qBiomarker Somatic Mutation PCR Arrays

For rapid and accurate profiling of the somatic DNA mutation status of gene panels

Pathway- or disease-focused profiling of somatic mutation status
Simple real-time PCR procedure
High sensitivity and wide dynamic range
Designed for routine use on most PCR instruments
Master mix included

qBiomarker Somatic Mutation PCR Arrays are translational research tools that allow rapid and accurate profiling of the somatic mutation status for important genes related to a biological pathway or disease. Mutations are selected from comprehensive somatic mutation databases (e.g., COSMIC) and peer-reviewed scientific literature based on their clinical or functional relevance and frequency of occurrence.

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Product Details
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Available Products

Product	Product no.	Cat. no.	List price:
qBiomarker Somatic Mutation PCR Array for EGFR Pathway PCR plate and master mix show details	337021	SMH-001AA	varies	configure
qBiomarker Somatic Mutation PCR Array for ErbB2 Pathway PCR plate and master mix show details	337021	SMH-002AA	varies	configure
qBiomarker Somatic Mutation PCR Array for FLT3 Pathway PCR plate and master mix show details	337021	SMH-003AA	varies	configure
qBiomarker Somatic Mutation PCR Array for PDGFR Pathway PCR plate and master mix show details	337021	SMH-004AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human FGFR Pathway PCR plate and master mix show details	337021	SMH-005AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human KIT Pathway PCR plate and master mix show details	337021	SMH-006AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human c-MET Pathway PCR plate and master mix show details	337021	SMH-007AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Receptor Tyrosine Kinase (RTK) Pathways (Panel I) PCR plate and master mix show details	337021	SMH-008AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Receptor Tyrosine Kinase (RTK) Pathways (Panel Il) PCR plate and master mix show details	337021	SMH-009AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human APC/CTNNB1 (beta-catenin) Pathway PCR plate and master mix show details	337021	SMH-010AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human p53/Rb Pathway PCR plate and master mix show details	337021	SMH-011AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human RAS-RAF Pathway PCR plate and master mix show details	337021	SMH-013AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human PI3K-AKT Signaling Pathway PCR plate and master mix show details	337021	SMH-014AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Breast Cancer PCR plate and master mix show details	337021	SMH-020AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Colon Cancer PCR plate and master mix show details	337021	SMH-021AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Hematopoietic Neoplasms PCR plate and master mix show details	337021	SMH-022AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Lung Cancer PCR plate and master mix show details	337021	SMH-023AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Skin Cancers PCR plate and master mix show details	337021	SMH-024AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Brain Cancers PCR plate and master mix show details	337021	SMH-025AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Lymphoid Neoplasms PCR plate and master mix show details	337021	SMH-026AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Soft Tissue Tumors PCR plate and master mix show details	337021	SMH-027AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Thyroid Cancer PCR plate and master mix show details	337021	SMH-028AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Melanoma PCR plate and master mix show details	337021	SMH-029AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Bladder Cancer PCR plate and master mix show details	337021	SMH-030AA	varies	configure
qBiomarker™qBiomarker™ Somatic Mutation PCR Array Human Endometrial Cancer PCR plate and master mix show details	337021	SMH-032AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Endometrial Cancer PCR plate and master mix show details	337021	SMH-032BA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Kidney Cancer PCR plate and master mix show details	337021	SMH-033CA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Liver Cancer PCR plate and master mix show details	337021	SMH-034AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Pancreatic Cancer PCR plate and master mix show details	337021	SMH-035AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Prostate Cancer PCR plate and master mix show details	337021	SMH-036BA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Head & Neck Cancer PCR plate and master mix show details	337021	SMH-037AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Esophageal Cancer PCR plate and master mix show details	337021	SMH-038AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Ovarian Cancer PCR plate and master mix show details	337021	SMH-039AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Gastric Cancer PCR plate and master mix show details	337021	SMH-041AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Acute Myeloid Leukemia PCR plate and master mix show details	337021	SMH-045AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Myelodysplastic Syndromes PCR plate and master mix show details	337021	SMH-046AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Oncogene Panel (384-well format) PCR plate and master mix show details	337021	SMH-3002AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Oncogene and Tumor Suppressor Panel (384-well format) PCR plate and master mix show details	337021	SMH-3003AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Tumor Suppressor Panel (384-well format) PCR plate and master mix show details	337021	SMH-3004AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Tyrosine Kinases and Cell Signaling Pathways (384-well format) PCR plate and master mix show details	337021	SMH-3005AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Lung and Colon Cancers (Expanded Panel) PCR plate and master mix show details	337021	SMH-3006AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Cancer Comprehensive 384HC PCR plate and master mix show details	337021	SMH-3007AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Tumor Suppressor Genes 384HC PCR plate and master mix show details	337021	SMH-3008AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human Receptor Tyrosine Kinase Signaling 384HC PCR plate and master mix show details	337021	SMH-3009AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human APC Gene PCR plate and master mix show details	337021	SMH-801AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human BRAF Gene PCR plate and master mix show details	337021	SMH-802AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human CTNNB1 Gene PCR plate and master mix show details	337021	SMH-803AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human EGFR Gene PCR plate and master mix show details	337021	SMH-804AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human KIT Gene PCR plate and master mix show details	337021	SMH-805AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human KRAS Gene PCR plate and master mix show details	337021	SMH-806AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human PDGFR Gene PCR plate and master mix show details	337021	SMH-807AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human PIK3CA Gene PCR plate and master mix show details	337021	SMH-808AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human PTEN Gene PCR plate and master mix show details	337021	SMH-809AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human RUNX1 Gene PCR plate and master mix show details	337021	SMH-810AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human STK11 Gene PCR plate and master mix show details	337021	SMH-811AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human TP53 Gene PCR plate and master mix show details	337021	SMH-812AA	varies	configure
qBiomarker™ Somatic Mutation PCR Array Human DNA QC Pathway PCR plate and master mix show details	337021	SMH-999AA	varies	configure

