OncoRisk Panel

Comprehensive and Specialized Hereditary Cancer Panel

Overview

Analysis of Inherited Oncogenes

Celemics’ OncoRisk panel is specifically designed to analyze hereditary cancer associated genes. The OncoRisk panel is a hereditary cancer panel that targets 31 well-known oncogenes, leading to a reduction of total sequencing cost compared to whole genome sequencing or whole exome sequencing. Additionally, if the gene of interest does not exist on the panel, it can be added separately through our gene add-on service. This flexible design provides cost-effective sequencing results to every customer.

hereditary-cancer
Features & Benefits

Comprehensive Analysis of Oncogenes

The panel consists of 31 oncogenes associated with inherited cancer precisely selected from Contract Research Organizations and numerous research studies. Owing to Celemics’ proprietary probe design and manufacture technology, hereditary cancer panel demonstrates industry-leading performance with superior sensitivity and specificity compared to other competitor products in the market.

hereditary-cancer

Robust Bioinformatics System for Large Deletion Analysis

At Celemics, we provide results for large deletion analysis supported by Celemics proprietary bioinformatics analysis system. We also complement this bioinformatics solution with user-friendly customizable solutions, like CNV or any other novel variant analyses.

PN170 CDKN2A CNV plot

  • Example of CNV analysis results (CDKN2A) for specific target regions
  • Higher sequencing depths in the target regions, enabling accurate CNV analysis

NGS for Homologous Recombination Deficiency (HRD) Testing

Celemics’ hereditary cancer panel provides information for HRD grade computation to aid precision medicine for tumor treatment with 99.9% and 99.5% specificity for SNV and Indel, respectively. It can also detect all types of mutations with over 95% of sensitivity at 5% VAF.

Example of variants and CNV analysis results

  • This example of variant analysis results include AA change, mutation type, total sequencing depth, allele frequency, etc.
Gene Mutation Type Amino Acid Change Total Depth REF Depth ALT Depth Variant Allele Frequency
APC SYN p.S1738S 1008 590 415 41.17%
ATM Non-SYN p.D1853N 417 200 217 52.04%
BARD1 Non-SYN p.R658C 829 435 394 47.53%
BMPR1A Non-SYN p.P2T 621 309 311 50.08%
BRCA1 SYN p.S1389S 802 460 342 42.64%
BRCA2 SYN p.V2171V 1026 0 1026 100%
BRIP1 SYN p.Y1137Y 844 3 840 99.53%
PMS2 NON-SYN K541E 686 0 646 100%
PRSS1 SYN p.N246N 921 0 921 100%
RAD51D NON-SYN p.R53Q 971 0 971 100%

Specification

*Gene Add-On Service: Genes can be added by customer’s request.
Gene count* 31 genes
Covered region Whole CDS
Target size 96 Kb
Mutation type SNV, Indel, CNV, Rearrangement
Sample type Blood (> 50 ng of fragmented DNA), FFPE
Platform All sequencers from Illumina, Thermo Fisher, MGI, PacBio, and Oxford Nanopore
Sensitivity > 95% for all variant types at 5% VAF
Specificity 99.90%(SNV), 99.50%(Indel)
Bioinformatics Support ① Primary Analysis: FASTQ to annotated VCF
② Secondary Analysis: CNV, Large InDel
③ Tertiary Analysis: Clinical interpretation

Specification - Gene List

Gene
List
APC ATM BARD1 BLM BMPR1A BRCA1 BRCA2 BRIP1
CDH1 CDK4 CDKN2A CHEK2 EPCAM MLH1 MRE11A MSH2
MSH6 MUTYH NBN PALB2 PMS2 PRSS1 PTEN RAD50
RAD51C RAD51D SLX4 SMAD4 STK11 TP53 VHL

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Resources

Technical Resources

[Product Sheet] OncoRiskPanel

[Product Overview] Celemics Target Enrichment Panel Overview

[Catalogue] Celemics Products & Service Catalogue_All Products & Service

Safety Data Sheets

If you require the latest MSDS file, please contact us via ‘Contact Us‘.

