Increasing the reference populations for the 55 AISNP panel: the need and benefits

Andrew J Pakstis; Longli Kang; Lijun Liu; Zhiying Zhang; Tianbo Jin; Elena L Grigorenko; Frank R Wendt; Bruce Budowle; Sibte Hadi; Mariam Salam Al Qahtani; Niels Morling; Helle Smidt Mogensen; Goncalo E Themudo; Usha Soundararajan; Haseena Rajeevan; Judith R Kidd; Kenneth K Kidd

doi:10.1007/s00414-016-1524-z

Increasing the reference populations for the 55 AISNP panel: the need and benefits

Andrew J Pakstis, Longli Kang, Lijun Liu, Zhiying Zhang, Tianbo Jin, Elena L Grigorenko, Frank R Wendt, Bruce Budowle, Sibte Hadi, Mariam Salam Al Qahtani, Niels Morling, Helle Smidt Mogensen, Goncalo E Themudo, Usha Soundararajan, Haseena Rajeevan, Judith R Kidd, Kenneth K Kidd

27 Citationer (Scopus)

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Abstract

Ancestry inference for an individual can only be as good as the reference populations with allele frequency data on the SNPs being used. If the most relevant ancestral population(s) does not have data available for the SNPs studied, then analyses based on DNA evidence may indicate a quite distantly related population, albeit one among the more closely related of the existing reference populations. We have added reference population allele frequencies for 14 additional population samples (with >1100 individuals studied) to the 125 population samples previously published for the Kidd Lab 55 AISNP panel. Allele frequencies are now publicly available for all 55 SNPs in ALFRED and FROG-kb for a total of 139 population samples. This Kidd Lab panel of 55 ancestry informative SNPs has been incorporated in commercial kits by both ThermoFisher Scientific and Illumina for massively parallel sequencing. Researchers employing those kits will find the enhanced set of reference populations useful.

Originalsprog	Engelsk
Tidsskrift	International Journal of Legal Medicine
Vol/bind	131
Udgave nummer	4
Sider (fra-til)	913–917
ISSN	0937-9827
DOI	https://doi.org/10.1007/s00414-016-1524-z
Status	Udgivet - 1 jul. 2017

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10.1007/s00414-016-1524-zLicens: CC BY

Increasing the reference populations for the 55 AISNP panel: the need and benefitsForlagets udgivne version, 564 KBLicens: CC BY

Citationsformater

Pakstis, A. J., Kang, L., Liu, L., Zhang, Z., Jin, T., Grigorenko, E. L., Wendt, F. R., Budowle, B., Hadi, S., Al Qahtani, M. S., Morling, N., Mogensen, H. S., Themudo, G. E., Soundararajan, U., Rajeevan, H., Kidd, J. R., & Kidd, K. K. (2017). Increasing the reference populations for the 55 AISNP panel: the need and benefits. International Journal of Legal Medicine, 131(4), 913–917. https://doi.org/10.1007/s00414-016-1524-z

Pakstis, AJ, Kang, L, Liu, L, Zhang, Z, Jin, T, Grigorenko, EL, Wendt, FR, Budowle, B, Hadi, S, Al Qahtani, MS, Morling, N , Mogensen, HS, Themudo, GE, Soundararajan, U, Rajeevan, H, Kidd, JR & Kidd, KK 2017, 'Increasing the reference populations for the 55 AISNP panel: the need and benefits', International Journal of Legal Medicine, bind 131, nr. 4, s. 913–917. https://doi.org/10.1007/s00414-016-1524-z

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abstract = "Ancestry inference for an individual can only be as good as the reference populations with allele frequency data on the SNPs being used. If the most relevant ancestral population(s) does not have data available for the SNPs studied, then analyses based on DNA evidence may indicate a quite distantly related population, albeit one among the more closely related of the existing reference populations. We have added reference population allele frequencies for 14 additional population samples (with >1100 individuals studied) to the 125 population samples previously published for the Kidd Lab 55 AISNP panel. Allele frequencies are now publicly available for all 55 SNPs in ALFRED and FROG-kb for a total of 139 population samples. This Kidd Lab panel of 55 ancestry informative SNPs has been incorporated in commercial kits by both ThermoFisher Scientific and Illumina for massively parallel sequencing. Researchers employing those kits will find the enhanced set of reference populations useful.",

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AU - Pakstis, Andrew J

AU - Kang, Longli

AU - Liu, Lijun

AU - Zhang, Zhiying

AU - Jin, Tianbo

AU - Grigorenko, Elena L

AU - Wendt, Frank R

AU - Budowle, Bruce

AU - Hadi, Sibte

AU - Al Qahtani, Mariam Salam

AU - Morling, Niels

AU - Mogensen, Helle Smidt

AU - Themudo, Goncalo E

AU - Soundararajan, Usha

AU - Rajeevan, Haseena

AU - Kidd, Judith R

AU - Kidd, Kenneth K

PY - 2017/7/1

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N2 - Ancestry inference for an individual can only be as good as the reference populations with allele frequency data on the SNPs being used. If the most relevant ancestral population(s) does not have data available for the SNPs studied, then analyses based on DNA evidence may indicate a quite distantly related population, albeit one among the more closely related of the existing reference populations. We have added reference population allele frequencies for 14 additional population samples (with >1100 individuals studied) to the 125 population samples previously published for the Kidd Lab 55 AISNP panel. Allele frequencies are now publicly available for all 55 SNPs in ALFRED and FROG-kb for a total of 139 population samples. This Kidd Lab panel of 55 ancestry informative SNPs has been incorporated in commercial kits by both ThermoFisher Scientific and Illumina for massively parallel sequencing. Researchers employing those kits will find the enhanced set of reference populations useful.

AB - Ancestry inference for an individual can only be as good as the reference populations with allele frequency data on the SNPs being used. If the most relevant ancestral population(s) does not have data available for the SNPs studied, then analyses based on DNA evidence may indicate a quite distantly related population, albeit one among the more closely related of the existing reference populations. We have added reference population allele frequencies for 14 additional population samples (with >1100 individuals studied) to the 125 population samples previously published for the Kidd Lab 55 AISNP panel. Allele frequencies are now publicly available for all 55 SNPs in ALFRED and FROG-kb for a total of 139 population samples. This Kidd Lab panel of 55 ancestry informative SNPs has been incorporated in commercial kits by both ThermoFisher Scientific and Illumina for massively parallel sequencing. Researchers employing those kits will find the enhanced set of reference populations useful.

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DO - 10.1007/s00414-016-1524-z

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JO - International Journal of Legal Medicine

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ER -

Increasing the reference populations for the 55 AISNP panel: the need and benefits

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