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

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.

[1]  K. Kidd,et al.  Progress toward an efficient panel of SNPs for ancestry inference. , 2014, Forensic science international. Genetics.

[2]  Bruce Budowle,et al.  Genetic analysis of the Yavapai Native Americans from West-Central Arizona using the Illumina MiSeq FGx™ forensic genomics system. , 2016, Forensic science international. Genetics.

[3]  52 additional reference population samples for the 55 AISNP panel. , 2015, Forensic science international. Genetics.

[4]  Gabriel Silva,et al.  Ancestry informative marker sets for determining continental origin and admixture proportions in common populations in America , 2009, Human mutation.

[5]  P. Donnelly,et al.  Inference of population structure using multilocus genotype data. , 2000, Genetics.

[6]  K. Kidd,et al.  Minimal SNP overlap among multiple panels of ancestry informative markers argues for more international collaboration. , 2016, Forensic science international. Genetics.

[7]  Q. Kong,et al.  Ancient inland human dispersals from Myanmar into interior East Asia since the Late Pleistocene , 2015, Scientific Reports.

[8]  K. Kidd,et al.  Genetic variation in Tunisia in the context of human diversity worldwide , 2016, American journal of physical anthropology.

[9]  N. Morling,et al.  Frequencies of HID-ion ampliseq ancestry panel markers among greenlanders. , 2016, Forensic science international. Genetics.

[10]  Liuda Ziaugra,et al.  SNP Genotyping Using the Sequenom MassARRAY iPLEX Platform , 2009, Current protocols in human genetics.

[11]  Francisco M De La Vega,et al.  Analyses of a set of 128 ancestry informative single-nucleotide polymorphisms in a global set of 119 population samples , 2011, Investigative Genetics.

[12]  Stephan J Sanders,et al.  Homozygous loss of DIAPH1 is a novel cause of microcephaly in humans , 2014, European Journal of Human Genetics.