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Whole exome sequencing of FFPE samples-expanding the horizon of forensic molecular autopsies
Örebro University, School of Medical Sciences. Department of Laboratory Medicine, Faculty of Medicine and Health, Örebro University, Örebro, Sweden.
Department of Forensic Genetics and Forensic Toxicology, National Board of Forensic Medicine, Linköping, Sweden.
Department of Clinical Genetics and Department of Biomedical and Clinical Sciences, Linköping University, Linköping, Sweden; Centre for Rare Diseases in South East Region of Sweden, Linköping University, Linköping, Sweden.
Department of Clinical Genetics and Department of Biomedical and Clinical Sciences, Linköping University, Linköping, Sweden.
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2023 (English)In: International journal of legal medicine, ISSN 0937-9827, E-ISSN 1437-1596, Vol. 137, no 4, p. 1215-1234Article in journal (Refereed) Published
Abstract [en]

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.

Place, publisher, year, edition, pages
Springer, 2023. Vol. 137, no 4, p. 1215-1234
Keywords [en]
Arrhythmia, Cardiomyopathy, FFPE, Molecular autopsy, SCD, WES
National Category
Forensic Science
Identifiers
URN: urn:nbn:se:oru:diva-102165DOI: 10.1007/s00414-022-02906-xISI: 000880261800001PubMedID: 36346469Scopus ID: 2-s2.0-85141635818OAI: oai:DiVA.org:oru-102165DiVA, id: diva2:1710181
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Örebro UniversityRegion Örebro CountyAvailable from: 2022-11-11 Created: 2022-11-11 Last updated: 2024-01-17Bibliographically approved

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Olofsson, EmmaGreen, Anna

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