Mañana, JUEVES, 24 DE ABRIL, el sistema se apagará debido a tareas habituales de mantenimiento a partir de las 9 de la mañana. Lamentamos las molestias.
Suitability of melanoma FFPE samples for NGS libraries: time and quality thresholds for downstream molecular tests
Entity
UAM. Departamento de Biología MolecularPublisher
Future Science Ltd.Date
2018-08-01Citation
10.2144/btn-2018-0016
Biotechniques 65.2 (2018): 79-85
ISSN
1940-9818 (online); 0736-6205 (print)DOI
10.2144/btn-2018-0016Funded by
This study has been funded by the Instituto de Salud Carlos III grant number PI15/01860, the Junta Provincial de Valencia de la Asociación Española contra el Cancer through a PhD grant, and by the Universidad Católica de Valencia San Vicente Mártir. The authors have no other relevant affiliations or financial involvement with any organization or entity with a financial interest in or financial conflict with the subject matter or materials discussed in the manuscript apart from those disclosed. No writing assistance was utilized in the production of this manuscriptProject
Gobierno de España. PI15/01860Editor's Version
https://doi.org/10.2144/btn-2018-0016Subjects
DIN; FFPE; Library; Melanoma; NGS; QC; NGS libraries; Downstream molecular tests; Melanoma FFPE; Biología y Biomedicina / BiologíaAbstract
The use of NGS in clinical practice for precision diagnosis requires a quality starting material. Despite the broadly established use of formalin-fixed paraffin-embedded (FFPE) samples in molecular testing, these usually have low-quality DNA. We established a method to determine the suitability of melanoma FFPE samples for an amplicon-based NGS custom panel analysis. DNA was extracted from unstained melanoma samples and wide local excision samples. Amplicon-based libraries were constructed and tested using time and quality parameters as variables. Time elapsed from sample retrieval >7 years, a quality control value > 5.63 and a DNA integrity value < 2.05 indicated samples were not suitable. A decision tree is provided with rate of samples suitable for analysis according to the combination of these parameters
Files in this item
Google Scholar:Millán-Esteban, David
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Reyes-García, Diana
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García-Casado, Zaida
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Bañuls, José
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López Guerrero, José Antonio
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Requena, Celia
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Rodríguez-Hernández, Aranzazu
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Traves, Víctor
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Nagore, Eduardo
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