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SALSA MLPA Probemix P038 CLL-2

Chronic lymphocytic leukemia (CLL)

Region: Various

General information: The SALSA MLPA Probemix P038 CLL-2 is a research use only (RUO) assay for the detection of deletions or duplications in the genes/chromosomal regions implicated in B-cell chronic lymphocytic leukemia (B-CLL) such as: 10q23 (PTEN), 11q (ATM), chromosome 12, 13q14 (RB1, DLEU1/2), 14q, 17p13 (TP53) and chromosome 19. This probemix can also be used to detect the presence of the NOTCH1 p.P2514*fs, SF3B1 p.K700E and MYD88 p.L265P point mutations.

B-CLL is the most common hematologic neoplasm in Western countries and results in the progressive accumulation of morphologically mature but functionally incompetent CD5(+) CD23(+) B lymphocytes in the bone marrow, blood, spleen and lymph nodes of the affected person. Chromosomal translocations are rare events in B-CLL. Copy number changes of certain chromosomal regions are, however, frequent. Some of these have been found to be highly prognostic markers of this disease.

More genomic regions affected by copy number alterations in CLL are targeted by the P037 CLL-1 probemix containing probes for 2p (MYCN, ALK, REL), 6q (TNFAIP3), 8p (TNFRSF10A/B), 8q (EIF3H, MYC), 9p21 (CDKN2A/B), 11q (ATM), chromosome 12, 13q14 (RB1, MIR15A, DLEU2/7) and TP53. Moreover, the P040 CLL probemix contains a selection of targeted genes and regions from P037 and P038 allowing detection of del13q14, trisomy 12, del11q and del17p13. Other related probemixes can be found on page 8.

Probemix content: The SALSA MLPA Probemix P038-B1 CLL-2 contains 51 MLPA probes with amplification products between 130 and 500 nucleotides (nt). This includes 35 probes for 10q23 (PTEN), 11q (ATM), chromosome 12, 13q14 (RB1, DLEU1/2), 14q, 17p13 (TP53) and chromosome 19. Furthermore, this probemix also contains three probes specific for the NOTCH1 p.P2514*fs, SF3B1 p.K700E and MYD88 p.L265P mutations which will only generate a signal when the mutation is present. In addition, 13 reference probes are included that target relatively copy number stable regions in CLL. Complete probe sequences and the identity of the genes detected by the reference probes are available online (www.mlpa.com) and in Table 2b.

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 (see table in product description). 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 Binning DNA SD009: The SD009 Binning DNA provided with this probemix can be used for binning of three mutation-specific probes (SF3B1 probe 17802-SP0549-L21900 c.2098A>G=p.K700E, MYD88 probe 17803-L22642 c.794T>C=p.L265P and NOTCH1 probe 17801-SP0548-L22640 c.7544-7545delCT=p.P2514*fs). SD009 Binning DNA is a mixture of genomic DNA from healthy individuals and plasmid DNA that contains the target sequences detected by the above mentioned probes. Inclusion of one reaction with 5 μl SD009 Binning DNA in initial MLPA experiments is essential as it can be used to aid in data binning of the peak pattern using Coffalyser.Net software. Furthermore, Binning DNA should be included in the experiment whenever changes have been applied to the set-up of the capillary electrophoresis device (e.g. when capillaries have been renewed). Binning DNA should never be used as a reference sample in the MLPA data analysis, neither should it be used in quantification of mutation signals, as for this purpose true mutation positive patient samples or cell lines should be used. It is strongly advised that all samples tested are extracted with the same method and derived from the same source of tissue. For further details, please consult the SD009 Binning DNA product description, available online: www.mlpa.com.

Order Items

Probemix

Item no.
Description
Technology
Price
P038-025R
SALSA MLPA Probemix P038 CLL-2 – 25 rxn
€ 243.00
P038-050R
SALSA MLPA Probemix P038 CLL-2 – 50 rxn
€ 486.00
P038-100R
SALSA MLPA Probemix P038 CLL-2 – 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

Related Products

SALSA MLPA Probemix P037 CLL-1

Contains probes for 2p, 6q, 8p/q, 9p21, ATM, chromosome 12, 13q14 and TP53.

SALSA MLPA Probemix P040 CLL

Contains probes for a selected target genes and regions from P037 and P038.

SALSA MLPA Probemix P041 ATM-1

Contain more probes for ATM on 11q.

SALSA MLPA Probemix P042 ATM-2

Contain more probes for ATM on 11q.

SALSA MLPA Probemix P047 RB1

Contain more probes for 13q14.3.

SALSA MLPA Probemix P056 TP53

Contains more probes for TP53.

SALSA MLPA Probemix P098 Wilson disease

Contain more probes for 13q14.3.

SALSA MLPA Probemix P252 NB mix 2

Contains more probes for 2p region.

SALSA MLPA Probemix P323 CDK4-HMGA2-MDM2

Includes more probes for chromosome 12.

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