SNP Identity Searching Across Ethnicities, Kinship, and Admixture

Advances in high throughput sequencing (HTS) enables application of single nucleotide polymorphism (SNP) panels for identification and mixture analysis. Large reference sets of characterized individuals with documented relationships, ethnicities, and admixture are not yet available for characterizing the impacts of different ethnicities, kinships, and admixture on identification and mixture search results for relatives and unrelated individuals. Models for the expected results are presented with comparison results on two in silico datasets spanning four ethnicities, extended kinship relationships, and also admixture between the four ethnicities.

[1]  Timothy A Thornton,et al.  Robust Inference of Population Structure for Ancestry Prediction and Correction of Stratification in the Presence of Relatedness , 2015, Genetic epidemiology.

[3]  Bruce S Weir,et al.  Eigenanalysis of SNP data with an identity by descent interpretation. , 2016, Theoretical population biology.

[4]  Kenneth K Kidd,et al.  Inference of human continental origin and admixture proportions using a highly discriminative ancestry informative 41-SNP panel , 2013, Investigative Genetics.

[5]  B. Malyarchuk,et al.  Simple and cost-effective 14-loci SNP assay designed for differentiation of European, East Asian and African samples. , 2015, Forensic science international. Genetics.

[6]  Bruce S Weir,et al.  Model-free Estimation of Recent Genetic Relatedness. , 2016, American journal of human genetics.

[7]  R. J. Mitchell,et al.  Predicting biogeographical ancestry in admixed individuals – values and limitations of using uniparental and autosomal markers , 2016 .

[8]  Hsin-Chou Yang,et al.  Integrative analysis of single nucleotide polymorphisms and gene expression efficiently distinguishes samples from closely related ethnic populations , 2012, BMC Genomics.

[9]  Manfred Kayser,et al.  The HIrisPlex system for simultaneous prediction of hair and eye colour from DNA. , 2013, Forensic science international. Genetics.

[10]  Noah A. Rosenberg,et al.  A General Mechanistic Model for Admixture Histories of Hybrid Populations , 2011, Genetics.

[11]  T. Spector,et al.  First all-in-one diagnostic tool for DNA intelligence: genome-wide inference of biogeographic ancestry, appearance, relatedness, and sex with the Identitas v1 Forensic Chip , 2012, International Journal of Legal Medicine.

[12]  R. Chakraborty,et al.  Selection of highly informative SNP markers for population affiliation of major US populations , 2016, International Journal of Legal Medicine.

[13]  M. Skipper Allele Frequency Database , 2003, Nature Reviews Genetics.

[14]  D. Ricke,et al.  Sherlock's Toolkit: A forensic DNA analysis system , 2015, 2015 IEEE International Symposium on Technologies for Homeland Security (HST).

[15]  T. Spector,et al.  Parametric model‐based statistics for possible genotyping errors and sample stratification in sibling‐pair SNP data , 2009, Genetic epidemiology.