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 Epilepsy (generalized). The EFO term epilepsy 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: epilepsy

SCORE TYPE:

P-Value

THRESHOLD:

<= 0.05

GENES IN THRESHOLD:

17

DATE ADDED:

2017-05-02

DATE UPDATED:

2024-10-22

SPECIES:

AUTHORS:

M Steffens, C Leu, AK Ruppert, F Zara, P Striano, A Robbiano, G Capovilla, P Tinuper, A Gambardella, A Bianchi, A La Neve, G Crichiutti, CG de Kovel, D Kasteleijn-Nolst Trenité, GJ de Haan, D Lindhout, V Gaus, B Schmitz, D Janz, YG Weber, F Becker, H Lerche, BJ Steinhoff, AA Kleefuß-Lie, WS Kunz, R Surges, CE Elger, H Muhle, S von Spiczak, P Ostertag, I Helbig, U Stephani, RS Møller, H Hjalgrim, LM Dibbens, S Bellows, K Oliver, S Mullen, IE Scheffer, SF Berkovic, KV Everett, MR Gardiner, C Marini, R Guerrini, AE Lehesjoki, A Siren, M Guipponi, A Malafosse, P Thomas, R Nabbout, S Baulac, E Leguern, R Guerrero, JM Serratosa, PS Reif, F Rosenow, M Mörzinger, M Feucht, F Zimprich, C Kapser, CJ Schankin, A Suls, K Smets, P De Jonghe, A Jordanova, H Caglayan, Z Yapici, DA Yalcin, B Baykan, N Bebek, U Ozbek, C Gieger, HE Wichmann, T Balschun, D Ellinghaus, A Franke, C Meesters, T Becker, TF Wienker, A Hempelmann, H Schulz, F Rüschendorf, M Leber, SM Pauck, H Trucks, MR Toliat, P Nürnberg, G Avanzini, BP Koeleman, T Sander

TITLE:

Genome-wide association analysis of genetic generalized epilepsies implicates susceptibility loci at 1q43, 2p16.1, 2q22.3 and 17q21.32.

JOURNAL:

Human molecular genetics Dec 2012, Vol 21, pp. 5359-72

ABSTRACT:

Genetic generalized epilepsies (GGEs) have a lifetime prevalence of 0.3% and account for 20-30% of all epilepsies. Despite their high heritability of 80%, the genetic factors predisposing to GGEs remain elusive. To identify susceptibility variants shared across common GGE syndromes, we carried out a two-stage genome-wide association study (GWAS) including 3020 patients with GGEs and 3954 controls of European ancestry. To dissect out syndrome-related variants, we also explored two distinct GGE subgroups comprising 1434 patients with genetic absence epilepsies (GAEs) and 1134 patients with juvenile myoclonic epilepsy (JME). Joint Stage-1 and 2 analyses revealed genome-wide significant associations for GGEs at 2p16.1 (rs13026414, P(meta) = 2.5 × 10(-9), OR[T] = 0.81) and 17q21.32 (rs72823592, P(meta) = 9.3 × 10(-9), OR[A] = 0.77). The search for syndrome-related susceptibility alleles identified significant associations for GAEs at 2q22.3 (rs10496964, P(meta) = 9.1 × 10(-9), OR[T] = 0.68) and at 1q43 for JME (rs12059546, P(meta) = 4.1 × 10(-8), OR[G] = 1.42). Suggestive evidence for an association with GGEs was found in the region 2q24.3 (rs11890028, P(meta) = 4.0 × 10(-6)) nearby the SCN1A gene, which is currently the gene with the largest number of known epilepsy-related mutations. The associated regions harbor high-ranking candidate genes: CHRM3 at 1q43, VRK2 at 2p16.1, ZEB2 at 2q22.3, SCN1A at 2q24.3 and PNPO at 17q21.32. Further replication efforts are necessary to elucidate whether these positional candidate genes contribute to the heritability of the common GGE syndromes. PUBMED: 22949513
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