Linkage Disequilibrium Structure of the 5q31-33 Region in a Thai Population

Overview

Journal J Hum Genet

Specialty Genetics

Date 2008 Jun 25

PMID 18574552

Citations 3

Authors

Pornlada Nuchnoi

Jun Ohashi

Izumi Naka

Duangporn Nacapunchai

Katsushi Tokunaga

Nao Nishida

Jintana Patarapotikul

Affiliations

Soon will be listed here.

Abstract

A number of loci related to the immune response are located on human chromosomal region 5q31-33, and polymorphisms in this region have been reported to be associated with autoimmune and infectious diseases. In Southeast Asian populations, no systematic survey with dense SNP markers has been performed for the 5q31-33 region. In this study, the LD and haplotype structures for a 472-kb region on 5q31 were investigated in a Thai population to provide useful information for association studies. In addition, the LD structure in Thais was compared with that of the CHB and JPT HapMap populations (CHB + JPT) to evaluate the transferability of tagging SNPs from CHB + JPT for Thais. We show that the minor allele frequency, pattern of LD block, and genetic structure in the 5q31-33 region were highly concordant between Thais and CHB + JPT. A high transferability of tagging SNPs from CHB + JPT for Thais was observed. Our results suggest that tagging SNPs from CHB + JPT (Northeast Asians) can efficiently capture common variants in Southeast Asians, and that the HapMap data are useful for association studies in Southeast Asian populations.

Citing Articles

Linkage disequilibrium and haplotype block patterns in popcorn populations.

Andrade A, Viana J, Pereira H, Batista Pinto V, Silva F PLoS One. 2019; 14(9):e0219417.

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Are polymorphisms of the immunoregulatory factor CD40LG implicated in acute transfusion reactions?.

Aloui C, Sut C, Prigent A, Fagan J, Cognasse F, Granados-Herbepin V Sci Rep. 2014; 4:7239.

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Identification of a haplotype block in the 5q31 cytokine gene cluster associated with the susceptibility to severe malaria.

Naka I, Nishida N, Patarapotikul J, Nuchnoi P, Tokunaga K, Hananantachai H Malar J. 2009; 8:232.

PMID: 19840389 PMC: 2770543. DOI: 10.1186/1475-2875-8-232.

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