Comparative evaluation of the MAPlex, Precision ID Ancestry Panel, and VISAGE Basic Tool for biogeographical ancestry inference

Resutik, Peter; Aeschbacher, Simon; Krützen, Michael; Krätzer, A.; Haas, Cordula; Phillips, Christopher; Arora, Natasha

doi:10.1016/j.fsigen.2023.102850

Cited by 4 publications

(3 citation statements)

References 59 publications

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“…Based on the observations in this study and in line with other studies, we concur to combine several prediction tools when conducting BGA analyses [18,19]. The UAS is a user-friendly software that integrates the analysis of sequence data with immediate BGA predictions.…”

Section: Discussionsupporting

confidence: 83%

“…However, due to long simulation runs, the analysis is time-consuming and might not be the first choice for BGA analyses in routine casework. If utilized, it is advised to use a comprehensive reference dataset and to carefully consider the parameters set in STRUCTURE, as these can influence the BGA inference [19]. Moreover, supplementation with uniparental DNA analysis (Y and mtDNA) would elevate the possibility of accurately detecting ancestral admixtures [3].…”

Section: Discussionmentioning

confidence: 99%

“…FROG-kb calculates the relative likelihoods of ancestry on 160 reference populations, whereas GenoGeographer runs a likelihood ratio test on 36 reference populations. When inferring BGA for forensic casework, a multiple-tool approach is recommended [18,19]. In this study, we provide comparison and error assessments of three prediction tools that might be relevant for forensic laboratories.…”

Section: Introductionmentioning

confidence: 99%

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Biogeographical Ancestry Analyses Using the ForenSeqTM DNA Signature Prep Kit and Multiple Prediction Tools

Salvo,

Olsen,

Berg

et al. 2024

Genes

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The inference of biogeographical ancestry (BGA) can assist in police investigations of serious crime cases and help to identify missing people and victims of mass disasters. In this study, we evaluated the typing performance of 56 ancestry-informative SNPs in 177 samples using the ForenSeq™ DNA Signature Prep Kit on the MiSeq FGx system. Furthermore, we compared the prediction accuracy of the tools Universal Analysis Software v1.2 (UAS), the FROG-kb, and GenoGeographer when inferring the ancestry of 503 Europeans, 22 non-Europeans, and 5 individuals with co-ancestry. The kit was highly sensitive with complete aiSNP profiles in samples with as low as 250pg input DNA. However, in line with others, we observed low read depth and occasional drop-out in some SNPs. Therefore, we suggest not using less than the recommended 1ng of input DNA. FROG-kb and GenoGeographer accurately predicted both Europeans (99.6% and 91.8% correct, respectively) and non-Europeans (95.4% and 90.9% correct, respectively). The UAS was highly accurate when predicting Europeans (96.0% correct) but performed poorer when predicting non-Europeans (40.9% correct). None of the tools were able to correctly predict individuals with co-ancestry. Our study demonstrates that the use of multiple prediction tools will increase the prediction accuracy of BGA inference in forensic casework.

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Section: Discussionsupporting

confidence: 83%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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