Quality assessment of a clinical next-generation sequencing melanoma panel within the Italian Melanoma Intergroup (IMI).
Diagn Pathol
; 15(1): 143, 2020 Dec 14.
Article
in En
| MEDLINE
| ID: mdl-33317587
ABSTRACT
BACKGROUND:
Identification of somatic mutations in key oncogenes in melanoma is important to lead the effective and efficient use of personalized anticancer treatment. Conventional methods focus on few genes per run and, therefore, are unable to screen for multiple genes simultaneously. The use of Next-Generation Sequencing (NGS) technologies enables sequencing of multiple cancer-driving genes in a single assay, with reduced costs and DNA quantity needed and increased mutation detection sensitivity.METHODS:
We designed a customized IMI somatic gene panel for targeted sequencing of actionable melanoma mutations; this panel was tested on three different NGS platforms using 11 metastatic melanoma tissue samples in blinded manner between two EMQN quality certificated laboratory.RESULTS:
The detection limit of our assay was set-up to a Variant Allele Frequency (VAF) of 10% with a coverage of at least 200x. All somatic variants detected by all NGS platforms with a VAF ≥ 10%, were also validated by an independent method. The IMI panel achieved a very good concordance among the three NGS platforms.CONCLUSION:
This study demonstrated that, using the main sequencing platforms currently available in the diagnostic setting, the IMI panel can be adopted among different centers providing comparable results.Key words
Full text:
1
Database:
MEDLINE
Main subject:
Quality Assurance, Health Care
/
Skin Neoplasms
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Sequence Analysis, DNA
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High-Throughput Nucleotide Sequencing
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Melanoma
Type of study:
Prognostic_studies
Limits:
Female
/
Humans
/
Male
Country/Region as subject:
Europa
Language:
En
Year:
2020
Type:
Article