scholarly journals Novel Linkage Disequilibrium of Single Nucleotide Polymorphisms in the Transcriptional Regulatory Region of μ-Opioid Receptor Gene in Japanese Population

2009 ◽  
Vol 32 (4) ◽  
pp. 721-723 ◽  
Author(s):  
Takeshi Ono ◽  
Akihiro Muto ◽  
Toshio Kaneda ◽  
Eri Arita ◽  
Tadashi Yoshida
Keyword(s):  
Linkage Disequilibrium ◽  
Single Nucleotide Polymorphisms ◽  
Japanese Population ◽  
Receptor Gene ◽  
Regulatory Region ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Transcriptional Regulatory ◽  
Μ Opioid Receptor ◽  
Transcriptional Regulatory Region

Single nucleotide polymorphisms and the linkage disequilibrium at the LDL receptor gene in Koreans

2010 ◽  
Vol 32 (1) ◽  
pp. 23-28
Author(s):  
Cheong-Ho Yi ◽  
Seung Koo Lee ◽  
Jae Youn Cheong ◽  
Sung Won Cho ◽  
KyuBum Kwack
Keyword(s):  
Linkage Disequilibrium ◽  
Single Nucleotide Polymorphisms ◽  
Receptor Gene ◽  
Ldl Receptor ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide

scholarly journals Rapid Pyrosequencing Method for FMO3 Non-Synonymous Genetic Variant Evaluation in A Korean Population

2021 ◽  
Author(s):  
Jin-woo Park ◽  
In-Hwan Park ◽  
Jong-Min Kim ◽  
Kyoung-Ah Kim ◽  
Ji-Young Park
Keyword(s):  
Linkage Disequilibrium ◽  
Single Nucleotide Polymorphisms ◽  
Ethnic Differences ◽  
Japanese Population ◽  
Genetic Variant ◽  
Allele Frequencies ◽  
Korean Population ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Pyrosequencing Method

Abstract Background: The aim of this study was to develop a feasible pyrosequencing method to detect non-synonymous single nucleotide polymorphisms (SNPs) of the flavin-containing monooxygenase 3 (FMO3) gene and compare the ethnic differences in the frequencies of these alleles. Methods and Results: This pyrosequencing method was used to identify four non-synonymous FMO3 SNPs, including c.855C>T (rs909530), c.441C>T (rs1800822), c.923A>G (rs2266782), and c.472G>A (rs2266782). The allele frequencies of these SNPs in 122 unrelated Korean subjects were analyzed, and were as follows: 44.7% for c.855C>T, 23.4% for c.441C>T, 23.0% for c.923A>G, and 27.1% for c.472G>A. Linkage disequilibrium (LD) analysis showed that c.923A>G and c.472G>A were in strong LD (D′ = 0.8289, r2 = 0.5332). Conclusions: The designed pyrosequencing method was successfully applied to identify the c.855C>T, c.441C>T, c.923A>G, and c.472G>A SNPs. The frequencies were similar to those reported previously in a Japanese population. However, in general, large differences between ethnicities were found.

Protein Variation in ADH and ADH-RELATED in Drosophila pseudoobscura: Linkage Disequilibrium Between Single Nucleotide Polymorphisms and Protein Alleles

Genetics ◽  
2001 ◽  
Vol 159 (2) ◽  
pp. 673-687
Author(s):  
Stephen W Schaeffer ◽  
C Scott Walthour ◽  
Donna M Toleno ◽  
Anna T Olek ◽  
Ellen L Miller
Keyword(s):  
Linkage Disequilibrium ◽  
Single Nucleotide Polymorphisms ◽  
Drosophila Pseudoobscura ◽  
Linkage Disequilibrium Mapping ◽  
Nucleotide Polymorphisms ◽  
Neutral Model ◽  
Significant Linkage Disequilibrium ◽  
Single Nucleotide ◽  
Synonymous Sites ◽  
Significant Linkage

