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SALSA MLPA Probemix P088 Oligodendroglioma 1p-19q

SALSA® MLPA® Probemix P088 Oligodendroglioma 1p-19q detects the co-deletion of chromosome arms 1p and 19q, deletions of the CDKN2A and CDKN2B genes, and the most common somatic point mutations in IDH1 and IDH2.

Specifications

Contents: 59 MLPA probes including 19 probes for chromosomal arm 1p, 3 flanking probes for 1q, 12 probes for 19q, 2 flanking probes for 19p, 3 probes for CDKN2A, 2 probes for CDKN2B and 4 probes for point mutations in IDH1 (p.R132H and p.R132C) and IDH2 (p.R172K and p.R172M).

Tissue: genomic DNA isolated from fresh-frozen or formalin-fixed paraffin-embedded (FFPE) human glioma.

Application: oligodendroglioma.

CE-marked for in vitro diagnostic (IVD) use.

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Intended purpose

The SALSA MLPA Probemix P088 Oligodendroglioma 1p-19q is an in vitro diagnostic (IVD) or research use only (RUO) semi-quantitative assay for the detection of co-deletion of chromosome arms 1p and 19q, and deletions of the CDKN2A and CDKN2B genes, and for detection of the most common somatic point mutations in IDH1 (p.R132H and p.R132C) and IDH2 (p.R172K and p.R172M) in genomic DNA isolated from fresh-frozen or formalin-fixed paraffin-embedded (FFPE) human glioma specimens. P088 Oligodendroglioma 1p-19q is intended to aid in diagnosis of oligodendroglioma.

For the full intended purpose, see the product description.

Clinical background

Oligodendrogliomas are a type of glioma (central nervous system neoplasm) that originate from the oligodendrocytes of the brain or from a glial precursor cell. According to the WHO Classification of Tumours of the Central Nervous System, oligodendroglioma is molecularly defined by co-deletion of chromosome arms 1p and 19q in combination with a mutation in IDH1 or IDH2 (Louis et al. 2016; Louis et al. 2021). The 1p/19q co-deletion distinguishes oligodendrogliomas from other gliomas, and is considered an early event in oligodendroglioma tumorigenesis (Pinkham et al. 2015). The co-deletion is thought to be the result of an unbalanced whole-arm translocation between chromosomes 1 and 19 with the loss of the resulting hybrid chromosome (Griffin et al. 2006; Jenkins et al. 2006). The IDH1 p.R132H mutation accounts for ~90% of all IDH1 and IDH2 mutations. The remaining ~10% are other substitutions in codon 132 of IDH1 (e.g. p.R132C, p.R132S, p.R132G) or substitutions in codon 172 of IDH2 (p.R172K, p.R172M or p.R172W) (Cahill et al. 2015; Hartmann et al. 2009). p.R132H accounts for 92.7% and p.R132C for 4% of all IDH1 mutations, and p.R172K accounts for 64.5% and p.R172M for 19% of all IDH2 mutations (Hartmann et al. 2009).

Regulatory status

SALSA MLPA Probemix P088 Oligodendroglioma 1p-19q is CE-marked for in vitro diagnostic (IVD) use.

This assay is for research use only (RUO) in all other territories.

SALSA Sample DNA for this product

SALSA Binning DNA SD079 is an artificial DNA sample with a signal for all probes in the P088 Oligodendroglioma 1p-19q probemix. Inclusion of a reaction with SD079 in initial experiments and in experiments following a change in electrophoresis conditions is recommended to aid in the creation of a bin set that links peaks to the probes that produce them. Binning DNA cannot be used as a reference sample in the MLPA data analysis, and cannot be used to quantify the signals of mutation-specific probes.

A vial of SALSA Binning DNA SD079 is included with every order of the P088 Oligodendroglioma 1p-19q probemix, but it is possible to order additional vials separately.

For more information, see the product description.

Product documentation

Version D1

Other versions

Contact us for earlier versions.

List prices

Product

Item no.
Description
Technology
Price
P088-025R
SALSA MLPA Probemix P088 Oligodendroglioma 1p-19q – 25 rxn
MLPA
€ 281.00
P088-050R
SALSA MLPA Probemix P088 Oligodendroglioma 1p-19q – 50 rxn
MLPA
€ 550.00
P088-100R
SALSA MLPA Probemix P088 Oligodendroglioma 1p-19q – 100 rxn
MLPA
€ 1075.00

Required reagents

A general SALSA MLPA Reagent Kit is required for MLPA experiments (to be ordered separately).

