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Polygenic risk score in postmortem diagnosed sporadic early-onset Alzheimer’s disease

Chaudhary, Sultan; Patel, Tulsi; Barber, Imelda S.; Guetta-Baranes, Tamar; Brookes, Keeley; Chappell, Sally; Turton, James; Guerreiro, Rita; Bras, Jose; Hernandez, Dena; Singleton, Andrew; Hardy, John; Mann, David; Morgan, Kevin

Authors

Sultan Chaudhary

Tulsi Patel

Imelda S. Barber

Tamar Guetta-Baranes

Keeley Brookes

Sally Chappell

James Turton

Rita Guerreiro

Jose Bras

Dena Hernandez

Andrew Singleton

John Hardy

David Mann

Kevin Morgan



Abstract

Sporadic early onset Alzheimer’s disease (sEOAD) exhibits the symptoms of late onset Alzheimer’s disease (LOAD) but lacks the familial aspect of the early onset familial form. The genetics of Alzheimer’s disease (AD) identifies APOEε4 to be the greatest risk factor; however, it is a complex disease involving both environmental risk factors and multiple genetic loci. Polygenic risk scores (PRS) accumulate the total risk of a phenotype in an individual based on variants present in their genome. We determined whether sEOAD cases had a higher PRS compared to controls. A cohort of sEOAD cases were genotyped on the NeuroX array and PRS were generated using PRSice. The target dataset consisted of 408 sEOAD cases and 436 controls. The base dataset was collated by the IGAP consortium, with association data from 17,008 LOAD cases and 37,154 controls, which can be used for identifying sEOAD cases due to having shared phenotype. PRS were generated using all common SNPs between the base and target dataset, PRS were also generated using only SNPs within a 500kb region surrounding the APOE gene. Sex and number of APOE ε2 or ε4 alleles were used as variables for logistic regression and combined with PRS. The results show that PRS is higher on average in sEOAD cases than controls, although there is still overlap amongst the whole cohort. Predictive ability of identifying cases and controls using PRSice was calculated with 72.9% accuracy, greater than the APOE locus alone (65.2%). Predictive ability was further improved with logistic regression, identifying cases and controls with 75.5% accuracy.

Citation

Chaudhary, S., Patel, T., Barber, I. S., Guetta-Baranes, T., Brookes, K., Chappell, S., …Morgan, K. (2018). Polygenic risk score in postmortem diagnosed sporadic early-onset Alzheimer’s disease. Neurobiology of Aging, 62, Article 244. https://doi.org/10.1016/j.neurobiolaging.2017.09.035

Journal Article Type Article
Acceptance Date Sep 29, 2017
Online Publication Date Oct 10, 2017
Publication Date Feb 28, 2018
Deposit Date Oct 3, 2017
Publicly Available Date Mar 28, 2024
Journal Neurobiology of Aging
Print ISSN 0197-4580
Electronic ISSN 1558-1497
Publisher Elsevier
Peer Reviewed Peer Reviewed
Volume 62
Article Number 244
DOI https://doi.org/10.1016/j.neurobiolaging.2017.09.035
Keywords Polygenic risk score (PRS); Sporadic early-onset Alzheimer's disease (sEOAD); Genotyping; NeuroX; NeuroChip
Public URL https://nottingham-repository.worktribe.com/output/916893
Publisher URL http://www.sciencedirect.com/science/article/pii/S0197458017303408?via%3Dihub

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