A genome-wide linkage analysis of orchard grass-sensitive childhood seasonal allergic rhinitis in Japanese families

Yokouchi, Yukako; Shibasaki, Masanao; Noguchi, Emiko; Nakayama, Junko; Ohtsuki, Tsuyuka; Kamioka, Masashi; Yamakawa‐Kobayashi, Kimiko; Ito, Sachio; Takeda, Kazunori; Ichikawa, Kunio; Nukaga, Yumi; Matsui, Akira; Hamaguchi, Hideo; Arinami, Tadao

doi:10.1038/sj.gene.6363815

Cited by 45 publications

(53 citation statements)

References 31 publications

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“…The present study is the third published genome scan of AR after one screen conducted in a Danish sample 12 and another one in a Japanese one. 13 The 9q22-q34 region detected for potential linkage to AR in our sample was also reported in the Japanese scan. 13 The linkage peak in the 2q32 region observed here for AR is about 40 cM apart from the linked region indicated in the Danish scan.…”

Section: Discussionsupporting

confidence: 82%

“…13 The 9q22-q34 region detected for potential linkage to AR in our sample was also reported in the Japanese scan. 13 The linkage peak in the 2q32 region observed here for AR is about 40 cM apart from the linked region indicated in the Danish scan. 12 The other regions, 1p36 and 4q13, detected in the Japanese genome scan and 4q24-27 detected in the Danish screen were not replicated here.…”

Section: Discussionsupporting

confidence: 82%

“…These genome screens have led to identification of four genes by positional cloning: ADAM33 associated with asthma and BHR located on chromosome 20, 8 PHF11 associated with IgE levels and severe asthma on chromosome 13, 9 DPP10 associated with asthma on chromosome 2 10 and GPRA associated with high serum IgE or asthma on chromosome 7p. 11 In contrast, only two genome-wide searches 12,13 have been recently conducted for AR that showed potential linkage to the following chromosomal regions: 4q24-q27 in a Danish sample of 33 families 12 and 1p36, 4q13 and 9q34 in a Japanese sample of 48 families. 13 No linkage region was common to these two studies and only the 1p36 region had been previously reported for asthma.…”

Section: Introductionmentioning

confidence: 99%

“…11 In contrast, only two genome-wide searches 12,13 have been recently conducted for AR that showed potential linkage to the following chromosomal regions: 4q24-q27 in a Danish sample of 33 families 12 and 1p36, 4q13 and 9q34 in a Japanese sample of 48 families. 13 No linkage region was common to these two studies and only the 1p36 region had been previously reported for asthma. 14 In a first genome-wide search in 107 French families of the EGEA study (Epidemiological study on the Genetics and Environment of Asthma) with at least two asthmatic siblings, 15 linkage analyses were conducted for asthma, IgE, skin test response, eosinophil counts and bronchial responsiveness using a panel of 254 microsatellites.…”

Section: Introductionmentioning

confidence: 99%

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Genome screen in the French EGEA study: detection of linked regions shared or not shared by allergic rhinitis and asthma

et al. 2005

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In the sample of 295 French EGEA families with at least one asthmatic subject, a genome screen was conducted to identify potential linkage regions specific either to allergic rhinitis (AR) or to asthma as well as those shared by the two diseases. Two binary rhinitis phenotypes based on (1) diagnosis (AR bin1 ) and (2) symptoms (AR bin2 ) and a categorical ordered trait (AR cat ) were considered. Asthma phenotype was based on answers to a standardized questionnaire plus the presence of bronchial hyper-responsiveness. Linkage analyses were conducted using the maximum likelihood binomial (MLB) method. These analyses provided potential evidence for linkage to three regions in the whole sample: 1p31 for the phenotype defined by AR bin2 plus asthma (P ¼ 0.00016), 2q32 for AR bin2 (P ¼ 0.00016) and 3p24-p14 for AR cat (P ¼ 0.001). Two other regions were detected in the subset of 185 families with at most one asthmatic sib: 9p22 and 9q22-q34 for AR bin1 (P ¼ 0.001 and 0.0007, respectively). No region showed evidence for linkage to asthma without being also linked to AR. While 1p31 may contain a genetic determinant common to asthma and AR, 2q32, 3p24-p14, 9p22 and 9q22-q34 are more likely to harbor genetic factors specific to AR. Genes and Immunity (2005) 6, 95-102.

