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Meta-Analysis
. 2016 Aug;48(8):856-66.
doi: 10.1038/ng.3598. Epub 2016 Jun 20.

Meta-analysis of 375,000 individuals identifies 38 susceptibility loci for migraine

Padhraig Gormley  1   2   3   4 Verneri Anttila  2   3   5 Bendik S Winsvold  6   7   8 Priit Palta  9 Tonu Esko  2   10   11 Tune H Pers  2   11   12   13 Kai-How Farh  2   5   14 Ester Cuenca-Leon  1   2   3   15 Mikko Muona  9   16   17   18 Nicholas A Furlotte  19 Tobias Kurth  20   21 Andres Ingason  22 George McMahon  23 Lannie Ligthart  24 Gisela M Terwindt  25 Mikko Kallela  26 Tobias M Freilinger  27   28 Caroline Ran  29 Scott G Gordon  30 Anine H Stam  25 Stacy Steinberg  22 Guntram Borck  31 Markku Koiranen  32 Lydia Quaye  33 Hieab H H Adams  34   35 Terho Lehtimäki  36 Antti-Pekka Sarin  9 Juho Wedenoja  37 David A Hinds  19 Julie E Buring  21   38 Markus Schürks  39 Paul M Ridker  21   38 Maria Gudlaug Hrafnsdottir  40 Hreinn Stefansson  22 Susan M Ring  23 Jouke-Jan Hottenga  24 Brenda W J H Penninx  41 Markus Färkkilä  26 Ville Artto  26 Mari Kaunisto  9 Salli Vepsäläinen  26 Rainer Malik  28 Andrew C Heath  42 Pamela A F Madden  42 Nicholas G Martin  30 Grant W Montgomery  30 Mitja I Kurki  1   2   3   9   43 Mart Kals  10 Reedik Mägi  10 Kalle Pärn  10 Eija Hämäläinen  9 Hailiang Huang  2   3   5 Andrea E Byrnes  2   3   5 Lude Franke  44 Jie Huang  4 Evie Stergiakouli  23 Phil H Lee  1   2   3 Cynthia Sandor  45 Caleb Webber  45 Zameel Cader  46   47 Bertram Muller-Myhsok  48   49   50 Stefan Schreiber  51 Thomas Meitinger  52   53 Johan G Eriksson  54   55 Veikko Salomaa  55 Kauko Heikkilä  56 Elizabeth Loehrer  34   57 Andre G Uitterlinden  58 Albert Hofman  34 Cornelia M van Duijn  34 Lynn Cherkas  33 Linda M Pedersen  6 Audun Stubhaug  59   60 Christopher S Nielsen  59   61 Minna Männikkö  32 Evelin Mihailov  10 Lili Milani  10 Hartmut Göbel  62 Ann-Louise Esserlind  63 Anne Francke Christensen  63 Thomas Folkmann Hansen  64 Thomas Werge  65   66   67 International Headache Genetics ConsortiumJaakko Kaprio  9   37   68 Arpo J Aromaa  55 Olli Raitakari  69   70 M Arfan Ikram  34   35   71 Tim Spector  33 Marjo-Riitta Järvelin  32   72   73   74 Andres Metspalu  10 Christian Kubisch  75 David P Strachan  76 Michel D Ferrari  25 Andrea C Belin  29 Martin Dichgans  28   49 Maija Wessman  9   16 Arn M J M van den Maagdenberg  25   77 John-Anker Zwart  6   7   8 Dorret I Boomsma  24 George Davey Smith  23 Kari Stefansson  22   78 Nicholas Eriksson  19 Mark J Daly  2   3   5 Benjamin M Neale  2   3   5 Jes Olesen  63 Daniel I Chasman  21   38 Dale R Nyholt  79 Aarno Palotie  1   2   3   4   5   9   80
Collaborators, Affiliations
Meta-Analysis

Meta-analysis of 375,000 individuals identifies 38 susceptibility loci for migraine

Padhraig Gormley et al. Nat Genet. 2016 Aug.

