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A genome-wide linkage study of GAW15 gene expression data

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 Gene...

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Detalles Bibliográficos
Autores principales: Kan, Donghui, Cooper, Richard, Zhu, Xiaofeng
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2007
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2367464/
https://www.ncbi.nlm.nih.gov/pubmed/18466590
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author Kan, Donghui
Cooper, Richard
Zhu, Xiaofeng
author_facet Kan, Donghui
Cooper, Richard
Zhu, Xiaofeng
author_sort Kan, Donghui
collection PubMed
description 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.
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spelling pubmed-23674642008-05-06 A genome-wide linkage study of GAW15 gene expression data Kan, Donghui Cooper, Richard Zhu, Xiaofeng BMC Proc Proceedings 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. BioMed Central 2007-12-18 /pmc/articles/PMC2367464/ /pubmed/18466590 Text en Copyright © 2007 Kan et al; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License ( (http://creativecommons.org/licenses/by/2.0) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Proceedings
Kan, Donghui
Cooper, Richard
Zhu, Xiaofeng
A genome-wide linkage study of GAW15 gene expression data
title A genome-wide linkage study of GAW15 gene expression data
title_full A genome-wide linkage study of GAW15 gene expression data
title_fullStr A genome-wide linkage study of GAW15 gene expression data
title_full_unstemmed A genome-wide linkage study of GAW15 gene expression data
title_short A genome-wide linkage study of GAW15 gene expression data
title_sort genome-wide linkage study of gaw15 gene expression data
topic Proceedings
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2367464/
https://www.ncbi.nlm.nih.gov/pubmed/18466590
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