ArticleMammalian genome : official journal of the International Mammalian Genome Society2009
Replication and narrowing of gene expression quantitative trait loci using inbred mice.
Article in Mammalian genome : official journal of the International Mammalian Genome Society, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- Population-based dose-response analysis of liver transcriptional response to trichloroethylene in mouse.Mammalian genome : official journal of the International Mammalian Genome Society · 2018Article
- Genetic and epigenetic determinants of inter-individual variability in responses to toxicants.Current opinion in toxicology · 2017Article
- Expression quantitative trait loci infer the regulation of isoflavone accumulation in soybean (Glycine max L. Merr.) seed.BMC genomics · 2014Article
- Variation in Rubisco activase (RCAβ) gene promoters and expression in soybean [Glycine max (L.) Merr].Journal of experimental botany · 2014Article
- Genetic-genomic replication to identify candidate mouse atherosclerosis modifier genes.Journal of the American Heart Association · 2013Article
- An interval of the obesity QTL Nob3.38 within a QTL hotspot on chromosome 1 modulates behavioral phenotypes.PloS one · 2013Article
- Computational tools for discovery and interpretation of expression quantitative trait loci.Pharmacogenomics · 2012Review
- A comparative assessment of mandible shape in a consomic strain panel of the house mouse (Mus musculus)--implications for epistasis and evolvability of quantitative traits.BMC evolutionary biology · 2011Article
- MicroRNA expression in the livers of inbred mice.Mutation research · 2011Article
- Interstrain differences in the liver effects of trichloroethylene in a multistrain panel of inbred mice.Toxicological sciences : an official journal of the Society of Toxicology · 2011Article
- Hippocampal gene expression analysis highlights Ly6a/Sca-1 as candidate gene for previously mapped novelty induced behaviors in mice.PloS one · 2011Article
- Integrative analysis of low- and high-resolution eQTL.PloS one · 2010Article
- Systems genetics, bioinformatics and eQTL mapping.Genetica · 2010Review
- Sex-specific gene expression in the BXD mouse liver.Physiological genomics · 2010Article
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5 authors.
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Abstract
Gene expression quantitative trait locus (eQTL) mapping has become a powerful tool in systems biology. While many authors have made important discoveries using this approach, one persistent challenge in eQTL studies is the selection of loci and genes that should receive further biological investigation. In this study we compared eQTL generated from gene expression profiling in the livers of two panels of mouse strains: 41 BXD recombinant inbred and 36 Mouse Diversity Panel (MDP) strains. Cis-eQTL, loci in which the transcript and its maximum QTL are colocated, have been shown to be more reproducible than trans-eQTL, which are not colocated with the transcript. We observed that between 9.9 and 12.1% of cis-eQTL and between 2.0 and 12.6% of trans-eQTL replicated between the two panels depending on the degree of statistical stringency. Notably, a significant eQTL hotspot on distal chromosome 12 observed in the BXD panel was reproduced in the MDP. Furthermore, the shorter linkage disequilibrium in the MDP strains allowed us to considerably narrow the locus and limit the number of candidate genes to a cluster of Serpin genes, which code for extracellular proteases. We conclude that this strategy has some utility in increasing confidence and resolution in eQTL mapping studies; however, due to the high false-positive rate in the MDP, eQTL mapping in inbred strains is best carried out in combination with an eQTL linkage study.
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