Abstract A 3.5-kb segment of the alcohol dehydrogenase (Adh) region that includes the Adh and Adh-related genes was sequenced in 139 Drosophila pseudoobscura strains collected from 13 populations. The Adh gene encodes four protein alleles and rejects a neutral model of protein evolution with the McDonald-Kreitman test, although the number of segregating synonymous sites is too high to conclude that adaptive selection has operated. The Adh-related gene encodes 18 protein haplotypes and fails to reject an equilibrium neutral model. The populations fail to show significant geographic differentiation of the Adh-related haplotypes. Eight of 404 single nucleotide polymorphisms (SNPs) in the Adh region were in significant linkage disequilibrium with three ADHR protein alleles. Coalescent simulations with and without recombination were used to derive the expected levels of significant linkage disequilibrium between SNPs and 18 protein haplotypes. Maximum levels of linkage disequilibrium are expected for protein alleles at moderate frequencies. In coalescent models without recombination, linkage disequilibrium decays between SNPs and high frequency haplotypes because common alleles mutate to haplotypes that are rare or that reach moderate frequency. The implication of this study is that linkage disequilibrium mapping has the highest probability of success with disease-causing alleles at frequencies of 10%.

Twenty­six Novel Single Nucleotide Polymorphisms and their Frequencies of the NR1I3(CAR) Gene in a Japanese Population

2003 ◽  
Vol 18 (6) ◽  
pp. 413-418 ◽  
Author(s):  
Shinobu Ikeda ◽  
Kouichi Kurose ◽  
Shogo Ozawa ◽  
Kimie Sai ◽  
Ryuichi Hasegawa ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphisms ◽  
Japanese Population ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide

Association of body mass index-related single nucleotide polymorphisms with psychiatric disease and memory performance in a Japanese population

2016 ◽  
Vol 29 (5) ◽  
pp. 299-308 ◽  
Author(s):  
Midori Ninomiya-Baba ◽  
Junko Matsuo ◽  
Daimei Sasayama ◽  
Hiroaki Hori ◽  
Toshiya Teraishi ◽  
...  
Keyword(s):  
Body Mass Index ◽  
Single Nucleotide Polymorphisms ◽  
Japanese Population ◽  
Memory Performance ◽  
Psychiatric Disease ◽  
Psychiatric Diseases ◽  
Healthy Controls ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Poor Memory

ObjectiveObesity is a risk factor for psychiatric diseases. Recently, a number of single nucleotide polymorphisms (SNPs) have been shown to be related to body mass index (BMI). In this study, we investigated the association of BMI-related SNPs with psychiatric diseases and one of their endophenotypes, memory performance, in a Japanese population.MethodsThe subjects were 1624 patients with one of three psychiatric diseases (799 patients with major depressive disorder, 594 with schizophrenia, and 231 with bipolar disorder) and 1189 healthy controls. Memory performance was assessed using the Wechsler Memory Scale – Revised (WMS-R). Genomic DNA was prepared from venous blood and used to genotype 23 BMI-related SNPs using the TaqMan 5′-exonuclease allelic discrimination assay. We then analysed the relationships between the SNPs and psychiatric disease and various subscales of the WMS-R.ResultsThree SNPs (rs11142387, rs12597579, and rs6548238) showed significant differences in the genotype or allele frequency between patients with any psychiatric diseases and controls. Furthermore, six SNPs (rs11142387, rs12597579, rs2815752, rs2074356, rs4776970, and rs2287019) showed significant differences in at least one subscale of the WMS-R depending on the genotypes of the healthy controls. Interestingly, rs11142387 near the Kruppel-like factor 9 (KLF9) was significantly associated with psychiatric disease and poor memory function.ConclusionsWe identified three and six BMI-related SNPs associated with psychiatric disease and memory performance, respectively. In particular, carrying the A allele of rs11142387 near KLF9 was found to be associated with psychiatric disease and poor memory performance, which warrants further investigations.

Sign in / Sign up

Export Citation Format

Share Document