Developing a SNP panel for forensic identification of individuals

KK Kidd; AJ Pakstis; WC Speed; EL Grigorenko; SL Kajuna; NJ Karoma; S Kungulilo; JJ Kim; RB Lu; A Odunsi; F Okonofua; Josef Parnas; LO Schulz; OV Zhukova; JR Kidd

Developing a SNP panel for forensic identification of individuals

KK Kidd, AJ Pakstis, WC Speed, EL Grigorenko, SL Kajuna, NJ Karoma, S Kungulilo, JJ Kim, RB Lu, A Odunsi, F Okonofua, Josef Parnas, LO Schulz, OV Zhukova, JR Kidd

168 Citations (Scopus)

Abstract

Single nucleotide polymorphisms (SNPs) are likely in the near future to have a fundamental role in forensics in both human identification and description. However, considerable research is necessary to establish adequate scientific foundations for these applications. In the case of identification, because allele frequencies can vary greatly among populations, the population genetics of match probabilities is a critical issue. Some SNPs, however, show little allele frequency variation among populations while remaining highly informative. We describe here both an efficient strategy for identifying and characterizing such SNPs, and test that strategy on a broad representation of world populations. Markers with high heterozygosity and little frequency variation among African American, European American, and East Asian populations are selected for additional screening on seven populations that provide a sampling of genetic variation from the world's major geographical regions. Those with little allele frequency variation on the seven populations are then screened on a total of 40 populations ( approximately 2100 individuals) and the most promising retained. The preliminary panel of 19 SNPs, from an initial selection of 195 SNPs, gives an average match probability of <10(-7) in most of 40 populations studied and no greater than 10(-6) in the most isolated, inbred populations. Expansion of this panel to approximately 50 comparable SNPs should give match probabilities of about 10(-15) with a small global range.

Original language	English
Journal	Forensic Science International
Volume	164
Issue number	1
Pages (from-to)	20-32
ISSN	0379-0738
Publication status	Published - 2006

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Kidd, KK., Pakstis, AJ., Speed, WC., Grigorenko, EL., Kajuna, SL., Karoma, NJ., Kungulilo, S., Kim, JJ., Lu, RB., Odunsi, A., Okonofua, F., Parnas, J., Schulz, LO., Zhukova, OV., & Kidd, JR. (2006). Developing a SNP panel for forensic identification of individuals. Forensic Science International, 164(1), 20-32. http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&dopt=AbstractPlus&list_uids=16360294&query_hl=14&itool=pubmed_docsum

Kidd, KK, Pakstis, AJ, Speed, WC, Grigorenko, EL, Kajuna, SL, Karoma, NJ, Kungulilo, S, Kim, JJ, Lu, RB, Odunsi, A, Okonofua, F, Parnas, J, Schulz, LO, Zhukova, OV & Kidd, JR 2006, 'Developing a SNP panel for forensic identification of individuals', Forensic Science International, vol. 164, no. 1, pp. 20-32. <http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=pubmed&cmd=Retrieve&dopt=AbstractPlus&list_uids=16360294&query_hl=14&itool=pubmed_docsum>

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title = "Developing a SNP panel for forensic identification of individuals",

abstract = "Single nucleotide polymorphisms (SNPs) are likely in the near future to have a fundamental role in forensics in both human identification and description. However, considerable research is necessary to establish adequate scientific foundations for these applications. In the case of identification, because allele frequencies can vary greatly among populations, the population genetics of match probabilities is a critical issue. Some SNPs, however, show little allele frequency variation among populations while remaining highly informative. We describe here both an efficient strategy for identifying and characterizing such SNPs, and test that strategy on a broad representation of world populations. Markers with high heterozygosity and little frequency variation among African American, European American, and East Asian populations are selected for additional screening on seven populations that provide a sampling of genetic variation from the world's major geographical regions. Those with little allele frequency variation on the seven populations are then screened on a total of 40 populations ( approximately 2100 individuals) and the most promising retained. The preliminary panel of 19 SNPs, from an initial selection of 195 SNPs, gives an average match probability of <10(-7) in most of 40 populations studied and no greater than 10(-6) in the most isolated, inbred populations. Expansion of this panel to approximately 50 comparable SNPs should give match probabilities of about 10(-15) with a small global range.",

author = "KK Kidd and AJ Pakstis and WC Speed and EL Grigorenko and SL Kajuna and NJ Karoma and S Kungulilo and JJ Kim and RB Lu and A Odunsi and F Okonofua and Josef Parnas and LO Schulz and OV Zhukova and JR Kidd",

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T1 - Developing a SNP panel for forensic identification of individuals

AU - Kidd, KK

AU - Pakstis, AJ

AU - Speed, WC

AU - Grigorenko, EL

AU - Kajuna, SL

AU - Karoma, NJ

AU - Kungulilo, S

AU - Kim, JJ

AU - Lu, RB

AU - Odunsi, A

AU - Okonofua, F

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AU - Zhukova, OV

AU - Kidd, JR

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N2 - Single nucleotide polymorphisms (SNPs) are likely in the near future to have a fundamental role in forensics in both human identification and description. However, considerable research is necessary to establish adequate scientific foundations for these applications. In the case of identification, because allele frequencies can vary greatly among populations, the population genetics of match probabilities is a critical issue. Some SNPs, however, show little allele frequency variation among populations while remaining highly informative. We describe here both an efficient strategy for identifying and characterizing such SNPs, and test that strategy on a broad representation of world populations. Markers with high heterozygosity and little frequency variation among African American, European American, and East Asian populations are selected for additional screening on seven populations that provide a sampling of genetic variation from the world's major geographical regions. Those with little allele frequency variation on the seven populations are then screened on a total of 40 populations ( approximately 2100 individuals) and the most promising retained. The preliminary panel of 19 SNPs, from an initial selection of 195 SNPs, gives an average match probability of <10(-7) in most of 40 populations studied and no greater than 10(-6) in the most isolated, inbred populations. Expansion of this panel to approximately 50 comparable SNPs should give match probabilities of about 10(-15) with a small global range.

AB - Single nucleotide polymorphisms (SNPs) are likely in the near future to have a fundamental role in forensics in both human identification and description. However, considerable research is necessary to establish adequate scientific foundations for these applications. In the case of identification, because allele frequencies can vary greatly among populations, the population genetics of match probabilities is a critical issue. Some SNPs, however, show little allele frequency variation among populations while remaining highly informative. We describe here both an efficient strategy for identifying and characterizing such SNPs, and test that strategy on a broad representation of world populations. Markers with high heterozygosity and little frequency variation among African American, European American, and East Asian populations are selected for additional screening on seven populations that provide a sampling of genetic variation from the world's major geographical regions. Those with little allele frequency variation on the seven populations are then screened on a total of 40 populations ( approximately 2100 individuals) and the most promising retained. The preliminary panel of 19 SNPs, from an initial selection of 195 SNPs, gives an average match probability of <10(-7) in most of 40 populations studied and no greater than 10(-6) in the most isolated, inbred populations. Expansion of this panel to approximately 50 comparable SNPs should give match probabilities of about 10(-15) with a small global range.

M3 - Journal article

SN - 0379-0738

VL - 164

SP - 20

EP - 32

JO - Forensic Science International

JF - Forensic Science International

IS - 1

ER -

Developing a SNP panel for forensic identification of individuals

Abstract

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