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A genome-wide linkage study of GAW15 gene expression data.

Kan D, Cooper R, Zhu X - BMC Proc (2007)

Bottom Line: Heritability was estimated for the expression levels of each individual phenotype.Heritability exceeded 0.21 for 50% of the expressed phenotypes.We did not identify any hot spots of transcriptional regulation when assuming LOD score > 5.3 for significant linkage evidence.

View Article: PubMed Central - HTML - PubMed

Affiliation: Department of Preventive Medicine and Epidemiology, Loyola University Medical Center, Maywood, Illinois 60153, USA. dkan@lumc.edu

ABSTRACT

Background: Recently, gene expression levels have been shown to demonstrate familial aggregation, suggesting a direct role of heritable DNA variation. We studied the gene expression levels in lymphoblastoid cells of the Centre d'Etude du Polymorphisme Humain Utah families made available to Genetic Analysis Workshop 15 (GAW15), using genome-wide linkage analyses.

Methods: Heritability was estimated for the expression levels of each individual phenotype. Genome wide linkage analysis was then performed using the 2819 SNPs for the expression levels of all the genes.

Results: Heritability exceeded 0.21 for 50% of the expressed phenotypes. Genome-wide linkage analysis demonstrated that 19 of them reached significance after correcting for multiple comparisons, only 4 of which were reported previously. We did not identify any hot spots of transcriptional regulation when assuming LOD score > 5.3 for significant linkage evidence.

Conclusion: Our analysis suggests that inconsistent results in comparison to the previous report may be due to the different approaches, phenotype transformation, and different pedigree data used in the analyses.

No MeSH data available.


Related in: MedlinePlus

The heritability distribution of 3354 gene expression phenotypes.
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Related In: Results  -  Collection

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Figure 1: The heritability distribution of 3354 gene expression phenotypes.

Mentions: Figure 1 presents the distribution of heritability of 3354 expression phenotypes. The range of heritability is from 0 to 0.87 with an average of 0.22, suggesting a modest amount of genetic contribution to the expression level. The heritability distribution did not show clustering in chromosome regions, suggesting the inheritable expression phenotypes are randomly distributed across the genome.


A genome-wide linkage study of GAW15 gene expression data.

Kan D, Cooper R, Zhu X - BMC Proc (2007)

The heritability distribution of 3354 gene expression phenotypes.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC2367464&req=5

Figure 1: The heritability distribution of 3354 gene expression phenotypes.
Mentions: Figure 1 presents the distribution of heritability of 3354 expression phenotypes. The range of heritability is from 0 to 0.87 with an average of 0.22, suggesting a modest amount of genetic contribution to the expression level. The heritability distribution did not show clustering in chromosome regions, suggesting the inheritable expression phenotypes are randomly distributed across the genome.

Bottom Line: Heritability was estimated for the expression levels of each individual phenotype.Heritability exceeded 0.21 for 50% of the expressed phenotypes.We did not identify any hot spots of transcriptional regulation when assuming LOD score > 5.3 for significant linkage evidence.

View Article: PubMed Central - HTML - PubMed

Affiliation: Department of Preventive Medicine and Epidemiology, Loyola University Medical Center, Maywood, Illinois 60153, USA. dkan@lumc.edu

ABSTRACT

Background: Recently, gene expression levels have been shown to demonstrate familial aggregation, suggesting a direct role of heritable DNA variation. We studied the gene expression levels in lymphoblastoid cells of the Centre d'Etude du Polymorphisme Humain Utah families made available to Genetic Analysis Workshop 15 (GAW15), using genome-wide linkage analyses.

Methods: Heritability was estimated for the expression levels of each individual phenotype. Genome wide linkage analysis was then performed using the 2819 SNPs for the expression levels of all the genes.

Results: Heritability exceeded 0.21 for 50% of the expressed phenotypes. Genome-wide linkage analysis demonstrated that 19 of them reached significance after correcting for multiple comparisons, only 4 of which were reported previously. We did not identify any hot spots of transcriptional regulation when assuming LOD score > 5.3 for significant linkage evidence.

Conclusion: Our analysis suggests that inconsistent results in comparison to the previous report may be due to the different approaches, phenotype transformation, and different pedigree data used in the analyses.

No MeSH data available.


Related in: MedlinePlus