Informativeness of the CODIS STR loci for admixture analysis

Jill S. Barnholtz-Sloan; Carrie L. Pfaff; Ranajit Chakraborty; Jeffrey C. Long

doi:10.1520/jfs2003404

Informativeness of the CODIS STR loci for admixture analysis

Jill S. Barnholtz-Sloan, Carrie L. Pfaff, Ranajit Chakraborty, Jeffrey C. Long

School of Biomedical Sciences

Research output: Contribution to journal › Article › peer-review

21 Scopus citations

Abstract

Population admixture (or ancestry) is used as an approach to gene discovery in complex diseases, particularly when the disease prevalence varies widely across geographic populations. Admixture analysis could be useful for forensics because an indication of a perpetrator's ancestry would narrow the pool of suspects for a particular crime. The purpose of this study was to use Fisher's information to identify informative sets of markers for admixture analysis. Using published founding population allele frequencies we test three marker sets for efficacy for estimating admixture: the FBI CODIS Core STR loci, the HGDP-CEPH Human Genome Diversity Cell Line Panel and the set of 39 ancestry informative SNPS from the Shriver lab at Pennsylvania State University. We conclude that the FBI CODIS Core STR set is valid for admixture analysis, but not the most precise. We recommend using a combination of the most informative markers from the HGDP-CEPH and Shriver loci sets.

Original language	English
Article number	JFS2003404
Pages (from-to)	1322-1326
Number of pages	5
Journal	Journal of Forensic Sciences
Volume	50
Issue number	6
DOIs	https://doi.org/10.1520/jfs2003404
State	Published - Nov 2005

Keywords

Admixture analysis
Ancestry
CODIS STR loci
Forensic science
Population admixture

Access to Document

10.1520/jfs2003404

Cite this

@article{c9a64072f9e54d7cb230109816406e7c,

title = "Informativeness of the CODIS STR loci for admixture analysis",

abstract = "Population admixture (or ancestry) is used as an approach to gene discovery in complex diseases, particularly when the disease prevalence varies widely across geographic populations. Admixture analysis could be useful for forensics because an indication of a perpetrator's ancestry would narrow the pool of suspects for a particular crime. The purpose of this study was to use Fisher's information to identify informative sets of markers for admixture analysis. Using published founding population allele frequencies we test three marker sets for efficacy for estimating admixture: the FBI CODIS Core STR loci, the HGDP-CEPH Human Genome Diversity Cell Line Panel and the set of 39 ancestry informative SNPS from the Shriver lab at Pennsylvania State University. We conclude that the FBI CODIS Core STR set is valid for admixture analysis, but not the most precise. We recommend using a combination of the most informative markers from the HGDP-CEPH and Shriver loci sets.",

keywords = "Admixture analysis, Ancestry, CODIS STR loci, Forensic science, Population admixture",

author = "Barnholtz-Sloan, {Jill S.} and Pfaff, {Carrie L.} and Ranajit Chakraborty and Long, {Jeffrey C.}",

year = "2005",

month = nov,

doi = "10.1520/jfs2003404",

language = "English",

volume = "50",

pages = "1322--1326",

journal = "Journal of forensic sciences",

issn = "0022-1198",

publisher = "Wiley-Blackwell",

number = "6",

}

TY - JOUR

T1 - Informativeness of the CODIS STR loci for admixture analysis

AU - Barnholtz-Sloan, Jill S.

AU - Pfaff, Carrie L.

AU - Chakraborty, Ranajit

AU - Long, Jeffrey C.

PY - 2005/11

Y1 - 2005/11

N2 - Population admixture (or ancestry) is used as an approach to gene discovery in complex diseases, particularly when the disease prevalence varies widely across geographic populations. Admixture analysis could be useful for forensics because an indication of a perpetrator's ancestry would narrow the pool of suspects for a particular crime. The purpose of this study was to use Fisher's information to identify informative sets of markers for admixture analysis. Using published founding population allele frequencies we test three marker sets for efficacy for estimating admixture: the FBI CODIS Core STR loci, the HGDP-CEPH Human Genome Diversity Cell Line Panel and the set of 39 ancestry informative SNPS from the Shriver lab at Pennsylvania State University. We conclude that the FBI CODIS Core STR set is valid for admixture analysis, but not the most precise. We recommend using a combination of the most informative markers from the HGDP-CEPH and Shriver loci sets.

AB - Population admixture (or ancestry) is used as an approach to gene discovery in complex diseases, particularly when the disease prevalence varies widely across geographic populations. Admixture analysis could be useful for forensics because an indication of a perpetrator's ancestry would narrow the pool of suspects for a particular crime. The purpose of this study was to use Fisher's information to identify informative sets of markers for admixture analysis. Using published founding population allele frequencies we test three marker sets for efficacy for estimating admixture: the FBI CODIS Core STR loci, the HGDP-CEPH Human Genome Diversity Cell Line Panel and the set of 39 ancestry informative SNPS from the Shriver lab at Pennsylvania State University. We conclude that the FBI CODIS Core STR set is valid for admixture analysis, but not the most precise. We recommend using a combination of the most informative markers from the HGDP-CEPH and Shriver loci sets.

KW - Admixture analysis

KW - Ancestry

KW - CODIS STR loci

KW - Forensic science

KW - Population admixture

UR - http://www.scopus.com/inward/record.url?scp=27844477277&partnerID=8YFLogxK

U2 - 10.1520/jfs2003404

DO - 10.1520/jfs2003404

M3 - Article

C2 - 16382826

AN - SCOPUS:27844477277

SN - 0022-1198

VL - 50

SP - 1322

EP - 1326

JO - Journal of forensic sciences

JF - Journal of forensic sciences

IS - 6

M1 - JFS2003404

ER -

Informativeness of the CODIS STR loci for admixture analysis

Abstract

Keywords

Access to Document

Other files and links

Fingerprint

Cite this