ONCODEcipher - Solid Tumour Panels

  • Oncode offers a range of next-generation sequencing (NGS) panels for solid tumours which is designed to target genes with clinical relevance.
  • Liquid biopsy can be an option when tissue biopsy is not possible or when it might be risky, and for the monitoring of disease progression or emergence of drug resistance.
  • Comprehensive molecular profiling panel is recommended for more advanced cancer to:
    • allow identification of rare driver mutations for which effective drugs may already be available in the context of other cancers
    • allows clinician to counsel patients regarding the availability of clinical trials more effectively

Lung Cancer

ONCODEcipher Lung LiquidPinpoint
ONCODEcipher Lung LiquidPinpoint is a NGS panel targeting 5 most important genes that are frequently mutated in lung cancer, given as EGFR, ALK, BRAF, NRAS and KRAS using only the blood of the patients.

Specimen Requirements:
15ml blood in Streck tubes

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.

ONCODEcipher Lung Liquid28
ONCODEcipher Lung Liquid28 is a NGS panel that delivers information on a variety of treatment-informative mutations in the 28 genes which are known to play a role in cases of NSCLC using only the blood of the patients.

Specimen Requirements:
15ml blood in Streck tubes

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.

ONCODEcipher Lung Comprehensive
ONCODEcipher Lung Comprehensive is a targeted NGS panel that simultaneously detects and characterizes single nucleotide polymorphisms (SNVs) and insertions and deletions (indels) in 67 genes associated with solid tumours.

Specimen Requirements:
• FFPE block OR 10 FFPE Slides (10µm thick sections) with at least 30% tumour cellularity
• 1 H&E stained slide cut from same block

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.
ONCODEcipher Lung Extended
ONCODEcipher Lung Extended is a targeted NGS panel targeting 36 genes commonly mutated in solid tumours for fusion (ALK, ROS, MET, RET etc.) and mutation (EGFR, KRAS, NRAS, BRAF, ALK etc.).

Specimen Requirements:
• FFPE block OR 10 FFPE Slides (10µm thick sections) with at least 30% tumour cellularity
• 1 H&E stained slide cut from same block

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.
ONCODEcipher MSI
Microsatellites are short, tandemly repeated DNA sequences from 1-6 base pairs in length. Microsatellite markers can be used to detect a form of genetic instability called Microsatellite Instability (MSI). MSI is a consequence of germline or somatic inactivation of mismatch repair (MMR) deficient. Loss or down-regulation of the expression of the protein products of these genes results in failure of the DNA mismatch repair system.

Earlier studies have suggested that metastatic colorectal cancer patients with high levels of MSI indicates a better prognosis and is more sensitive to immunotherapy (pembrolizumab). Recent studies have shown that MSI is also a useful indicator for predicting response to immunotherapy in any solid tumour type[2].

ONCODEcipher MSI test is a PCR and fragment analysis assay to detect the increase in length of the microsatellite segment by comparing microsatellite allele size variations between normal and tumour samples in five mononucleotide repeat markers (BAT-25, BAT-26, NR-21, NR-24 and MONO-27) and two pentanucleotide repeat marker (Penta C and Penta D).

Specimen Requirements:
Tumour FFPE block OR 10 FFPE Slides (10µm thick sections) with at least 30% tumour cellularity & 1 H&E stained slide cut from same block AND
Non-Tumour 3ml blood in EDTA tube OR FFPE Block OR 10 unstained Slides (10µm thick sections) of non-tumour tissue

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.

Colorectal Cancer

ONCODEcipher Colon LiquidPinpoint
ONCODEcipher Colon LiquidPinpoint is a NGS panel targeting 5 most important genes that are frequently mutated in colon cancer, given as KRAS, NRAS, BRAF, EGFR and ALK using only the blood of the patients.

Specimen Requirements:
15ml blood in Streck tubes

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.
ONCODEcipher Colon Liquid28
ONCODEcipher Colon Liquid28 is a NGS panel that delivers information on a variety of treatment-informative mutations in the 28 genes which are known to play a role in cases of colorectal cancer using only the blood of the patients.

