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SALSA MLPA Probemix P077 BRCA2 Confirmation

Breast and ovarian cancer, hereditary (HBOC) (confirmation of P045/P090)

Region: BRCA2 13q13.1

MLPA | CE CO CR IL MA
Intended use: The SALSA MLPA probemix P077 BRCA2 Confirmation is an in vitro diagnostic (IVD)1 or a research use only (RUO) assay for the confirmation of deletions or duplications in the human BRCA2 gene as initially observed using the SALSA MLPA P090 BRCA2 probemix or SALSA MLPA P045 BRCA2/CHEK2 probemix. This P077 BRCA2 Confirmation probemix cannot be used to verify CHEK2 mutations found with P045. However, the P190 CHEK2 probemix is available for deletion or duplication analysis of other CHEK2 exons. This assay is for use with human DNA extracted from peripheral blood and not with DNA extracted from formalin-fixed paraffin embedded or fresh tumour materials. The probemix is not intended to be used as a standalone assay for clinical decisions. The results of this test should be interpreted by a clinical molecular geneticist or equivalent.

1Please note that this probemix is for In Vitro Diagnostic (IVD) use in the countries specified at the end of this product description. In all other countries, the product is for Research Use Only (RUO).

Clinical background: Breast and ovarian carcinomas are among the most common malignancies in developed countries. The majority of cases are considered sporadic, but in a substantial portion, a clear history of cases within a family is present. The BRCA1 and BRCA2 proteins are associated with the activation of double-strand break repair and homologous recombination and are important in maintaining genomic stability. Germline mutations in the BRCA1 and BRCA2 genes are linked to a high risk of young-onset hereditary breast and ovarian cancer. Features characteristic of hereditary, versus sporadic, breast cancer are: younger age at diagnosis, frequent bilateral disease, and more frequent occurrence of disease among male relatives. Mutations in the BRCA1 and BRCA2 genes account for about 20 to 25% of hereditary breast cancers (Easton 1999) and about 5 to 10% of all breast cancers (Campeau et al. 2008). In addition, mutations in the BRCA1 and BRCA2 genes cause around 15% of ovarian cancers overall (Pal et al. 2005).

Deletions or duplications are more frequent for BRCA1 than for BRCA2 for most populations. The prevalence of deletions or duplications is dependent on the studied population and ranges from 0% to 11% of all BRCA2 mutations (Agata et al. 2005, Woodward et al. 2005, Casilli et al. 2006, Stadler et al. 2010).

More information is available at http://www.ncbi.nlm.nih.gov/books/NBK1247/.

Biallelic pathogenic variants of BRCA2 can result in Fanconi Anemia (FA) type D1. FA is characterized by physical abnormalities (such as short stature or abnormal skin pigmentation), bone marrow failure and increased risk for malignancies. The incidence of FA in general is 1:160,000, of which type D1 comprises around 3% of the cases. FA type D1 is associated with early-onset acute leukaemia and solid tumours. More information on FA is available at https://www.ncbi.nlm.nih.gov/books/NBK1401/.

Probemix content: The SALSA MLPA Probemix P077-B1 BRCA2 Confirmation contains 50 MLPA probes with amplification products between 124 and 502 nucleotides (nt). This includes 38 probes for the BRCA2 region. In addition, 12 reference probes are included that detect autosomal chromosomal locations. Complete probe sequences and the identity of the genes detected by the reference probes are available online (www.mlpa.com).
At least one MLPA probe is present for each exon in the BRCA2 transcript. In addition, one probe is included for introns 3, 7, 12 and 13; two probes are included for exons 8, 16, 18 and 27; three probes are included for the large exon 11; and one probe is included for the region upstream of exon 1.

This probemix contains nine quality control fragments generating amplification products between 64 and 105 nt: four DNA Quantity fragments (Q-fragments), two DNA Denaturation fragments (D-fragments), one Benchmark fragment, and one chromosome X and one chromosome Y-specific fragment. More information on how to interpret observations on these control fragments can be found in the MLPA General Protocol and online at www.mlpa.com.

SALSA Artificial Duplication DNA SD024:
In case no positive DNA sample is available in your laboratory, an artificial duplication DNA sample for this probemix (catalogue number SD024) can be ordered from MRC-Holland. This SD024 Artificial Duplication DNA will show a duplication of two or more probes when using the following probemixes: P045, P090 and P077 for BRCA2 and P002 and P087 for BRCA1. The SD024 Artificial Duplication DNA is a mixture of human female genomic DNA and a titrated amount of plasmid containing selected probe target sequences. For further details, please consult the SD024 Artificial Duplication DNA product description, available online: www.mlpa.com. This product is for research use only (RUO).

Probemix Gene 1 Gene 2 Coverage Use for Remarks
P045 BRCA2/CHEK2 BRCA2 CHEK2 BRCA2: Each exon.
CHEK2 Exon 1, 9, 1100delC mutation (exon 11)
Initial testing Identical BRCA2 probes as P090
P090 BRCA2 BRCA2 - Each exon Initial testing Identical BRCA2 probes as P045
P077 BRCA2 Confirmation BRCA2 - Each exon Confirmation BRCA2 probes target different ligation sites than probes in P090/P045

Sample DNA
Sample DNA developed for this product:

Order Items

Probemix

Item no.
Description
Technology
Price
P077-025R
SALSA MLPA Probemix P077 BRCA2 Confirmation – 25 rxn
€ 243.00
P077-050R
SALSA MLPA Probemix P077 BRCA2 Confirmation – 50 rxn
€ 486.00
P077-100R
SALSA MLPA Probemix P077 BRCA2 Confirmation – 100 rxn
€ 972.00

Required Reagents

Item no.
Description
Technology
Price
EK1-FAM
SALSA MLPA EK1 reagent kit – 100 rxn – FAM
€ 300.00
EK1-Cy5
SALSA MLPA EK1 reagent kit – 100 rxn – Cy5
€ 300.00
EK5-FAM
SALSA MLPA EK5 reagent kit – 500 rxn – FAM
€ 1380.00
EK5-Cy5
SALSA MLPA EK5 reagent kit – 500 rxn – Cy5
€ 1380.00
EK20-FAM
SALSA MLPA EK20 reagent kit – 2000 rxn – FAM
€ 5295.00

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CE

CE-marked products are for In Vitro Diagnostic (IVD) use only in EU (candidate) member states and members of the European Free Trade Association (EFTA).

CO

IVD-registered in Colombia.

CR

IVD-registered in Costa Rica.

IL

IVD-registered in Israel.

MA

IVD-registered in Morocco.