Magnitude and distribution of linkage disequilibrium in population isolates and implications for genome-wide association studies.
The genome-wide distribution of linkage disequilibrium (LD) determines the strategy for selecting markers for association studies, but it varies between populations. We assayed LD in large samples (200 individuals) from each of 11 well-described population isolates and an outbred European-derived sample, using SNP markers spaced across chromosome 22. Most isolates show substantially higher levels of LD than the outbred sample and many fewer regions of very low LD (termed 'holes'). Young isolates known to have had relatively few founders show particularly extensive LD with very few holes; these populations offer substantial advantages for genome-wide association mapping.
Service
Susan
S
Center for Neurobehavioral Genetics, University of California, Los Angeles, California 90095, USA.
DeYoung
Joseph
J
Karayiorgou
Maria
M
Roos
J Louw
JL
Pretorious
Herman
H
Bedoya
Gabriel
G
Ospina
Jorge
J
Ruiz-Linares
Andres
A
Macedo
António
A
Palha
Joana Almeida
JA
Heutink
Peter
P
Aulchenko
Yurii
Y
Oostra
Ben
B
van Duijn
Cornelia
C
Jarvelin
Marjo-Riitta
MR
Varilo
Teppo
T
Peddle
Lynette
L
Rahman
Proton
P
Piras
Giovanna
G
Monne
Maria
M
Murray
Sarah
S
Galver
Luana
L
Peltonen
Leena
L
Sabatti
Chiara
C
Collins
Andrew
A
Freimer
Nelson
N
D002892:Chromosomes, Human, Pair 22; D005828:Genetics, Population; D015894:Genome, Human; D006801:Humans; D015810:Linkage Disequilibrium; D020641:Polymorphism, Single Nucleotide