qBiomarker Somatic Mutation PCR Arrays are intended for molecular biology applications. These products are not intended for the diagnosis, prevention, or treatment of a disease.

Main Image Navi

Profiling of common cancer cell lines for somatic mutation status.|Sensitivity of qBiomarker Somatic Mutation PCR Arrays with FFPE samples.|Principle of ARMS technology.|High degree of sensitivity.|qBiomarker Somatic Mutation PCR Arrays.|

200 ng gDNA from wild-type or cancer cell lines had 85 mutations (x axis) profiled on the Human EGFR qBiomarker Somatic Mutation PCR Array. Each detected mutation is indicated as a peak. All previously identified mutations in the EGFR pathway in these cell lines were confirmed.|The Human EGFR Pathway qBiomarker Somatic Mutation PCR Array profiled 85 mutations (x axis) in 4 FFPE cell line samples, a wild-type FFPE placenta sample control, and 9 lung adenocarcinoma FFPE tissue samples of primarily (8 out of the 9 samples) Caucasian origin with mixed gender and smoking status (samples along y axis). The array detected BRAF and KRAS mutations in the FFPE MDAMB- 231 cell line (shown as peaks), which were independently confirmed using the QIAGEN KRAS PCR Kit and Pyrosequencing. One KRAS somatic mutation and one EGFR somatic mutation were also detected in 2 FFPE lung adenocarcinoma samples.||A dilution series of mixed genomic DNA samples derived from A375 cells (BRAF V600E positive) and wild type genomic DNA were tested for BRAF V600E with or without whole genome amplification (WGA). The sensitivity of this assay was determined to be 1–2%.||

Performance

qBiomarker Somatic Mutation PCR Arrays show a high degree of sensitivity — even with formalin-fixed paraffin-embedded (FFPE) samples (see figures "High degree of sensitivity" and "Sensitivity of qBiomarker Somatic Mutation PCR Arrays with FFPE samples").

qBiomarker Somatic Mutation PCR Arrays have utility in the detection of mutations in cell lines or research samples, which is critical for toxicological, drug development, and cancer studies (see figure "Profiling of common cancer cell lines for somatic mutation status").

Principle

Real-time PCR is the most sensitive and reliable method for the detection of DNA mutations. By combining allele-specific amplification and hydrolysis probe detection, qBiomarker Somatic Mutation real-time PCR assays have been developed which can detect as few as 1% somatic mutations in the background of wild-type genomic DNA. Allele-specific amplification is achieved by Amplification Refractory Mutation System (ARMS) technology, which is based on the discrimination by Taq polymerase between a match and a mismatch at the 3’ end of the PCR primer (see figure "Principle of ARMS technology").

Procedure

Simply mix the DNA template with the ready-to-use PCR mastermix, aliquot equal volumes to each well of the same plate, and then run the real-time PCR cycling program. qBiomarker Somatic Mutation PCR Arrays are compatible with all ABI, Bio-Rad, Eppendorf, Roche, and Stratagene instruments.

qBiomarker Somatic Mutation PCR Arrays are available in 96-well and 384-well plates and are used to detect mutations related to a disease state or pathway, plus gene copy number controls for normalization. Each qBiomarker Somatic Mutation PCR Array also includes control elements for general PCR performance.

Easy-to-use data analysis

Data can be analyzed using the available Excel-based data analysis templates. Data analysis is based on either the ∆∆C_T or Average ∆C_T method.

Arrays are available in a variety of formats, all with mastermix included:

qBiomarker Somatic Mutation PCR Array Format A: Fluoroscein, 96-well; for Bio-Rad iCycler, iQ5, MyiQ, and MyiQ2 instruments

qBiomarker Somatic Mutation PCR Array Format A: ROX, 96-well; for ABI Standard 96-well Blocks (5700, 7000, 7300, 7500, 7900HT, ViiA 7); Bio-Rad Chromo 4 (MJ Research); Stratagene Mx3005p, Mx3000p; Eppendorf ep realplex 2/2S, and 4/4S instruments

qBiomarker Somatic Mutation PCR Array Format C: ROX, 96-well; for ABI 7500 FAST 96-well Block, 7900HT FAST 96-Well Block, StepOnePlus, and ViiA 7 FAST 96-well Block instruments

qBiomarker Somatic Mutation PCR Array Format D: ROX, 96-well; for Bio-Rad CFX96, Opticon and Opticon 2 (MJ Research); Stratagene Mx4000 instruments

qBiomarker Somatic Mutation PCR Array Format E: ROX, 384-well; for ABI 7900HT 384-well Block, ViiA 7 384-well Block; Bio-Rad CFX384 instruments

qBiomarker Somatic Mutation PCR Array Format F: ROX, 96-well; for Roche LightCycler 480 96-well Block instruments

qBiomarker Somatic Mutation PCR Array Format G : ROX, 384-well; for Roche LightCycler 480 96-well Block instruments