Item no.
Description
Technology
Price
EK1-FAM
SALSA MLPA Reagent Kit – 100 rxn – FAM (6 vials)
MLPA MS-MLPA
€ 341.00
EK1-Cy5
SALSA MLPA Reagent Kit – 100 rxn – Cy5 (6 vials)
MLPA MS-MLPA
€ 341.00
EK5-FAM
SALSA MLPA Reagent Kit – 500 rxn – FAM (5×6 vials)
MLPA MS-MLPA
€ 1571.00
EK5-Cy5
SALSA MLPA Reagent Kit – 500 rxn – Cy5 (5×6 vials)
MLPA MS-MLPA
€ 1571.00
EK20-FAM
SALSA MLPA Reagent Kit – 2000 rxn – FAM (5×6 vials)
MLPA MS-MLPA
€ 6037.00

Sample DNAs (included)

A vial is included with every order of this probemix, but additional vials can also be purchased separately.

Item no.
Description
Technology
Price
SD079
SALSA Binning DNA SD079 – 6 rxn
MLPA
€ 23.70

Price details & ordering

The prices above are list prices for direct orders from MRC Holland. Contact us for a quote that takes discounts and additional costs (such as shipping costs) into account. Different prices apply for orders through one of our sales partners; contact your local supplier for a quote.

More information about ordering & prices

Positive samples

Inclusion of a positive sample is usually not required, but can be useful for the analysis of your experiments. MRC Holland has very limited access to positive samples and cannot supply such samples. We recommend using positive samples from your own collection. Alternatively, you can use positive samples from an online biorepository, such as the Coriell Institute.

The commercially available positive samples below have been tested with the current (D1) version of this product and have been shown to produce useful results.

  • Coriell NA22976: Heterozygous deletion affecting the probes for GNB1, TNFRSF14 and TP73 on chromsome 1p. Heterozygous duplication affecting the probes for CDKN2A and CDKN2B on chromosme 9p.
  • DSMZ ACC-255 (CADO-ES1): Heterozygous duplication affecting the probes for CRB1 and TNNT2 on chromosome 1q. Heterozygous deletion of CDKN2A and CDKN2B on chromosme 9p. Some of the reference probes are affected by CNAs.
  • DSMZ ACC-397 (HT-1376): Heterozygous duplication affecting the probes for MUTYH, PRDX1, FAF1, CDKN2C, MIR101, FUBP1, GTF2B and DPYD on chromosome 1p. Heterozygous deletion affecting the probes on chromosome 19q. Some of the reference probes and denaturation control fragments are affected by CNAs, which might lead to warnings for quality scores (e.g. RPQ, DNA denaturation and CAS).
  • DSMZ ACC-778 (LOPRA-1): Heterozygous deletion affecting the probes targeting chromosome 1p and the probes for CDKN2A and CDKN2B on chromosome 9p. Homozygous deletion affecting the probes for FAF1 and CDKN2C on chromosome 1p. Some of the reference probes and denaturation control fragments are affected by CNAs, which might lead to warnings for quality scores (e.g. RPQ, DNA denaturation and CAS).

Resources

General MLPA resources

MLPA education

Publications

References

  • Cahill DP et al. (2015). Molecular background of oligodendroglioma: 1p/19q, IDH, TERT, CIC and FUBP1. CNS Oncol. 4:287-94.
  • Griffin CA et al. (2006). Identification of der(1;19)(q10;p10) in five oligodendrogliomas suggests mechanism of concurrent 1p and 19q loss. J Neuropathol Exp Neurol. 65:988-94.
  • Hartmann C et al. (2009). Type and frequency of IDH1 and IDH2 mutations are related to astrocytic and oligodendroglial differentiation and age: a study of 1,010 diffuse gliomas. Acta Neuropathol. 118:469-74.
  • Jenkins RB et al. (2006). A t(1;19)(q10;p10) mediates the combined deletions of 1p and 19q and predicts a better prognosis of patients with oligodendroglioma. Cancer Res. 66:9852-61.
  • Louis DN et al. (2016). The 2016 World Health Organization Classification of Tumors of the Central Nervous System: a summary. Acta Neuropathol. 131:803-20.
  • Louis DN et al. (2021). The 2021 WHO Classification of Tumors of the Central Nervous System: a summary. Neuro Oncol. 23:1231-51.
  • Pinkham MB et al. (2015). FISHing Tips: What Every Clinician Should Know About 1p19q Analysis in Gliomas Using Fluorescence in situ Hybridisation. Clin Oncol (R Coll Radiol). 27:445-53.
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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), and the UK.