Cargando…

Use of FFPE-derived DNA in next generation sequencing: DNA extraction methods

Archival tissues represent a rich resource for clinical genomic studies, particularly when coupled with comprehensive medical records. Use of these in next generation sequencing (NGS) is a priority. Nine formalin-fixed paraffin-embedded (FFPE) DNA extraction methods were evaluated using twelve FFPE...

Descripción completa

Detalles Bibliográficos
Autores principales:	McDonough, Samantha J., Bhagwate, Aditya, Sun, Zhifu, Wang, Chen, Zschunke, Michael, Gorman, Joshua A., Kopp, Karla J., Cunningham, Julie M.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Public Library of Science 2019
Materias:	Research Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6459541/ https://www.ncbi.nlm.nih.gov/pubmed/30973937 http://dx.doi.org/10.1371/journal.pone.0211400

Ejemplares similares

Bioinformatics and DNA-extraction strategies to reliably detect genetic variants from FFPE breast tissue samples
por: Bhagwate, Aditya Vijay, et al.
Publicado: (2019)

Performance comparisons of methylation and structural variants from low-input whole-genome methylation sequencing
por: Sun, Zhifu, et al.
Publicado: (2023)

Quality control recommendations for RNASeq using FFPE samples based on pre-sequencing lab metrics and post-sequencing bioinformatics metrics
por: Liu, Yuanhang, et al.
Publicado: (2022)

Profiling miRNAs in nasopharyngeal carcinoma FFPE tissue by microarray and Next Generation Sequencing
por: Peng, Jin, et al.
Publicado: (2014)

Assessment of the quality of DNA from various formalin-fixed paraffin-embedded (FFPE) tissues and the use of this DNA for next-generation sequencing (NGS) with no artifactual mutation
por: Einaga, Naoki, et al.
Publicado: (2017)

Optimal Fixation Conditions and DNA Extraction Methods for MLPA Analysis on FFPE Tissue-Derived DNA
por: Atanesyan, Lilit, et al.
Publicado: (2017)

A critical spotlight on the paradigms of FFPE-DNA sequencing
por: Steiert, Tim A, et al.
Publicado: (2023)

Evaluation of commercial DNA and RNA extraction methods for high-throughput sequencing of FFPE samples
por: Kresse, Stine H., et al.
Publicado: (2018)

Reliability and performance of commercial RNA and DNA extraction kits for FFPE tissue cores
por: Patel, Palak G., et al.
Publicado: (2017)

DNA extraction from FFPE tissue samples – a comparison of three procedures
por: Sarnecka, Agnieszka K., et al.
Publicado: (2019)

Multiplex bisulfite PCR resequencing of clinical FFPE DNA
por: Korbie, Darren, et al.
Publicado: (2015)

Using ddPCR to assess the DNA yield of FFPE samples
por: Lu, X.J. David, et al.
Publicado: (2018)

Towards standardization of next-generation sequencing of FFPE samples for clinical oncology: intrinsic obstacles and possible solutions
por: Ivanov, Maxim, et al.
Publicado: (2017)

Identification of novel mutations in FFPE lung adenocarcinomas using DEPArray sorting technology and next-generation sequencing
por: Lee, Ji Won, et al.
Publicado: (2018)

DNA Methylation in Ovarian Tumors—a Comparison Between Fresh Tissue and FFPE Samples
por: Oliveira, Douglas V.N.P., et al.
Publicado: (2021)

Indel sensitive and comprehensive variant/mutation detection from RNA sequencing data for precision medicine
por: Prodduturi, Naresh, et al.
Publicado: (2018)

Single-strand DNA library preparation improves sequencing of formalin-fixed and paraffin-embedded (FFPE) cancer DNA
por: Stiller, Mathias, et al.
Publicado: (2016)

SimFFPE and FilterFFPE: improving structural variant calling in FFPE samples
por: Wei, Lanying, et al.
Publicado: (2021)

Special Issue: Next Generation DNA Sequencing
por: Richardson, Paul
Publicado: (2010)

Next-Generation cDNA Screening for Oncogene and Resistance Phenotypes
por: Shindoh, Nobuaki, et al.
Publicado: (2012)

Assessing the Performance of Dried-Blood-Spot DNA Extraction Methods in Next Generation Sequencing
por: Hendrix, Miyono M., et al.
Publicado: (2020)

Ideafix: a decision tree-based method for the refinement of variants in FFPE DNA sequencing data
por: Tellaetxe-Abete, Maitena, et al.
Publicado: (2021)

Virtual Terminator nucleotides for next generation DNA sequencing
por: Bowers, Jayson, et al.
Publicado: (2009)

An optimised protocol for isolation of RNA from small sections of laser-capture microdissected FFPE tissue amenable for next-generation sequencing
por: Amini, Parisa, et al.
Publicado: (2017)

Next-generation RNA sequencing of FFPE subsections reveals highly conserved stromal reprogramming between canine and human mammary carcinoma
por: Amini, Parisa, et al.
Publicado: (2019)

987. Identification of Fungal Pathogens In Formalin-Fixed Paraffin-Embedded (FFPE) Tissues by Targeted Next-Generation Sequencing (NGS) Technology
por: Totten, Marissa C, et al.
Publicado: (2023)

Characterization of FFPE-induced bacterial DNA damage and development of a repair method
por: Flores Bueso, Yensi, et al.
Publicado: (2020)

Identification and Analysis of the Ankle Microbiome Using Next-Generation DNA Sequencing
por: Hoch, Caroline, et al.
Publicado: (2023)

Next-generation DNA barcoding: using next-generation sequencing to enhance and accelerate DNA barcode capture from single specimens
por: Shokralla, Shadi, et al.
Publicado: (2014)

Targeted enrichment of genomic DNA regions for next-generation sequencing
por: Mertes, Florian, et al.
Publicado: (2011)

Non-random DNA fragmentation in next-generation sequencing
por: Poptsova, Maria S., et al.
Publicado: (2014)

Next Generation DNA Sequencing and the Future of Genomic Medicine
por: Anderson, Matthew W., et al.
Publicado: (2010)

The Application of Next Generation Sequencing in DNA Methylation Analysis
por: Zhang, Yingying, et al.
Publicado: (2010)

Comparison of DNA Quantification Methods for Next Generation Sequencing
por: Robin, Jérôme D., et al.
Publicado: (2016)

Targeted DNA Methylation Analysis by Next-generation Sequencing
por: Masser, Dustin R., et al.
Publicado: (2015)

HLA genotyping by next-generation sequencing of complementary DNA
por: Segawa, Hidenobu, et al.
Publicado: (2017)

Pre-Analytical Considerations for Successful Next-Generation Sequencing (NGS): Challenges and Opportunities for Formalin-Fixed and Paraffin-Embedded Tumor Tissue (FFPE) Samples
por: Arreaza, Gladys, et al.
Publicado: (2016)

Isolation and next generation sequencing of archival formalin‐fixed DNA
por: Alqahtani, Ahlam, et al.
Publicado: (2020)

Oral flora meningoencephalitis diagnosis by next-generation DNA sequencing
por: Heintz, Eric, et al.
Publicado: (2019)

A streamlined method for analysing genome-wide DNA methylation patterns from low amounts of FFPE DNA
por: Ludgate, Jackie L., et al.
Publicado: (2017)

Cannot write session to /tmp/vufind_sessions/sess_8h3o4pmh74ke3kb21qect9302c