Applications

qBiomarker Somatic Mutation PCR Arrays are highly suited for the rapid and accurate profiling of mutations for a pathway- or disease-focused set of genes and key downstream and associated signaling genes.

Application Notes

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	High-quality genomic DNA isolation and sensitive mutation analysis	Show details

FAQs

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	How many different genes and gene mutations are on a Somatic Mutation PCR Array? FAQ ID -2427	View
	How are the different mutations for a single gene normalized on the qBiomarker Somatic Mutation PCR array? FAQ ID -2428	View
	Where are the somatic mutations published? FAQ ID -2429	View
	How can I check DNA sample quality before using the Somatic Mutation PCR Arrays & Assays? FAQ ID -2430	View
	How much DNA starting sample is needed for analysis with a Somatic Mutations PCR Array? And Assay? FAQ ID -2431	View
	What is the sensitivity of the assays contained on the qBiomarker Somatic Mutation PCR Arrays? FAQ ID -2910	View
	How many mutations can I profile per sample on the qBiomarker Somatic Mutation PCR Array? FAQ ID -2911	View
	Were all assays on the qBiomarker Somatic Mutation PCR Arrays bench-validated? FAQ ID -2912	View
	How do you decide on the qBiomarker Somatic Mutation PCR Arrays to include on the pathway arrays and disease arrays? FAQ ID -2913	View
	What are the control features on the qBiomarker Somatic Mutation PCR Arrays? FAQ ID -2914	View
	What is the data analysis method, and where can I find it for the qBiomarker Somatic Mutatation PCR arrays? FAQ ID -2915	View
	What is the principle for qBiomarker Somatic Mutation PCR Array data analysis? FAQ ID -2916	View
	What PCR machine do I need to use to run such a qBiomarker Somatic Mutation PCR Arrays? FAQ ID -2917	View
	What effects can be predicted with poor sample quality? How robust is the platform with questionable sample quality (such as FFPE samples)? FAQ ID -2918	View
	What sample types can I test on the qBiomarker Somatic Mutation PCR Arrays? FAQ ID -2919	View
	What method(s) do you recommend as an alternative way to validate the mutations identified on the somatic mutation PCR arrays? FAQ ID -2920	View
	What are the advantages of RT-PCR based somatic mutation PCR arrays and assays compared to other platforms? FAQ ID -2921	View
	What pathways and diseases are currently covered for the qBiomarker Somatic Mutation PCR Arrays? FAQ ID -2922	View
	How do I use the qBiomarker Somatic Mutation PCR Arrays? FAQ ID -2923	View
	What are the technological principles behind somatic mutation PCR arrays and assays? FAQ ID -2924	View

Articles

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	(EN) Somatic mutations and copy number changes in cancer: finding the right targetsresponse	View

White Papers

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	(EN) - Rapid and accurate cancer somatic mutation profiling with the qBiomarker Somatic Mutation PCR Arrays	Show details

Instrument Technical Documents

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	(EN) - qBiomarker Somatic Mutation PCR Arrays For screening disease-focused mutation panels by PCR	Show details
	QIAGEN Service Core - (EN) For gene expression and genomic analysis	Show details

Kit Handbooks

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	(EN) - qBiomarker Somatic Mutation PCR Handbook For real-time PCR-based, pathway- or disease-focused, somatic mutation profiling	Show details

Supplementary Protocols

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	Applied Biosystems 7500 (Fast block) real-time PCR run setup instructions for qBiomarker Somatic Mutation PCR Arrays	Show details
	Applied Biosystems 7900HT real-time PCR run setup instructions for qBiomarker Somatic Mutation PCR Arrays	Show details
	Bio-Rad iCycler and iQ real-time PCR run setup instructions for qBiomarker Somatic Mutation PCR Arrays	Show details
	Rotor-Gene Q real-time PCR setup instructions for qBiomarker Somatic Mutation PCR Arrays	Show details
	Roche LightCycler 480 real-time PCR run setup instructions for qBiomarker Somatic Mutation PCR Arrays	Show details
	Stratagene Mx3000P QPCR System real-time PCR run setup instructions for qBiomarker Somatic Mutation PCR Arrays	Show details
	Applied Biosystems ViiA7 real-time PCR run setup instructions for qBiomarker Somatic Mutation PCR Arrays	Show details

Safety Data Sheets

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	MSDS qBiomarker Somatic Mutation PCR Arrays

References

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