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SureSeq myPanel™ NGS Custom Melanoma Cancer Panel

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Applications:

Choose your perfect Melanoma NGS panel from our range of fully tested and optimised panel content. Simply mix and match the genes or individual exons you require and get the most out of your sequencing runs.

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For more information about any OGT product or service, please contact us.

Email: contact@ogt.com
Phone: +44 (0)1865 856800 (US: 914 467 5285)

Details

Cutaneous melanoma (CM) is the most dangerous form of skin tumour and causes 90% of skin cancer mortality1. With recurrent somatic mutations in BRAF, NRAS, KIT and NF1 among the most common genetic aberrations underlying pathogenesis of melanoma, next generation sequencing (NGS) has been an invaluable tool in helping to characterise the overall genomic landscape of melanomas.

SureSeq myPanel offers:

  • Hybridisation-based enrichment delivering unparalleled coverage uniformity- detect low frequency melanoma variants consistently with confidence
  • Pre-optimised panels that meet your technical requirements and work with your samples - no more lengthy in-house optimisation, decreasing assay development time
  • Bespoke panel content - sequence only what’s relevant for your cancer research, increase throughput and save on sequencing reagents
  • Panel content designed with experts and from current literature to target all relevant regions including intronic and splice sites - get the most comprehensive insight into disease-driving mutations

Choose your ideal melanoma NGS panel from our range of fully tested and optimised NGS panel content. Simply mix and match the genes or individual exons you require and get the most out of your sequencing runs. Use in conjunction with the SureSeq FFPE DNA Repair Mix* for improved NGS library yields, %OTR and mean target coverage from challenging FFPE derived samples.

Let's talk about panel content >

Superior Coverage Uniformity

The most frequently activated pathway in melanoma is the mitogen-activated protein kinase (MAPK) pathway, often activated through mutations in the V600 codon of BRAF (in 35–50% of melanomas) and the Q61 codon of NRAS (10–25%)2, with mutations being mutually exclusive.

Mutations of KIT are found in particular subsets of melanoma, where the mutations activate signal-transduction pathways (MAPK and PI3K) that ultimately lead to cell proliferation. Approximately 70% of KIT mutations identified in melanoma are found in exon 11, most commonly L576P (Figure 1a and 1b).

Neurofibromatosis type 1 (NF1) is a relatively common tumour predisposition syndrome related to germline aberrations of NF1, a tumour suppressor gene. Recent studies have additionally shown NF1 to play a critical role in somatic events in a wide range of tumours, including melanoma. The tumour suppressor function of neurofibromin is largely attributed to a small central region which comprises 360 amino acids encoded by exons 20-27a3. OGT’s expert bait design offers excellent uniformity for all of these key genes associated with melanoma (Figure 1).

Figure 1a

Figure 1bFigure 1. Illustration of the exceptional uniformity of coverage of BRAF exon 15 (1a), NRAS exon 2 (1b) with a SureSeq melanoma panel. Depth of coverage per base (grey). Targeted region (green). Gene coding region as defined by RefSeq (blue). GC percentage (red).

Figure 2a

Figure 2bFigure 2. Even coverage of NF1 exon 21 (2a) and KIT exons 10 and 11 (2b) with a SureSeq melanoma panel. Depth of coverage per base (grey). Targeted region (green). Gene coding region as defined by RefSeq (blue). GC percentage (red).

Select from any of the following myPanel melanoma whole gene or exonic content below:

BRAF KIT NF1** NRAS

 

Getting started with your next SureSeq myPanel Custom Cancer Panel could not be simpler...

SureSeq myPanel™

Talk to us about your custom melanoma NGS panel requirements and let our expertise work in helping advance your cancer research.

