Structural Multiplex Reference Standard (FFPE)
The Structural Multiplex FFPE Reference Standard is a highly-characterized, biologically-relevant quality control material, which can be used to assess the performance of NGS assays that detect structural, low-allelic somatic mutations.
The Structural Multiplex Reference Standard covers a wide range of mutations in defined genomic context. This standard is designed to challenge your molecular and bioinformatics workflow by providing validated copy number variants/ amplifications, translocations and large insertions/deletions. Additionally, you may examine the genomic context of variants within regions of specific GC-content (high vs. low). The Structural Multiplex FFPE DNA Reference Standard includes 9 digital PCR-validated variants with allelic frequencies ranging from 3.5% to 9.7% and CNVs at 4.5x and 8.5x amplification.
Highlight features of this control material include RET and ROS1 fusion variants, MYC-N and MET focal amplifications and a BRCA2 variant.
The Structural Multiplex Reference Standard is also available in high molecular weight gDNA (HD753) and cfDNA (HD786) format.
With this product you are able to:
- Evaluate workflow integrity from pre-analytical DNA extraction to post-analytical bioinformatics
- Optimize and validate the sensitivity of your workflow for structural variant detection
- Optimize and validate new cancer panels and routinely monitor the performance of your assay
Technical Data
Format
FFPE
Genes Covered
AKT1, BRAF, BRCA2, EGFR, FBXW7, FLT3, GNA11, KRAS, MET, MYC-N, NOTCH1, PIK3CA, RET, ROS1
Fixation Method
4% Formalin
Section Size
15 µm
Cell Density
3 x 108 cells per block. Approx. 3.5 x 105 cells per section
Expected DNA Yield
≥ 400 ng DNA per section using Promega Maxwell LEV Plus FFPE DNA Extraction kit
Product Information
Verified Mutations
Variant Type |
Chromosome Number |
Gene |
Variant |
Expected Allelic Frequency, % |
SNV High GC |
chr.19 |
GNA11 |
Q209L |
4.4 |
SNV High GC |
chr.14 |
AKT1 |
E17K |
3.5 |
SNV Low GC |
chr.3 |
PIK3CA |
E545K |
4.5 |
Long Insertion |
chr.7 |
EGFR |
V769_D770insASV |
4.4 |
Long Deletion |
chr.7 |
EGFR |
ΔE746 - A750 |
4.4 |
Fusion |
chr.4:chr.6 |
ROS1 |
SLC34A2/ROS1 fusion |
9.7 |
Fusion |
chr.10 |
RET |
CCDC6/RET fusion |
4.6 |
CNV |
chr.7 |
MET |
amplification |
4.5 copies |
CNV |
chr.2 |
MYC-N |
amplification |
8.5 copies |
Presence confirmed in parental cell line
Variant Type |
Chromosome Number |
Gene |
Variant |
SNV Low GC |
chr.12 |
KRAS |
G13D |
SNV High GC |
chr.9 |
NOTCH1 |
P668S |
Short Deletion |
chr.7 |
MET |
V237fs |
Short Deletion |
chr.13 |
FLT3 |
S985fs |
Short Deletion |
chr.13 |
BRCA2 |
A1689fs |
Short Deletion |
chr.4 |
FBXW7 |
G667fs |
SNV |
chr.7 |
EGFR |
G719S |
SNV |
chr.7 |
BRAF |
V600E |
SNV |
chr.3 |
PIK3CA |
H1047R |
Unit Size
1 FFPE Curl
Extractable DNA
≥ 400 ng DNA per section using Promega Maxwell LEV Plus FFPE DNA Extraction kit
Intended Use
For routine performance monitoring (Research Use Only)
General Information
Allelic Frequency
3.5%-9.7% and 4.5x and 8.5x amplification for the CNVs
Storage
4˚C
Expiry
See all product shelf life information
Quality Control
Allelic Frequency
Droplet Digital™ PCR
Genotype
Droplet Digital™ PCR
Quality
Agarose gel electrophoresis
Quantification
Quantifluor™
Please see our terms and conditions of ordering.
If you need any support, advice or additional documentation then don't hesitate to contact us here. We accept orders using the following methods:
Online:
Our online catalog and ordering system can be used to search our full menu of available Reference Standards. Select your desired reference standards and add them to the shopping basket. Your order can be submitted instantly using credit card, telephone ordering or a purchase order number as the preferred payment method.
Offline:
If you prefer to send us orders outside our online ordering system, please see the Contact Us page for telephone, fax, and email details in order to place an order. We recommend that you use our online system to identify the products you require and their respective “HD” product codes. To order offline we will require the following information:
- Product code(s) of the item(s) you wish to order (e.g. "HD123")
- Your name, email address, title and organization
- Shipping address and billing address with contact names
- Purchase Order number if you have one
- Telephone number
- VAT Number (European Countries only)
Shipping Information
Shipping information for all territories can be found on our Shipping Charges page. This includes Shipping and Handling fees, as well as shipping conditions for each product range.
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