All SNPs are not created equal: Genome-wide association studies reveal a consistent pattern of enrichment among functionally annotated SNPs

Recent results indicate that genome-wide association studies (GWAS) have the potential to explain much of the heritability of common complex phenotypes, but methods are lacking to reliably identify the remaining associated single nucleotide polymorphisms (SNPs). We applied stratified False Discovery Rate (sFDR) methods to leverage genic enrichment in GWAS summary statistics data to uncover new loci likely to replicate in independent samples. Specifically, we use linkage disequilibrium-weighted annotations for each SNP in combination with nominal p-values to estimate the True Discovery Rate (TD... Mehr ...

Verfasser: Schork, A.J.
Thompson, W.K.
Pham, P.
Torkamani, A.
Roddey, J.C.
Sullivan, P.F.
Kelsoe, J.
O'Donovan, M.C.
Furberg, H.
Absher, D.
Agudo, A.
Almgren, P.
Ardissino, D.
Assimes, T.L.
Bandinelli, S.
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Bencko, V.
Benhamou, S.
Benjamin, E.J.
Bernardinelli, L.
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Boehnke, M.
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Boomsma, D.I.
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Castellsagué, X.
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Knowles, J.W.
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Ladenvall, C.
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Lerman, C.
Levinson, D.F.
Levy, D.
Li, M.D.
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Lips, E.H.
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Lowry, R.B.
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Macfarlane, T.V.
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Mannucci, P.M.
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McGovern, J.A.
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McKnight, B.
Melander, O.
Merlini, P.A.
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Penninx, B.W.J.H.
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Wiersma, D.
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Williams, H.J.
Williams, N.M.
van Winkel, R.
Wormley, B.
Zammit, S.
Schork, N.J.
Andreassen, O.A.
Dale, A.M.
Dokumenttyp: Artikel
Erscheinungsdatum: 2013
Reihe/Periodikum: Schork , A J , Thompson , W K , Pham , P , Torkamani , A , Roddey , J C , Sullivan , P F , Kelsoe , J , O'Donovan , M C , Furberg , H , Absher , D , Agudo , A , Almgren , P , Ardissino , D , Assimes , T L , Bandinelli , S , Barzan , L , Bencko , V , Benhamou , S , Benjamin , E J , Bernardinelli , L , Bis , J , Boehnke , M , Boerwinkle , E , Boomsma , D I , Brennan , P , Canova , C , Castellsagué , X , Chanock , S , Chasman , D I , Conway , D I , Dackor , J , de Geus , E J C , Duan , J , Elosua , R , Everett , B , Fabianova , E , Ferrucci , L , Foretova , L , Fortmann , S P , Franceschini , N , Frayling , T M , Furberg , C , Gejman , P V , Groop , L , Gu , F , Guralnik , J , Hankinson , S E , Haritunians , T , Healy , C , Hofman , A , Holcátová , I , Hunter , D J , Hwang , S J , Ioannidis , J P A , Iribarren , C , Jackson , A U , Janout , V , Kaprio , J , Kim , Y , Kjaerheim , K , Knowles , J W , Kraft , P , Ladenvall , C , Lagiou , P , Lanthrop , M , Lerman , C , 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D , Bloss , C S , Breen , G , Breuer , R , Bunner , W E , Burmeister , M , Byerley , W F , Caesar , S , Chambert , K , Cichon , S , St Clair , D , Collier , D A , Corvin , A , Coryell , W H , Craddock , N , Craig , D W , Daly , M , Day , R , Degenhardt , F , Djurovic , S , Dudbridge , F , Edenberg , H J , Elkin , A , Etain , B , Farmer , A E , Ferreira , M A , Ferrier , I , Flickinger , M , Foroud , T , Frank , J , Fraser , C , Frisén , L , Gershon , E S , Gill , M , Gordon-Smith , K , Green , E K , Greenwood , T A , Grozeva , D , Guan , W , Gurling , H , Gustafsson , O , Hamshere , M L , Hautzinger , M , Herms , S , Hipolito , M , Holmans , P A , Hultman , C M , Jamain , S , Jones , E G , Jones , I , Jones , L , Kandaswamy , R , Kennedy , J L , Kirov , G K , Koller , D L , Kwan , P , Landén , M , Langstrom , N , Lathrop , M , Lawrence , J , Lawson , W B , Leboyer , M , Lee , P H , Li , J , Lichtenstein , P , Lin , D , Liu , C , Lohoff , F W , Lucae , S , Mahon , P B , Maier , W , 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, G , Kenny , E , Konnerth , H , Konte , B , Krabbendam , L , Krasucki , R , Lasseter , V K , Laurent , C , Lencz , T , Lerer , F B , Liang , K Y , Lieberman , J A , Linszen , D H , Lönnqvist , J , Loughland , C M , Maclean , A W , Maher , B S , Malhotra , A K , Mallet , J , Malloy , P , McGrath , J J , McLean , D E , Michie , P T , Milanova , V , Mors , O , Mortensen , P B , Mowry , B J , Myin-Germeys , I , Neale , B , Nertney , D A , Nestadt , G , Nielsen , J , Nordentoft , M , Norton , N , O'Neill , F , Olincy , A , Olsen , L , Ophoff , R A , Orntoft , T F , van Os , J , Pantelis , C , Papadimitriou , G , Pato , C N , Peltonen , L , Pickard , B , Pietilainen , O P , Pimm , J , Pulver , A E , Puri , V , Quested , D , Rasmussen , H B , Rethelyi , J M , Ribble , R , Riley , B P , Rossin , L , Ruggeri , M , Rujescu , D , Schall , U , Schwab , S G , Scott , R J , Silverman , J M , Spencer , C C , Strange , A , Strengman , E , Stroup , T S , Suvisaari , J , Terenius , L , Thirumalai , S , Timm , S , Toncheva , D , Tosato , S , van den Oord , E J , Veldink , J , Visscher , P M , Walsh , D , Wang , A G , Werge , T , Wiersma , D , Wildenauer , D B , Williams , H J , Williams , N M , van Winkel , R , Wormley , B , Zammit , S , Schork , N J , Andreassen , O A & Dale , A M 2013 , ' All SNPs are not created equal: Genome-wide association studies reveal a consistent pattern of enrichment among functionally annotated SNPs ' , PLoS Genetics , vol. 9 , no. 4 , e1003449 , pp. e1003449 . https://doi.org/10.1371/journal.pgen.1003449
Schlagwörter: /dk/atira/pure/keywords/cohort_studies/netherlands_twin_register_ntr_ / name=Netherlands Twin Register (NTR)
Sprache: Englisch
Permalink: https://search.fid-benelux.de/Record/base-28800962
Datenquelle: BASE; Originalkatalog
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Link(s) : https://research.vu.nl/en/publications/80830895-fc61-4d43-97bd-3e77bcdae649