Characterisation of genome-wide association epistasis signals for serum uric acid in human population isolates.

Genome-wide association (GWA) studies have identified a number of loci underlying variation in human serum uric acid (SUA) levels with the SLC2A9 gene having the largest effect identified so far. Gene-gene interactions (epistasis) are largely unexplored in these GWA studies. We performed a full pair...

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Autores principales: Wenhua Wei, Gibran Hemani, Andrew A Hicks, Veronique Vitart, Claudia Cabrera-Cardenas, Pau Navarro, Jennifer Huffman, Caroline Hayward, Sara A Knott, Igor Rudan, Peter P Pramstaller, Sarah H Wild, James F Wilson, Harry Campbell, Malcolm G Dunlop, Nicholas Hastie, Alan F Wright, Chris S Haley
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Publicado: Public Library of Science (PLoS) 2011
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spelling oai:doaj.org-article:4e6e1ec452014e6e9ec7fbcbfd1c12a92021-11-18T06:47:35ZCharacterisation of genome-wide association epistasis signals for serum uric acid in human population isolates.1932-620310.1371/journal.pone.0023836https://doaj.org/article/4e6e1ec452014e6e9ec7fbcbfd1c12a92011-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/21886828/?tool=EBIhttps://doaj.org/toc/1932-6203Genome-wide association (GWA) studies have identified a number of loci underlying variation in human serum uric acid (SUA) levels with the SLC2A9 gene having the largest effect identified so far. Gene-gene interactions (epistasis) are largely unexplored in these GWA studies. We performed a full pair-wise genome scan in the Italian MICROS population (n = 1201) to characterise epistasis signals in SUA levels. In the resultant epistasis profile, no SNP pairs reached the Bonferroni adjusted threshold for the pair-wise genome-wide significance. However, SLC2A9 was found interacting with multiple loci across the genome, with NFIA-SLC2A9 and SLC2A9-ESRRAP2 being significant based on a threshold derived for interactions between GWA significant SNPs and the genome and jointly explaining 8.0% of the phenotypic variance in SUA levels (3.4% by interaction components). Epistasis signal replication in a CROATIAN population (n = 1772) was limited at the SNP level but improved dramatically at the gene ontology level. In addition, gene ontology terms enriched by the epistasis signals in each population support links between SUA levels and neurological disorders. We conclude that GWA epistasis analysis is useful despite relatively low power in small isolated populations.Wenhua WeiGibran HemaniAndrew A HicksVeronique VitartClaudia Cabrera-CardenasPau NavarroJennifer HuffmanCaroline HaywardSara A KnottIgor RudanPeter P PramstallerSarah H WildJames F WilsonHarry CampbellMalcolm G DunlopNicholas HastieAlan F WrightChris S HaleyPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 6, Iss 8, p e23836 (2011)
institution DOAJ
collection DOAJ
language EN
topic Medicine
R
Science
Q
spellingShingle Medicine
R
Science
Q
Wenhua Wei
Gibran Hemani
Andrew A Hicks
Veronique Vitart
Claudia Cabrera-Cardenas
Pau Navarro
Jennifer Huffman
Caroline Hayward
Sara A Knott
Igor Rudan
Peter P Pramstaller
Sarah H Wild
James F Wilson
Harry Campbell
Malcolm G Dunlop
Nicholas Hastie
Alan F Wright
Chris S Haley
Characterisation of genome-wide association epistasis signals for serum uric acid in human population isolates.
description Genome-wide association (GWA) studies have identified a number of loci underlying variation in human serum uric acid (SUA) levels with the SLC2A9 gene having the largest effect identified so far. Gene-gene interactions (epistasis) are largely unexplored in these GWA studies. We performed a full pair-wise genome scan in the Italian MICROS population (n = 1201) to characterise epistasis signals in SUA levels. In the resultant epistasis profile, no SNP pairs reached the Bonferroni adjusted threshold for the pair-wise genome-wide significance. However, SLC2A9 was found interacting with multiple loci across the genome, with NFIA-SLC2A9 and SLC2A9-ESRRAP2 being significant based on a threshold derived for interactions between GWA significant SNPs and the genome and jointly explaining 8.0% of the phenotypic variance in SUA levels (3.4% by interaction components). Epistasis signal replication in a CROATIAN population (n = 1772) was limited at the SNP level but improved dramatically at the gene ontology level. In addition, gene ontology terms enriched by the epistasis signals in each population support links between SUA levels and neurological disorders. We conclude that GWA epistasis analysis is useful despite relatively low power in small isolated populations.
format article
author Wenhua Wei
Gibran Hemani
Andrew A Hicks
Veronique Vitart
Claudia Cabrera-Cardenas
Pau Navarro
Jennifer Huffman
Caroline Hayward
Sara A Knott
Igor Rudan
Peter P Pramstaller
Sarah H Wild
James F Wilson
Harry Campbell
Malcolm G Dunlop
Nicholas Hastie
Alan F Wright
Chris S Haley
author_facet Wenhua Wei
Gibran Hemani
Andrew A Hicks
Veronique Vitart
Claudia Cabrera-Cardenas
Pau Navarro
Jennifer Huffman
Caroline Hayward
Sara A Knott
Igor Rudan
Peter P Pramstaller
Sarah H Wild
James F Wilson
Harry Campbell
Malcolm G Dunlop
Nicholas Hastie
Alan F Wright
Chris S Haley
author_sort Wenhua Wei
title Characterisation of genome-wide association epistasis signals for serum uric acid in human population isolates.
title_short Characterisation of genome-wide association epistasis signals for serum uric acid in human population isolates.
title_full Characterisation of genome-wide association epistasis signals for serum uric acid in human population isolates.
title_fullStr Characterisation of genome-wide association epistasis signals for serum uric acid in human population isolates.
title_full_unstemmed Characterisation of genome-wide association epistasis signals for serum uric acid in human population isolates.
title_sort characterisation of genome-wide association epistasis signals for serum uric acid in human population isolates.
publisher Public Library of Science (PLoS)
publishDate 2011
url https://doaj.org/article/4e6e1ec452014e6e9ec7fbcbfd1c12a9
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