DESCRIPTION:

List of positional candidate genes after correcting for multiple testing and controlling the false discovery rate from genome wide association studies (GWAS) retrieved from the NHGRI-EBI Catalog of published genome-wide association studies (http://www.ebi.ac.uk/gwas/). The disease/trait examined in this study, as reported by the authors, was Sphingolipid levels. The EFO term sphingolipid measurement was annotated to this set after curation by NHGRI-EBI. Intergenic SNPS were mapped to both the upstream and downstream gene. P-value uploaded. This gene set was generated using gwas2gs v. 0.1.8 and the GWAS Catalog v. 1.0.1.

LABEL:

GWAS: sphingolipid measurement

SCORE TYPE:

P-Value

DATE ADDED:

2017-05-02

DATE UPDATED:

2024-04-25

SPECIES:

AUTHORS:

AA Hicks, PP Pramstaller, A Johansson, V Vitart, I Rudan, P Ugocsai, Y Aulchenko, CS Franklin, G Liebisch, J Erdmann, I Jonasson, IV Zorkoltseva, C Pattaro, C Hayward, A Isaacs, C Hengstenberg, S Campbell, C Gnewuch, AC Janssens, AV Kirichenko, IR König, F Marroni, O Polasek, A Demirkan, I Kolcic, C Schwienbacher, W Igl, Z Biloglav, JC Witteman, I Pichler, G Zaboli, TI Axenovich, A Peters, S Schreiber, HE Wichmann, H Schunkert, N Hastie, BA Oostra, SH Wild, T Meitinger, U Gyllensten, CM van Duijn, JF Wilson, A Wright, G Schmitz, H Campbell

TITLE:

Genetic determinants of circulating sphingolipid concentrations in European populations.

JOURNAL:

PLoS genetics Oct 2009, Vol 5, pp. e1000672

ABSTRACT:

Sphingolipids have essential roles as structural components of cell membranes and in cell signalling, and disruption of their metabolism causes several diseases, with diverse neurological, psychiatric, and metabolic consequences. Increasingly, variants within a few of the genes that encode enzymes involved in sphingolipid metabolism are being associated with complex disease phenotypes. Direct experimental evidence supports a role of specific sphingolipid species in several common complex chronic disease processes including atherosclerotic plaque formation, myocardial infarction (MI), cardiomyopathy, pancreatic beta-cell failure, insulin resistance, and type 2 diabetes mellitus. Therefore, sphingolipids represent novel and important intermediate phenotypes for genetic analysis, yet little is known about the major genetic variants that influence their circulating levels in the general population. We performed a genome-wide association study (GWAS) between 318,237 single-nucleotide polymorphisms (SNPs) and levels of circulating sphingomyelin (SM), dihydrosphingomyelin (Dih-SM), ceramide (Cer), and glucosylceramide (GluCer) single lipid species (33 traits); and 43 matched metabolite ratios measured in 4,400 subjects from five diverse European populations. Associated variants (32) in five genomic regions were identified with genome-wide significant corrected p-values ranging down to 9.08x10(-66). The strongest associations were observed in or near 7 genes functionally involved in ceramide biosynthesis and trafficking: SPTLC3, LASS4, SGPP1, ATP10D, and FADS1-3. Variants in 3 loci (ATP10D, FADS3, and SPTLC3) associate with MI in a series of three German MI studies. An additional 70 variants across 23 candidate genes involved in sphingolipid-metabolizing pathways also demonstrate association (p = 10(-4) or less). Circulating concentrations of several key components in sphingolipid metabolism are thus under strong genetic control, and variants in these loci can be tested for a role in the development of common cardiovascular, metabolic, neurological, and psychiatric diseases. PUBMED: 19798445
Find other GeneSets from this publication