Gene-based analysis in HRC imputed genome wide association data identifies three novel genes for Alzheimer’s disease

Baker, Emily, Sims, Rebecca ORCID: https://orcid.org/0000-0002-3885-1199, Leonenko, Ganna ORCID: https://orcid.org/0000-0001-8025-661X, Frizzati, Aura ORCID: https://orcid.org/0000-0002-7002-6180, Harwood, Janet, Grozeva, Detelina ORCID: https://orcid.org/0000-0003-3239-8415, Morgan, Kevin ORCID: https://orcid.org/0000-0003-4075-7676, Passmore, Peter, Holmes, Clives, Powell, John, Brayne, Carol, Gill, Michael, Mead, Simon, Bossu, Paola, Spalletta, Gianfranco, Goate, Alison, Crunchaga, Carlos, Maier, Wolfgang, Heun, Reinhard, Jessen, Frank, Peters, Oliver, Dichgans, Martin, Frolich, Lutz, Ramirez, Alfredo, Jones, Lesley ORCID: https://orcid.org/0000-0002-3007-4612, Hardy, John, Ivanov, Dobril ORCID: https://orcid.org/0000-0001-6271-6301, Hill, Matthew ORCID: https://orcid.org/0000-0001-6776-8709, Holmans, Peter ORCID: https://orcid.org/0000-0003-0870-9412, Allen, Nicholas ORCID: https://orcid.org/0000-0003-4009-186X, Morgan, Paul ORCID: https://orcid.org/0000-0003-4075-7676, Seshadri, Sudha, Schellenberg, Gerard, Amouvel, Philippe, Williams, Julie ORCID: https://orcid.org/0000-0002-4069-0259 and Escott-Price, Valentina ORCID: https://orcid.org/0000-0003-1784-5483 2019. Gene-based analysis in HRC imputed genome wide association data identifies three novel genes for Alzheimer’s disease. PLoS ONE 14 (7) , e0218111. 10.1371/journal.pone.0218111

Preview

PDF - Published Version Available under License Creative Commons Attribution. Download (905kB) | Preview

Abstract

Late onset Alzheimer’s disease is the most common form of dementia for which about 30 susceptibility loci have been reported. The aim of the current study is to identify novel genes associated with Alzheimer’s disease using the largest up-to-date reference single nucleotide polymorphism (SNP) panel, the most accurate imputation software and a novel gene-based analysis approach which tests for patterns of association within genes, in the powerful genome-wide association dataset of the International Genomics of Alzheimer’s Project Consortium, comprising over 7 million genotypes from 17,008 Alzheimer’s cases and 37,154 controls. In addition to earlier reported genes, we detected three novel gene-wide significant loci PPARGC1A (p = 2.2 × 10−6), RORA (p = 7.4 × 10−7) and ZNF423 (p = 2.1 × 10−6). PPARGC1A and RORA are involved in circadian rhythm; circadian disturbances are one of the earliest symptoms of Alzheimer’s disease. PPARGC1A is additionally linked to energy metabolism and the generation of amyloid beta plaques. RORA is involved in a variety of functions apart from circadian rhythm, such as cholesterol metabolism and inflammation. The ZNF423 gene resides in an Alzheimer’s disease-specific protein network and is likely involved with centrosomes and DNA damage repair.

Item Type:	Article
Date Type:	Publication
Status:	Published
Schools:	Advanced Research Computing @ Cardiff (ARCCA) Biosciences Medicine MRC Centre for Neuropsychiatric Genetics and Genomics (CNGG)
Additional Information:	GERAD/PERADES ,CHARGE ,ADGC ,EADI ,IGAP consortia
Publisher:	Public Library of Science
ISSN:	1932-6203
Funders:	MRC
Date of First Compliant Deposit:	19 June 2019
Date of Acceptance:	27 May 2019
Last Modified:	05 Jan 2024 04:39
URI:	https://orca.cardiff.ac.uk/id/eprint/123540

Citation Data

Cited 15 times in Scopus. View in Scopus. Powered By Scopus® Data

Actions (repository staff only)

Edit Item