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Diagnostic utility of DNA integrity number as an indicator of sufficient DNA quality in next-generation sequencing–based genomic profiling.
- Source :
-
American Journal of Clinical Pathology . Sep2023, Vol. 160 Issue 3, p261-267. 7p. - Publication Year :
- 2023
-
Abstract
- Objectives DNA integrity number (DIN) is a metric for assessing DNA degradation, calculated based on electrophoresis using the Agilent TapeStation System. The utility of DIN as a diagnostic indicator of sufficient DNA quality in clinical next-generation sequencing (NGS) has not been well described. Methods We evaluated the DINs of 166 tumor formalin-fixed, paraffin-embedded (FFPE) tissue samples submitted for 124-gene panel sequencing. We also investigated a new metric on the electropherogram that could improve the predictive accuracy of the DIN. Results A DIN cutoff of 2.5 discriminated samples with successful analysis (n = 143) from samples with failed analysis (n = 23), with a sensitivity of 0.84 and a specificity of 0.78 (area under the curve [AUC] = 0.88). The DIN was positively correlated with the mean coverage (r = 0.72 , P <.0001) but could not discriminate success from failure when the DIN was below 2.5 (negative predictive value, 0.44). We introduced a new metric, the peak/base ratio, that distinguished success from failure with higher accuracy than the DIN (cutoff = 1.6; sensitivity = 0.98, specificity = 0.83, and AUC =0.96). Conclusions To predict successful NGS, the DNA quality of FFPE tissue can be easily and reliably assessed using the DIN and peak/base ratio. [ABSTRACT FROM AUTHOR]
Details
- Language :
- English
- ISSN :
- 00029173
- Volume :
- 160
- Issue :
- 3
- Database :
- Academic Search Index
- Journal :
- American Journal of Clinical Pathology
- Publication Type :
- Academic Journal
- Accession number :
- 171388871
- Full Text :
- https://doi.org/10.1093/ajcp/aqad046