Title

The Linkage Disequilibrium Maps of Three Human Chromosomes Across Four Populations Reflect Their Demographic History and a Common Underlying Recombination Pattern

Authors

Francisco M. De La Vega, Applied Biosystems
Hadar Isaac, Applied Biosystems
Andrew Collins, University of Southampton - United Kingdom
Charles R. Scafe, Applied Biosystems
Bjarni V. Halldorsson, Applied Biosystems
Xiaoping Su, Applied Biosystems
Ross A. Lippert, Applied Biosystems
Yu Wang, Applied Biosystems
Marion Laig-Webster, Applied Biosystems
Ryan T. Koehler, Applied Biosystems
Janet S. Ziegle, Applied Biosystems
Lewis T. Wogan, Applied Biosystems
Junko F. Stevens, Applied Biosystems
Kyle M. Leinen, Applied Biosystems
Sheri J. Olson, Applied Biosystems
Karl J. Guegler, Applied Biosystems
Xiaoqing You, Applied Biosystems
Lily H. Xu, Applied Biosystems
Heinz G. Hemken, Applied Biosystems
Francis Kalush, Celera Genomics
Mitsuo Itakura, University of Tokushima - Japan
Yi Zheng, Chinese Academy of Preventive Medicine - Beijing
Guy de The, Centre National de la Recherche Scientifique
Stephen J. O'Brien, National Cancer Institute at FrederickFollow
Andrew G. Clark, Cornell University
Sorin Istrail, Applied Biosystems
Michael W. Hunkapiller, Applied Biosystems
Eugene G. Spier, Applied Biosystems
Dennis A. Gilbert, Applied Biosystems

Document Type

Article

Publication Date

4-2005

Publication Title

Genome Research

ISSN

1088-9051

Volume

15

Issue/No.

4

First Page

454

Last Page

462

Abstract

The extent and patterns of linkage disequilibrium (LD) determine the feasibility of association studies to map genes that underlie complex traits. Here we present a comparison of the patterns of LD across four major human populations (African-American, Caucasian, Chinese, and Japanese) with a high-resolution single-nucleotide polymorphism (SNP) map covering almost the entire length of chromosomes 6, 21, and 22. We constructed metric LD maps formulated such that the units measure the extent of useful LD for association mapping. LD reaches almost twice as far in chromosome 6 as in chromosomes 21 or 22, in agreement with their differences in recombination rates. By all measures used, out-of-Africa populations showed over a third more LD than African-Americans, highlighting the role of the population's demography in shaping the patterns of LD. Despite those differences, the long-range contour of the LD maps is remarkably similar across the four populations, presumably reflecting common localization of recombination hot spots. Our results have practical implications for the rational design and selection of SNPs for disease association studies.

Comments

©2005 by Cold Spring Harbor Laboratory Press

NSUWorks Citation

De La Vega, Francisco M.; Hadar Isaac; Andrew Collins; Charles R. Scafe; Bjarni V. Halldorsson; Xiaoping Su; Ross A. Lippert; Yu Wang; Marion Laig-Webster; Ryan T. Koehler; Janet S. Ziegle; Lewis T. Wogan; Junko F. Stevens; Kyle M. Leinen; Sheri J. Olson; Karl J. Guegler; Xiaoqing You; Lily H. Xu; Heinz G. Hemken; Francis Kalush; Mitsuo Itakura; Yi Zheng; Guy de The; Stephen J. O'Brien; Andrew G. Clark; Sorin Istrail; Michael W. Hunkapiller; Eugene G. Spier; and Dennis A. Gilbert. 2005. "The Linkage Disequilibrium Maps of Three Human Chromosomes Across Four Populations Reflect Their Demographic History and a Common Underlying Recombination Pattern." Genome Research 15, (4): 454-462. https://nsuworks.nova.edu/cnso_bio_facarticles/789

ORCID ID

0000-0001-7353-8301

ResearcherID

N-1726-2015