumors in non-small cell lung cancer: identifcation of a FIG-ROS1 fusion. Clin Cancer Res. 2012;18(16):4449–4457.
Relevant Therapy
Crizotinib
Drug Detail
Crizotinib has been approved by FDA for the treatment of advanced metastatic NSCLC with ROS1 or ALK rearrangements. In the Phase I clinical trial of crizotinib, 50 NSCLC patients with ROS1 fusion were enrolled, including 49 cases detected by FISH and 1 by reverse transcriptase-polymerase chain reaction (RT-PCR). The overall response rate (ORR) was 72%, with a median duration of response (DOR) of 17.6 months and a median progression-free survival (PFS) of 19.2 months.

Clinical Outcomes


Figure. Computed tomography and positron emission tomography images of the right lower lobe of the patient. A: mediastinum, upper and lower bilateral clavicle area, left armpit, and lung lymph node metastases at treatment initiation (March 2016). B: most lesions had shrunk significantly 2 months after Crizotinib treatment (May 2016). C: the metastatic lymph nodes had disappeared, with the metabolism returning to normal 11 months after Crizotinib treatment (February 2017).

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