Erratum in

  • Corrigendum: Meta-analysis of 375,000 individuals identifies 38 susceptibility loci for migraine.
    Gormley P, Anttila V, Winsvold BS, Palta P, Esko T, Pers TH, Farh KH, Cuenca-Leon E, Muona M, Furlotte NA, Kurth T, Ingason A, McMahon G, Ligthart L, Terwindt GM, Kallela M, Freilinger TM, Ran C, Gordon SG, Stam AH, Steinberg S, Borck G, Koiranen M, Quaye L, Adams HH, Lehtimäki T, Sarin AP, Wedenoja J, Hinds DA, Buring JE, Schürks M, Ridker PM, Hrafnsdottir MG, Stefansson H, Ring SM, Hottenga JJ, Penninx BW, Färkkilä M, Artto V, Kaunisto M, Vepsäläinen S, Malik R, Heath AC, Madden PA, Martin NG, Montgomery GW, Kurki MI, Kals M, Mägi R, Pärn K, Hämäläinen E, Huang H, Byrnes AE, Franke L, Huang J, Stergiakouli E, Lee PH, Sandor C, Webber C, Cader Z, Muller-Myhsok B, Schreiber S, Meitinger T, Eriksson JG, Salomaa V, Heikkilä K, Loehrer E, Uitterlinden AG, Hofman A, van Duijn CM, Cherkas L, Pedersen LM, Stubhaug A, Nielsen CS, Männikkö M, Mihailov E, Milani L, Göbel H, Esserlind AL, Christensen AF, Hansen TF, Werge T; International Headache Genetics Consortium; Kaprio J, Aromaa AJ, Raitakari O, Ikram MA, Spector T, Järvelin MR, Metspalu A, Kubisch C, Strachan DP, Ferrari MD, Belin AC, Dichgans M, Wessman M, van den Maagdenberg AM, Zwart JA, Boomsma DI, Smith GD, Stefansson K, Eriksson… See abstract for full author list ➔ Gormley P, et al. Nat Genet. 2016 Sep 28;48(10):1296. doi: 10.1038/ng1016-1296c. Nat Genet. 2016. PMID: 27681292 No abstract available.

Abstract

Migraine is a debilitating neurological disorder affecting around one in seven people worldwide, but its molecular mechanisms remain poorly understood. There is some debate about whether migraine is a disease of vascular dysfunction or a result of neuronal dysfunction with secondary vascular changes. Genome-wide association (GWA) studies have thus far identified 13 independent loci associated with migraine. To identify new susceptibility loci, we carried out a genetic study of migraine on 59,674 affected subjects and 316,078 controls from 22 GWA studies. We identified 44 independent single-nucleotide polymorphisms (SNPs) significantly associated with migraine risk (P < 5 × 10(-8)) that mapped to 38 distinct genomic loci, including 28 loci not previously reported and a locus that to our knowledge is the first to be identified on chromosome X. In subsequent computational analyses, the identified loci showed enrichment for genes expressed in vascular and smooth muscle tissues, consistent with a predominant theory of migraine that highlights vascular etiologies.

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Figures

Figure 1
Figure 1
Manhattan plot of the primary meta-analysis of all migraine (59,674 cases vs. 316,078 controls). Each marker was tested for association using an additive genetic model by logistic regression adjusted for sex. A fixed-effects meta-analysis was then used to combine the association statistics from all 22 clinic and population-based studies. The horizontal axis shows the chromosomal position and the vertical axis shows the significance of tested markers from logistic regression. Markers that reach genome-wide significance (P < 5 × 10−8) at previously known and newly identified loci are highlighted according to the color legend.
Figure 2
Figure 2
Gene expression enrichment of genes from the migraine loci in GTEx tissues. Expression data from 1,641 samples was obtained using RNAseq for 42 tissues and three cell lines from the GTEx consortium. Enrichment P-values were assessed empirically for each tissue using a permutation procedure (100,000 replicates) and the red vertical line shows the significance threshold after adjusting for multiple testing by Bonferroni correction (see Online Methods).
Figure 3
Figure 3
Gene expression enrichment of genes from the migraine loci in 209 tissue/cell type annotations by DEPICT. Expression data was obtained from 37,427 human microarray samples and then genes in the migraine loci were assessed for high expression in each of the annotation categories. Enrichment P-values were determined by comparing the expression pattern from the migraine loci to 500 randomly generated loci and the false discovery rate (horizontal dashed line) was estimated to control for multiple testing (see Online Methods). A full list of these enrichment results are provided in Supplementary Table 20.
Figure 4
Figure 4
Enrichment of the migraine loci in sets of tissue-specific enhancers. We mapped credible sets from the migraine loci to sets of enhancers under active expression in 56 tissues and cell lines (identified by H3K27ac histone marks from the Roadmap Epigenomics and ENCODE projects). Enrichment P-values were assessed empirically by randomly generating a background set of matched loci for comparison (10,000 replicates) and the vertical dotted line is the significance threshold after adjusting for 56 separate tests by Bonferroni correction (see Online Methods).
Figure 5
Figure 5
DEPICT network of the reconstituted gene sets that were significantly enriched (false discovery rate < 0.05) for genes at the migraine loci (Online Methods). Enriched gene sets are represented as nodes with pairwise overlap denoted by the width of the connecting lines and empirical enrichment P-value is indicated by color intensity (darker is more significant). The 67 significantly enriched gene sets were clustered by similarity into 10 group nodes as shown in (a) where each group node is named after the most representative gene set in the group. (b) Shows one example of gene sets that were clustered within the now expanded ITGB1 PPI group. A full list of the 67 significantly enriched reconstituted gene sets can be found in Supplementary Table 23.

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