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A SNP panel for identification of DNA and RNA specimens.
Yousefi, Soheil; Abbassi-Daloii, Tooba; Kraaijenbrink, Thirsa; Vermaat, Martijn; Mei, Hailiang; van 't Hof, Peter; van Iterson, Maarten; Zhernakova, Daria V; Claringbould, Annique; Franke, Lude; 't Hart, Leen M; Slieker, Roderick C; van der Heijden, Amber; de Knijff, Peter; 't Hoen, Peter A C.
Afiliación
  • Yousefi S; Department of Human Genetics, Leiden University Medical Center, Postzone S4-P, PO Box 9600, 2300 RC, Leiden, The Netherlands.
  • Abbassi-Daloii T; Department of Human Genetics, Leiden University Medical Center, Postzone S4-P, PO Box 9600, 2300 RC, Leiden, The Netherlands.
  • Kraaijenbrink T; Department of Human Genetics, Leiden University Medical Center, Postzone S4-P, PO Box 9600, 2300 RC, Leiden, The Netherlands.
  • Vermaat M; Department of Human Genetics, Leiden University Medical Center, Postzone S4-P, PO Box 9600, 2300 RC, Leiden, The Netherlands.
  • Mei H; Sequencing Analysis Support Core, Leiden University Medical Center, Leiden, The Netherlands.
  • van 't Hof P; Sequencing Analysis Support Core, Leiden University Medical Center, Leiden, The Netherlands.
  • van Iterson M; Molecular Epidemiology Section, Leiden University Medical Center, Leiden, The Netherlands.
  • Zhernakova DV; Department of Genetics, University Medical Centre Groningen, Groningen, The Netherlands.
  • Claringbould A; Department of Genetics, University Medical Centre Groningen, Groningen, The Netherlands.
  • Franke L; Department of Genetics, University Medical Centre Groningen, Groningen, The Netherlands.
  • 't Hart LM; Molecular Epidemiology Section, Leiden University Medical Center, Leiden, The Netherlands.
  • Slieker RC; Department of Molecular Cell Biology, Leiden University Medical Center, Leiden, The Netherlands.
  • van der Heijden A; Department of Molecular Cell Biology, Leiden University Medical Center, Leiden, The Netherlands.
  • de Knijff P; Amsterdam Public Health Research Institute, VU University Medical Center, Amsterdam, The Netherlands.
  • 't Hoen PAC; Department of General Practice and Elderly Care Medicine, VU Medical Center, Amsterdam, The Netherlands.
BMC Genomics ; 19(1): 90, 2018 01 25.
Article en En | MEDLINE | ID: mdl-29370748
ABSTRACT

BACKGROUND:

SNP panels that uniquely identify an individual are useful for genetic and forensic research. Previously recommended SNP panels are based on DNA profiles and mostly contain intragenic SNPs. With the increasing interest in RNA expression profiles, we aimed for establishing a SNP panel for both DNA and RNA-based genotyping.

RESULTS:

To determine a small set of SNPs with maximally discriminative power, genotype calls were obtained from DNA and blood-derived RNA sequencing data belonging to healthy, geographically dispersed, Dutch individuals. SNPs were selected based on different criteria like genotype call rate, minor allele frequency, Hardy-Weinberg equilibrium and linkage disequilibrium. A panel of 50 SNPs was sufficient to identify an individual uniquely the probability of identity was 6.9 × 10- 20 when assuming no family relations and 1.2 × 10- 10 when accounting for the presence of full sibs. The ability of the SNP panel to uniquely identify individuals on DNA and RNA level was validated in an independent population dataset. The panel is applicable to individuals from European descent, with slightly lower power in non-Europeans. Whereas most of the genes containing the 50 SNPs are expressed in various tissues, our SNP panel needs optimization for other tissues than blood.

CONCLUSIONS:

This first DNA/RNA SNP panel will be useful to identify sample mix-ups in biomedical research and for assigning DNA and RNA stains in crime scenes to unique individuals.
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Texto completo: 1 Bases de datos: MEDLINE Asunto principal: Sistemas de Identificación de Pacientes / ADN / ARN / Etnicidad / Polimorfismo de Nucleótido Simple / Genética de Población Tipo de estudio: Diagnostic_studies / Prognostic_studies Límite: Humans Idioma: En Revista: BMC Genomics Asunto de la revista: GENETICA Año: 2018 Tipo del documento: Article País de afiliación: Países Bajos

Texto completo: 1 Bases de datos: MEDLINE Asunto principal: Sistemas de Identificación de Pacientes / ADN / ARN / Etnicidad / Polimorfismo de Nucleótido Simple / Genética de Población Tipo de estudio: Diagnostic_studies / Prognostic_studies Límite: Humans Idioma: En Revista: BMC Genomics Asunto de la revista: GENETICA Año: 2018 Tipo del documento: Article País de afiliación: Países Bajos