Specimen Requirements:
15ml blood in Streck tubes

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.
ONCODEcipher Colon Comprehensive
ONCODEcipher Colon Comprehensive is a targeted NGS panel that simultaneously detects and characterizes single nucleotide polymorphisms (SNVs) and insertions and deletions (indels) in 67 genes associated with solid tumours.

Specimen Requirements:
• FFPE block OR 10 FFPE Slides (10µm thick sections) with at least 30% tumour cellularity
• 1 H&E stained slide cut from same block

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.
ONCODEcipher MSI
Microsatellites are short, tandemly repeated DNA sequences from 1-6 base pairs in length. Microsatellite markers can be used to detect a form of genetic instability called Microsatellite Instability (MSI). MSI is a consequence of germline or somatic inactivation of mismatch repair (MMR) deficient. Loss or down-regulation of the expression of the protein products of these genes results in failure of the DNA mismatch repair system.

NCCN guideline recommends testing all patients with colorectal cancer for Lynch syndrome also known as Hereditary non-polyposis colorectal cancer (HNPCC) for better treatment planning. MSI occurs in more than 90% of patients with Lynch syndrome. MSI can also occur in the absence of Lynch syndrome as they are found in about 15% of colon cancers without Lynch syndrome. Family members who are at risk of inherited the familial mutation of Lynch syndrome can be tested to determine whether they are at risk for developing colorectal cancer and if so, they should undergo frequent surveillance screening[1].

Earlier studies have suggested that metastatic colorectal cancer patients with high levels of MSI indicates a better prognosis and is more sensitive to immunotherapy (pembrolizumab). Recent studies have shown that MSI is also a useful indicator for predicting response to immunotherapy in any solid tumour type[2].

ONCODEcipher MSI test is a PCR and fragment analysis assay to detect the increase in length of the microsatellite segment by comparing microsatellite allele size variations between normal and tumour samples in five mononucleotide repeat markers (BAT-25, BAT-26, NR-21, NR-24 and MONO-27) and two pentanucleotide repeat marker (Penta C and Penta D).

Specimen Requirements:
Tumour FFPE block OR 10 FFPE Slides (10µm thick sections) with at least 30% tumour cellularity & 1 H&E stained slide cut from same block AND
Non-Tumour 3ml blood in EDTA tube OR FFPE Block OR 10 unstained Slides (10µm thick sections) of non-tumour tissue

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.

Central Nervous System Tumour

ONCODEcipher CNS Pinpoint
ONCODEcipher CNS LiquidPinpoint is a PCR-based technique using Multiplex Ligation-dependent Probe Amplification (MLPA) to detect 1p19q deletion, IDH1 & IDH2 mutations.

Specimen Requirements:
• Tumour FFPE block OR 10 FFPE Slides (10µm thick sections) with at least 30% tumour cellularity & 1 H&E stained slide cut from same block AND
• Non-Tumour 3ml blood in EDTA tube OR FFPE Block OR 10 unstained Slides (10µm thick sections) of non-tumour tissue

Turn Around Time:
15 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.
ONCODEcipher CNS MGMT
ONCODEcipher CNS MGMT is a real time PCR-based technique to detect MGMT methylation.

Specimen Requirements:
• Tumour FFPE block OR 10 FFPE Slides (10µm thick sections) with at least 30% tumour cellularity & 1 H&E stained slide cut from same block AND
• Non-Tumour 3ml blood in EDTA tube OR FFPE Block OR 10 unstained Slides (10µm thick sections) of non-tumour tissue

Turn Around Time:
15 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.

Breast & Ovarian Cancer

ONCODEcipher Breast & Ovarian Liquid28
ONCODEcipher Breast & Ovarian Liquid28 is a NGS panel that delivers information on a variety of treatment-informative mutations in the 28 genes which are known to play a role in cases of breast and ovarian cancer using only the blood of the patients.

Specimen Requirements:
15ml blood in Streck tubes

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.
ONCODEcipher Breast & Ovarian Comprehensive
ONCODEcipher Breast & Ovarian Comprehensive is a NGS panel that simultaneously detects and characterizes single nucleotide polymorphisms (SNVs) and insertions and deletions (indels) in 67 genes associated with solid tumours.

