Functional DNA quantification guides accurate next-generation sequencing mutation detection in formalin-fixed, paraffin-embedded tumor biopsies.
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ABSTRACT:
SUBMITTER: Sah S
PROVIDER: S-EPMC3978876 | biostudies-literature | 2013
REPOSITORIES: biostudies-literature
Publications
Functional DNA quantification guides accurate next-generation sequencing mutation detection in formalin-fixed, paraffin-embedded tumor biopsies.
Sah Sachin S Chen Liangjing L Houghton Jeffrey J Kemppainen Jon J Marko Adam C AC Zeigler Robert R Latham Gary J GJ
Genome medicine 20130830 8
The formalin-fixed, paraffin-embedded (FFPE) biopsy is a challenging sample for molecular assays such as targeted next-generation sequencing (NGS). We compared three methods for FFPE DNA quantification, including a novel PCR assay ('QFI-PCR') that measures the absolute copy number of amplifiable DNA, across 165 residual clinical specimens. The results reveal the limitations of commonly used approaches, and demonstrate the value of an integrated workflow using QFI-PCR to improve the accuracy of N ...[more]
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