Typing of two Middle Eastern populations with the Precision ID Ancestry Panel

Truelsen, Ditte; Farzad, Maryam Sharafi; Mogensen, Helle Smidt; Pereira, Vânia; Tvedebrink, Torben; Børsting, Claus; Morling, Niels

doi:10.1016/j.fsigss.2017.09.133

Cited by 12 publications

(13 citation statements)

References 6 publications

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“…Data are not fully published as yet for some of the new populations and have been made available for this summary in advance of their full papers by various co-authors; these include the Qatari (co-authors SH, EKA), Norwegians (co-authors NMS, KJ, G-HO) and Southern Tunisians (LC, SB, HK, AAE). We also thank Helle S. Mogensen, Maryam S. Farzad, Torben Tvedebrink, Claus Børsting, and Niels Morling of the University of Copenhagen for their willingness to share genotype data for four of the population samples [6, 8]. Special thanks are due to the many hundreds of individuals who volunteered to give blood or saliva samples for studies of gene frequency variation and to the many colleagues who helped us collect the samples.…”

Section: Acknowledgementsmentioning

confidence: 99%

Genetic relationships of European, Mediterranean, and SW Asian populations using a panel of 55 AISNPs

et al. 2019

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The set of 55 ancestry informative SNPs (AISNPs) originally developed by the Kidd Lab has been studied on a large number of populations and continues to be applied to new population samples. The existing reference database of population samples allows the relationships of new population samples to be inferred on a global level. Analyses show that these autosomal markers constitute one of the better panels of AISNPs. Continuing to build this reference database enhances its value. Because more than half of the 25 ethnic groups recently studied with these AISNPs are from Southwest Asia and the Mediterranean region, we present here various analyses focused on populations from these regions along with selected reference populations from nearby regions where genotype data are available. Many of these ethnic groups have not been previously studied for forensic markers. Data on populations from other world regions have also been added to the database but are not included in these focused analyses. The new population samples added to ALFRED and FROG-kb increase the total to 164 population samples that have been studied for all 55 AISNPs.

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Section: Acknowledgementsmentioning

confidence: 99%

Genetic relationships of European, Mediterranean, and SW Asian populations using a panel of 55 AISNPs

et al. 2019

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“…From a Danish perspective, the ability to separate individuals of European descent from those of Middle Eastern, North African, and North-East African descent is particularly interesting due to the recent immigration events to Denmark from these regions. The effectiveness of separating individuals from the above-mentioned populations with a rst-tier panel is limited because the AIMs in these panels were selected to separate individuals from the major, continental populations 24,45,46 . Therefore, the use of second-tier panels for the separation of individuals on a ner geographical scale is relevant.…”

Section: Discussionmentioning

confidence: 99%

“…Furthermore, 542 individuals from Afghanistan, Eritrea, Iran, Morocco, Pakistan, Portugal, and Syria were typed with the AmpliSeq™ EUROFORGEN NAME panel. All samples were also typed with the Precision ID Ancestry Panel (Thermo Fisher Scienti c), either in this or previous works 6,23,24 .…”

Section: Methodsmentioning

confidence: 99%

Assessment of the effectiveness of the EUROFORGEN NAME and Precision ID Ancestry panel markers for ancestry investigations

Truelsen

Tvedebrink

Mogensen

et al. 2021

Preprint

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The EUROFORGEN NAME panel is a second-tier ancestry panel designed to differentiate individuals from the Middle East, North Africa, and Europe. The first version of the panel was developed for the MassARRAY® system and included 111 SNPs. Here, a custom AmpliSeq™ EUROFORGEN NAME panel with 102 of the original 111 loci was used to sequence 1,098 individuals from 14 populations from Europe, the Middle East, North Africa, North-East Africa, and South-Central Asia. These samples were also sequenced with the first-tier Precision ID Ancestry Panel. The GenoGeographer software was used to assign the AIM profiles to reference populations and calculate the weight of the evidence as likelihood ratios. The combination of the EUROFORGEN NAME and Precision ID Ancestry panels led to fewer ambiguous assignments, especially for individuals from the Middle East and South-Central Asia. The likelihood ratios showed that North African individuals could be separated from European and Middle Eastern individuals using the Precision ID Ancestry Panel. The separation improved with the addition of the EUROFORGEN NAME panel. The analyses also showed that the separation of Middle Eastern populations from European and South-Central Asian populations was challenging even when both panels were applied.

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“…From a Danish perspective, the ability to separate individuals of European descent from those of Middle Eastern, North African, and North-East African descent is particularly interesting due to the recent immigration events to Denmark from these regions. The effectiveness of separating individuals from the above-mentioned populations with a global ancestry panel is limited because the AIMs in these panels were selected to separate individuals from the major, continental populations 31 – 33 . Therefore, the use of regional ancestry panels for the separation of individuals on a finer geographical scale is relevant.…”

Section: Discussionmentioning

confidence: 99%

Assessment of the effectiveness of the EUROFORGEN NAME and Precision ID Ancestry panel markers for ancestry investigations

Truelsen

Tvedebrink

Mogensen

et al. 2021

Sci Rep

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The EUROFORGEN NAME panel is a regional ancestry panel designed to differentiate individuals from the Middle East, North Africa, and Europe. The first version of the panel was developed for the MassARRAY system and included 111 SNPs. Here, a custom AmpliSeq EUROFORGEN NAME panel with 102 of the original 111 loci was used to sequence 1098 individuals from 14 populations from Europe, the Middle East, North Africa, North-East Africa, and South-Central Asia. These samples were also sequenced with a global ancestry panel, the Precision ID Ancestry Panel. The GenoGeographer software was used to assign the AIM profiles to reference populations and calculate the weight of the evidence as likelihood ratios. The combination of the EUROFORGEN NAME and Precision ID Ancestry panels led to fewer ambiguous assignments, especially for individuals from the Middle East and South-Central Asia. The likelihood ratios showed that North African individuals could be separated from European and Middle Eastern individuals using the Precision ID Ancestry Panel. The separation improved with the addition of the EUROFORGEN NAME panel. The analyses also showed that the separation of Middle Eastern populations from European and South-Central Asian populations was challenging even when both panels were applied.

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Typing of two Middle Eastern populations with the Precision ID Ancestry Panel

Cited by 12 publications

References 6 publications

Genetic relationships of European, Mediterranean, and SW Asian populations using a panel of 55 AISNPs

Genetic relationships of European, Mediterranean, and SW Asian populations using a panel of 55 AISNPs

Assessment of the effectiveness of the EUROFORGEN NAME and Precision ID Ancestry panel markers for ancestry investigations

Assessment of the effectiveness of the EUROFORGEN NAME and Precision ID Ancestry panel markers for ancestry investigations

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