Specimen Requirements:
• FFPE block OR 10 FFPE Slides (10µm thick sections) with at least 30% tumour cellularity
• 1 H&E stained slide cut from same block

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.
ONCODEcipher BRCA1/2 (germline)
ONCODEcipher BRCA1/2 (germline) is a robust targeted NGS assay along with Multiplex Ligation-Dependent Probe Amplification (MLPA) to simultaneously detect and characterize all known germline mutations, including SNP, insertions, and deletions, in BRCA1 and BRCA2 with full exon coverage.

MLPA represents the gold standard for molecular analysis of all pathologies derived from the presence of gene copy number variation (e.g. BRCA1/2 genes). Number of studies have demonstrated that gene deletions/duplications in BRCA genes are detectable in a portion of cases which are negative to the screening of point mutations (false negative).

Specimen Requirements:
3ml blood in EDTA tubes

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.

All Solid Tumours

ONCODEcipher LiquidPinpoint
ONCODEcipher LiquidPinpoint is a NGS panel targeting 5 most important genes that are frequently mutated in solid tumours , given as EGFR, ALK, BRAF, NRAS and KRAS using only the blood of the patients.

Specimen Requirements:
15ml blood in Streck tubes

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.

ONCODEcipher Liquid28
ONCODEcipher Liquid28 is a NGS panel that delivers information on a variety of treatment-informative mutations in the 28 genes which are known to play a role in cases of solid tumours using only the blood of the patients.

Specimen Requirements:
15ml blood in Streck tubes

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.

ONCODEcipher Comprehensive
ONCODEcipher Comprehensive is a targeted NGS panel that simultaneously detects and characterizes single nucleotide polymorphisms (SNVs) and insertions and deletions (indels) in 67 genes associated with solid tumours.

Specimen Requirements:
• FFPE block OR 10 FFPE Slides (10µm thick sections) with at least 30% tumour cellularity
• 1 H&E stained slide cut from same block

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.
ONCODEcipher Extended
ONCODEcipher Extended is a targeted NGS panel targeting 36 genes commonly mutated in solid tumours for fusion (ALK, ROS, MET, RET etc.) and mutation (EGFR, KRAS, NRAS, BRAF, ALK etc.).

Specimen Requirements:
• FFPE block OR 10 FFPE Slides (10µm thick sections) with at least 30% tumour cellularity
• 1 H&E stained slide cut from same block

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.
ONCODEcipher MSI
Microsatellites are short, tandemly repeated DNA sequences from 1-6 base pairs in length. Microsatellite markers can be used to detect a form of genetic instability called Microsatellite Instability (MSI). MSI is a consequence of germline or somatic inactivation of mismatch repair (MMR) deficient. Loss or down-regulation of the expression of the protein products of these genes results in failure of the DNA mismatch repair system.

NCCN guideline recommends testing all patients with colorectal cancer for Lynch syndrome also known as Hereditary non-polyposis colorectal cancer (HNPCC) for better treatment planning. MSI occurs in more than 90% of patients with Lynch syndrome. MSI can also occur in the absence of Lynch syndrome as they are found in about 15% of colon cancers without Lynch syndrome. Family members who are at risk of inherited the familial mutation of Lynch syndrome can be tested to determine whether they are at risk for developing colorectal cancer and if so, they should undergo frequent surveillance screening[1].

Earlier studies have suggested that metastatic colorectal cancer patients with high levels of MSI indicates a better prognosis and is more sensitive to immunotherapy (pembrolizumab). Recent studies have shown that MSI is also a useful indicator for predicting response to immunotherapy in any solid tumour type[2].

ONCODEcipher MSI test is a PCR and fragment analysis assay to detect the increase in length of the microsatellite segment by comparing microsatellite allele size variations between normal and tumour samples in five mononucleotide repeat markers (BAT-25, BAT-26, NR-21, NR-24 and MONO-27) and two pentanucleotide repeat marker (Penta C and Penta D).

Specimen Requirements:
Tumour FFPE block OR 10 FFPE Slides (10µm thick sections) with at least 30% tumour cellularity & 1 H&E stained slide cut from same block AND
Non-Tumour 3ml blood in EDTA tube OR FFPE Block OR 10 unstained Slides (10µm thick sections) of non-tumour tissue

Turn Around Time:
10 working days

Shipment Requirement:
Keep specimen at room temperature. DO NOT ship on ice or dry ice or expose to direct sunlight.