Document Detail


Genetic inheritance of gene expression in human cell lines.
MedLine Citation:
PMID:  15514893     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Combining genetic inheritance information, for both molecular profiles and complex traits, is a promising strategy not only for detecting quantitative trait loci (QTLs) for complex traits but for understanding which genes, pathways, and biological processes are also under the influence of a given QTL. As a primary step in determining the feasibility of such an approach in humans, we present the largest survey to date, to our knowledge, of the heritability of gene-expression traits in segregating human populations. In particular, we measured expression for 23,499 genes in lymphoblastoid cell lines for members of 15 Centre d'Etude du Polymorphisme Humain (CEPH) families. Of the total set of genes, 2,340 were found to be expressed, of which 31% had significant heritability when a false-discovery rate of 0.05 was used. QTLs were detected for 33 genes on the basis of at least one P value <.000005. Of these, 13 genes possessed a QTL within 5 Mb of their physical location. Hierarchical clustering was performed on the basis of both Pearson correlation of gene expression and genetic correlation. Both reflected biologically relevant activity taking place in the lymphoblastoid cell lines, with greater coherency represented in Kyoto Encyclopedia of Genes and Genomes database (KEGG) pathways than in Gene Ontology database pathways. However, more pathway coherence was observed in KEGG pathways when clustering was based on genetic correlation than when clustering was based on Pearson correlation. As more expression data in segregating populations are generated, viewing clusters or networks based on genetic correlation measures and shared QTLs will offer potentially novel insights into the relationship among genes that may underlie complex traits.
Authors:
S A Monks; A Leonardson; H Zhu; P Cundiff; P Pietrusiak; S Edwards; J W Phillips; A Sachs; E E Schadt
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Publication Detail:
Type:  Comparative Study; Journal Article     Date:  2004-10-21
Journal Detail:
Title:  American journal of human genetics     Volume:  75     ISSN:  0002-9297     ISO Abbreviation:  Am. J. Hum. Genet.     Publication Date:  2004 Dec 
Date Detail:
Created Date:  2004-10-29     Completed Date:  2005-02-04     Revised Date:  2009-11-18    
Medline Journal Info:
Nlm Unique ID:  0370475     Medline TA:  Am J Hum Genet     Country:  United States    
Other Details:
Languages:  eng     Pagination:  1094-105     Citation Subset:  IM    
Affiliation:
Department of Statistics, Oklahoma State University, Stillwater, OK 74078-1056, USA. stephanie.monks@okstate.edu
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MeSH Terms
Descriptor/Qualifier:
Cell Line
Cluster Analysis
Databases, Genetic
Family
Gene Expression Profiling*
Humans
Linkage (Genetics)*
Lymphocytes / metabolism*
Models, Statistical
Oligonucleotide Array Sequence Analysis
Quantitative Trait Loci*
Reverse Transcriptase Polymerase Chain Reaction
Comments/Corrections

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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