Let's talk about panel content >

Ordering Information

Product Contents Cat. No. Price
SureSeq myPanel NGS Custom Melanoma Panel Enrichment baits; SureSeq Interpret Software Various Get a quote
SureSeq FFPE DNA Repair Mix Enzyme, mix and buffers sufficient for 16 FFPE DNA samples 500079* Get a quote
SureSeq NGS Library Preparation Complete Solution (16) Bundle of 1x SureSeq library preparation kit (16), containing adaptors, PCR primers and enzymes, 1x SureSeq NGS Index Kit – Collection A, 1x SureSeq Hyb & Wash Kit (16), 1x Dynabeads M270 Streptavidin (2ml) and 1x AMPure XP beads (10ml). Sufficient for 16 samples 500084  Get a quote
SureSeq NGS Library Preparation Complete Solution (48) Bundle of 3x SureSeq NGS Library Preparation Kit (16), containing adaptors, PCR primers and enzymes, 1x SureSeq NGS Index Kit – Collection B, 3x SureSeq NGS Hyb & Wash Kit (16), 3x Dynabeads M270 Streptavidin (2ml) and 3x AMPure XP beads (10ml). Sufficient for 48 samples 500085  Get a quote
SureSeq NGS Library Preparation and Hyb & Wash Kit (16) Bundle of 1x SureSeq NGS Library Preparation Kit (16), containing adaptors, PCR primers and enzymes, 1x SureSeq NGS Index Kit – Collection A and 1x SureSeq Hyb & Wash Kit (16). Sufficient for 16 samples 500082 Get a quote
SureSeq NGS Library Preparation and Hyb & Wash Kit (48) Bundle of 3x SureSeq NGS Library Preparation Kit (16), containing adaptors, PCR primers and enzymes, 1x SureSeq NGS Index Kit – Collection B and 3x SureSeq Hyb & Wash kit (16). Sufficient for 48 samples 500083 Get a quote
SureSeq NGS Library Preparation Kit (16) Bundle of 1 x library preparation kit (16), containing adaptors, PCR primers and enzymes sufficient for 16 samples and 1 x SureSeq NGS Index Kit – Collection A 500070 Get a quote
SureSeq NGS Library Preparation Kit (48)  Bundle of 3 x library preparation kit (16), containing adaptors, PCR primers and enzymes sufficient for 48 samples and 1 x SureSeq NGS Index Kit – Collection B 500073 Get a quote
SureSeq NGS Hyb & Wash Kit (16) Hybridisation buffer, Wash buffer, Cot and blocking oligos. Sufficient for 16 samples 500075 Get a quote
SureSeq NGS Hyb & Wash Kit (48) Bundle of 3x SureSeq NGS Hyb & Wash Kit (16), containing Hybridisation buffer, Wash buffer, Cot and blocking oligos. Sufficient for 48 samples 500086 Get a quote
SureSeq NGS Index Kit - Collection A (16) 16 different indexes, each sufficient for 4 samples [included with SureSeq NGS Library Preparation Kit (16)] 500071 Get a quote
SureSeq NGS Index Kit - Collection B (48) 48 different indexes, each sufficient for 4 samples [included with SureSeq NGS Library Preparation Kit (48)] 500072 Get a quote
Dynabeads™ M270 Streptavidin, 2ml Sample capture beads, sufficient for 20 samples 500080*** Get a quote
AMPure® XP beads, 10ml Sample purification beads, sufficient for 16 samples 500081*** Get a quote


*The SureSeq FFPE DNA Repair Mix can only be purchased in conjunction with SureSeq NGS panels, not as a standalone product.

**Due to the presence of pseudogenes in NF1, it is recommended that an orthogonal technique is used to verify any mutations detected.

*** Only for use with SureSeq NGS panels

References

1. Garbe et al, European Journal of Cancer 63 (2016) 201-217
2. Tsao et al, Genes & Dev. 2012. 26: 1131-1155
3. Yap et al, Oncotarget, 2014, Vol. 5, No. 15

SureSeq: For research use only; not for use in diagnostic procedures.

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