MSDS_OncoRisk Panel_Illumina

MSDS_OncoRisk Panel_Thermo Fisher

MSDS_OncoRisk Panel_MGI

References

Cancer Research and Treatment

Varlitinib and Paclitaxel for EGFR/HER2 Co-Expressing Advanced Gastric Cancer: A Multicenter Phase Ib/II Study (K-MASTER-13)

Koo DH, Jung M, Kim YH, Jeung HC, Zang DY, Bae WK, Kim H, Kim HS, Lee CK, Kwon WS, Chung HC. Varlitinib and Paclitaxel for EGFR/HER2 Co-Expressing Advanced Gastric Cancer: a Multicenter Phase Ib/II Study (K-MASTER-13). Cancer Research and Treatment. 2024 Apr 29.

 

10.4143/crt.2023.1324


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Summary | celemics publications


#Oncology


#ctDNA Sample


# AlphaLiquid® 100 Panel

Purpose

Varlitinib is a pan-human epidermal growth factor receptor (HER) inhibitor targeting epidermal growth factor receptor (EGFR), HER2, and HER4. We present a phase Ib/II study of a combination of varlitinib and weekly paclitaxel as a second-line treatment for patients with EGFR/HER2 co-expressing advanced gastric cancer (AGC).

Result

Genomic alteration landscape in circulating tumor DNA analysis according to the progression-free survival (PFS), overall survival (OS), and EGFR/HER2 immunohistochemical expression (n=15).


Conclusion

A combination of varlitinib and paclitaxel displayed manageable toxicity and modest antitumor activity in patients with EGFR/HER2 co-expressing AGC who progressed after first-line chemotherapy.

Method

The circulating tumor DNA (ctDNA) was extracted from the patient’s plasma (10 mL) at two time points (before treatment and at the first response evaluation or end of the treatment). The DNA NGS library and solution-based target enrichment were performed at IMBdx, Inc. (Seoul, Korea), using AlphaLiquid100. The captured DNA libraries were sequenced using the Illumina NovaSeq 6000 platform (Illumina, San Diego, CA) in the 2×150 bp paired-end mode.

Related Product

Circulating Tumor DNA Panel for 

Colorectal / Lung / Breast Cancer


View Detail >

The circulating tumor DNA (ctDNA) was extracted from the patient’s plasma (10 mL) at two time points (before treatment and at the first response evaluation or end of the treatment). The DNA NGS library and solution-based target enrichment were performed at IMBdx, Inc. (Seoul, Korea), using AlphaLiquid100. The captured DNA libraries were sequenced using the Illumina NovaSeq 6000 platform (Illumina, San Diego, CA) in the 2×150 bp paired-end mode.


liquid-biopsy

Colorectal Cancer
Sensitivity Freq. 0.5% 100%
Freq. 1.0% 100%
Specificity 97.9%


liquid-biopsy

Breast Cancer
Sensitivity Freq. 0.5% 94.4%
Freq. 1.0% 100%
Specificity 96.3%


liquid-biopsy

Lung Cancer
Sensitivity Freq. 0.5% 100%
Freq. 1.0% 100%
Specificity 100%




Image_blog-Thumbnail_Celemics Contact Us_image_link_Got Questions

Cancers

Discovery and Validation of Survival-Specific Genes in Papillary Renal Cell Carcinoma Using a Customized Next-Generation Sequencing Gene Panel

Hwang J, Bang S, Choi MH, Hong SH, Kim SW, Lee HE, Yang JH, Park US, Choi YJ. Discovery and Validation of Survival-Specific Genes in Papillary Renal Cell Carcinoma Using a Customized Next-Generation Sequencing Gene Panel. Cancers. 2024 Jan;16(11):2006.

 

10.3390/cancers16112006


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Frontiers in Neurology

Case report: Compound heterozygous variants detected by next-generation sequencing in a Tunisian child with ataxia-telangiectasia

Ammous-Boukhris N, Abdelmaksoud-Dammak R, Ben Ayed-Guerfali D, Guidara S, Jallouli O, Kamoun H, Charfi Triki C, Mokdad-Gargouri R. Case report: Compound heterozygous variants detected by next-generation sequencing in a Tunisian child with ataxia-telangiectasia. Frontiers in Neurology. 2024 May 31;15:1344018.

 

10.3389/fneur.2024.1344018


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Scientific Reports

Sex-specific survival gene mutations are discovered as clinical predictors of clear cell renal cell carcinoma

Hwang J, Lee HE, Han JS, Choi MH, Hong SH, Kim SW, Yang JH, Park U, Jung ES, Choi YJ. Sex-specific survival gene mutations are discovered as clinical predictors of clear cell renal cell carcinoma. Scientific Reports. 2024 Jul 9;14(1):15800.

 

10.1038/s41598-024-66525-9


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