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Section: Discussionsupporting

confidence: 82%

Section: Discussionsupporting

confidence: 82%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genome screen in the French EGEA study: detection of linked regions shared or not shared by allergic rhinitis and asthma

et al. 2005

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“…Genome-wide significance could not be assessed with the multivariate test. To date, chromosome 12q24 has been reported to be linked to asthma traits in French, 23 Dutch 24 and Japanese 25 populations, but a major gene is yet to be cloned in this region. A number of association studies suggest that the nitric oxide synthase 1 gene is a likely candidate.…”

Section: Discussionmentioning

confidence: 99%

A simple method to localise pleiotropic susceptibility loci using univariate linkage analyses of correlated traits

et al. 2006

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Univariate linkage analysis is used routinely to localise genes for human complex traits. Often, many traits are analysed but the significance of linkage for each trait is not corrected for multiple trait testing, which increases the experiment-wise type-I error rate. In addition, univariate analyses do not realise the full power provided by multivariate data sets. Multivariate linkage is the ideal solution but it is computationally intensive, so genome-wide analysis and evaluation of empirical significance are often prohibitive. We describe two simple methods that efficiently alleviate these caveats by combining P-values from multiple univariate linkage analyses. The first method estimates empirical pointwise and genome-wide significance between one trait and one marker when multiple traits have been tested. It is as robust as an appropriate Bonferroni adjustment, with the advantage that no assumptions are required about the number of independent tests performed. The second method estimates the significance of linkage between multiple traits and one marker and, therefore, it can be used to localise regions that harbour pleiotropic quantitative trait loci (QTL). We show that this method has greater power than individual univariate analyses to detect a pleiotropic QTL across different situations. In addition, when traits are moderately correlated and the QTL influences all traits, it can outperform formal multivariate VC analysis. This approach is computationally feasible for any number of traits and was not affected by the residual correlation between traits. We illustrate the utility of our approach with a genome scan of three asthma traits measured in families with a twin proband.

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Introduction to Genetics and Genomics in Asthma: Genetics of Asthma

Mathias

2013

Advances in Experimental Medicine and Biology

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While asthma is a heterogeneous disease, a strong genetic basis has been firmly established. Rather than being a single disease entity, asthma consists of related, overlapping syndromes [Barnes (Proc Am Thor Soc 8:143-148, 2011)] including three general domains: variable airway obstruction, airway hyper-responsiveness, and airway inflammation with a considerable proportion, but not all, of asthma being IgE-mediated further adding to its heterogeneity. This chapter reviews the approaches to the elucidation of genetics of asthma from the early evidence of familial clustering to the current state of knowledge with genome-wide approaches. The conclusion is that research efforts have led to a tremendous repository of genetic determinants of asthma, most of which fall into the above phenotypic domains of the syndrome. We now look to future integrative approaches of genetics, genomics (Chap. 10), and epigenetics (Chap. 11) to better understand the causal mechanism through which, these genetic loci act in manifesting asthma.

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A genome-wide linkage analysis of orchard grass-sensitive childhood seasonal allergic rhinitis in Japanese families

Abstract: Seasonal allergic rhinitis (SAR) is an inflammatory disease of the nose and eyes that follows

Cited by 45 publications

References 31 publications

Genome screen in the French EGEA study: detection of linked regions shared or not shared by allergic rhinitis and asthma

Genome screen in the French EGEA study: detection of linked regions shared or not shared by allergic rhinitis and asthma

A simple method to localise pleiotropic susceptibility loci using univariate linkage analyses of correlated traits

Introduction to Genetics and Genomics in Asthma: Genetics of Asthma

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