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Whole exome sequencing of FFPE samples-expanding the horizon of forensic molecular autopsies
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- Olofsson, Emma, 1981- (author)
- Örebro universitet,Institutionen för medicinska vetenskaper,Department of Laboratory Medicine, Faculty of Medicine and Health, Örebro University, Örebro, Sweden,Orebro Univ, Sweden
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- Kling, Daniel (author)
- Department of Forensic Genetics and Forensic Toxicology, National Board of Forensic Medicine, Linköping, Sweden,Natl Board Forens Med, Dept Forens Genet & Forens Toxicol, Linkoping, Sweden
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- Gunnarsson, Cecilia, 1970- (author)
- Linköpings universitet,Avdelningen för diagnostik och specialistmedicin,Medicinska fakulteten,Region Östergötland, Klinisk genetik,Region Östergötland, Övr Regionledningskontoret
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- (creator_code:org_t)
- 2022-11-08
- 2023
- English.
- In: International journal of legal medicine. - : Springer. - 0937-9827 .- 1437-1596. ; 137:4, s. 1215-1234
- Journal article (peer-reviewed)
Abstract
Subject headings
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- Forensic molecular autopsies have emerged as a tool for medical examiners to establish the cause of death. It is particularly useful in sudden unexplained deaths where the cause of death cannot be determined with a regular medical autopsy. We provide the first study of exome data from formalin-fixed paraffin-embedded samples (FFPE) paired with data from high-quality blood samples in forensic applications. The approach allows exploration of the potential to use FFPE samples for molecular autopsies and identify variants in extensive exome data. We leverage the high uniformity of the hybridization capture approach provided by Twist Bioscience to target the complete exome and sequence the libraries on a NextSeq 550. Our findings suggest that exome sequencing is feasible for 24 out of a total of 35 included FFPE samples. When successful, the coverage across the exome is comparatively high (> 90% covered to 20X) and uniform (fold80 below 1.5). Detailed variant comparisons for matched FFPE and blood samples show high concordance with few false variants (positive predictive value of 0.98 and a sensitivity of 0.97) with no distinct FFPE artefacts. Ultimately, we apply carefully constructed forensic gene panels in a stepwise manner to find genetic variants associated with the clinical phenotype and with relevance to the sudden unexplained death.
Subject headings
- MEDICIN OCH HÄLSOVETENSKAP -- Annan medicin och hälsovetenskap -- Rättsmedicin (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Other Medical and Health Sciences -- Forensic Science (hsv//eng)
Keyword
- Arrhythmia
- Cardiomyopathy
- FFPE
- Molecular autopsy
- SCD
- WES
Publication and Content Type
- ref (subject category)
- art (subject category)
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