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      Detecting time‐varying genetic effects in Alzheimer's disease using a longitudinal genome‐wide association studies model

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          Abstract

          INTRODUCTION

          The development and progression of Alzheimer's disease (AD) is a complex process, during which genetic influences on phenotypes may also change. Incorporating longitudinal phenotypes in genome‐wide association studies (GWAS) could unmask these genetic loci.

          METHODS

          We conducted a longitudinal GWAS using a varying coefficient test to identify age‐dependent single nucleotide polymorphisms (SNPs) in AD. Data from 1877 Alzheimer's Neuroimaging Data Initiative participants, including impairment status and amyloid positron emission tomography (PET) scan standardized uptake value ratio (SUVR) scores, were analyzed using a retrospective varying coefficient mixed model association test (RVMMAT).

          RESULTS

          RVMMAT identified 244 SNPs with significant time‐varying effects on AD impairment status, with 12 SNPs on chromosome 19 validated using National Alzheimer's Coordinating Center data. Age‐stratified analyses showed these SNPs’ effects peaked between 70 and 80 years. Additionally, 73 SNPs were linked to longitudinal amyloid accumulation changes. Pathway analyses implicated immune and neuroinflammation‐related disruptions.

          DISCUSSION

          Our findings demonstrate that longitudinal GWAS models can uncover time‐varying genetic signals in AD.

          Highlights

          • Identify time‐varying genetic effects using a longitudinal GWAS model in AD.

          • Illustrate age‐dependent genetic effects on both diagnoses and amyloid accumulation.

          • Replicate time‐varying effect of APOE in a second dataset.

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          Most cited references37

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          Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing

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            UK Biobank: An Open Access Resource for Identifying the Causes of a Wide Range of Complex Diseases of Middle and Old Age

            Cathie Sudlow and colleagues describe the UK Biobank, a large population-based prospective study, established to allow investigation of the genetic and non-genetic determinants of the diseases of middle and old age.
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              NIA-AA Research Framework: Toward a biological definition of Alzheimer’s disease

              In 2011, the National Institute on Aging and Alzheimer’s Association created separate diagnostic recommendations for the preclinical, mild cognitive impairment, and dementia stages of Alzheimer’s disease. Scientific progress in the interim led to an initiative by the National Institute on Aging and Alzheimer’s Association to update and unify the 2011 guidelines. This unifying update is labeled a “research framework” because its intended use is for observational and interventional research, not routine clinical care. In the National Institute on Aging and Alzheimer’s Association Research Framework, Alzheimer’s disease (AD) is defined by its underlying pathologic processes that can be documented by postmortem examination or in vivo by biomarkers. The diagnosis is not based on the clinical consequences of the disease (i.e., symptoms/signs) in this research framework, which shifts the definition of AD in living people from a syndromal to a biological construct. The research framework focuses on the diagnosis of AD with biomarkers in living persons. Biomarkers are grouped into those of β amyloid deposition, pathologic tau, and neurodegeneration [AT(N)]. This ATN classification system groups different biomarkers (imaging and biofluids) by the pathologic process each measures. The AT(N) system is flexible in that new biomarkers can be added to the three existing AT(N) groups, and new biomarker groups beyond AT(N) can be added when they become available. We focus on AD as a continuum, and cognitive staging may be accomplished using continuous measures. However, we also outline two different categorical cognitive schemes for staging the severity of cognitive impairment: a scheme using three traditional syndromal categories and a six-stage numeric scheme. It is important to stress that this framework seeks to create a common language with which investigators can generate and test hypotheses about the interactions among different pathologic processes (denoted by biomarkers) and cognitive symptoms. We appreciate the concern that this biomarker-based research framework has the potential to be misused. Therefore, we emphasize, first, it is premature and inappropriate to use this research framework in general medical practice. Second, this research framework should not be used to restrict alternative approaches to hypothesis testing that do not use biomarkers. There will be situations where biomarkers are not available or requiring them would be counterproductive to the specific research goals (discussed in more detail later in the document). Thus, biomarker-based research should not be considered a template for all research into age-related cognitive impairment and dementia; rather, it should be applied when it is fit for the purpose of the specific research goals of a study. Importantly, this framework should be examined in diverse populations. Although it is possible that β-amyloid plaques and neurofibrillary tau deposits are not causal in AD pathogenesis, it is these abnormal protein deposits that define AD as a unique neurodegenerative disease among different disorders that can lead to dementia. We envision that defining AD as a biological construct will enable a more accurate characterization and understanding of the sequence of events that lead to cognitive impairment that is associated with AD, as well as the multifactorial etiology of dementia. This approach also will enable a more precise approach to interventional trials where specific pathways can be targeted in the disease process and in the appropriate people.
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                Author and article information

                Contributors
                edwin.oh@unlv.edu
                Journal
                Alzheimers Dement (Amst)
                Alzheimers Dement (Amst)
                10.1002/(ISSN)2352-8729
                DAD2
                Alzheimer's & Dementia : Diagnosis, Assessment & Disease Monitoring
                John Wiley and Sons Inc. (Hoboken )
                2352-8729
                07 June 2024
                Apr-Jun 2024
                : 16
                : 2 ( doiID: 10.1002/dad2.v16.2 )
                : e12597
                Affiliations
                [ 1 ] Interdisciplinary Neuroscience PhD Program University of Nevada Las Vegas Las Vegas Nevada USA
                [ 2 ] Laboratory of Neurogenetics and Precision Medicine University of Nevada, Las Vegas Las Vegas Nevada USA
                [ 3 ] Lou Ruvo Center for Brain Health Cleveland Clinic Las Vegas Nevada USA
                [ 4 ] Department of Biostatistics Yale School of Public Health New Haven Connecticut USA
                [ 5 ] Department of Mathematical Sciences University of Nevada, Las Vegas Las Vegas Nevada USA
                [ 6 ] Institute of Cognitive Science University of Colorado Boulder Boulder Colorado USA
                [ 7 ] School of Medicine Department of Internal Medicine University of Nevada, Las Vegas Las Vegas Nevada USA
                Author notes
                [*] [* ] Correspondence

                Edwin C. Oh, Interdisciplinary Neuroscience PhD Program, University of Nevada Las Vegas, Las Vegas, NV89154, USA.

                Email: edwin.oh@ 123456unlv.edu

                Author information
                https://orcid.org/0000-0002-6042-1478
                Article
                DAD212597
                10.1002/dad2.12597
                11157162
                38855650
                2bc75147-3025-4c56-b738-d8f88f43f6e2
                © 2024 The Author(s). Alzheimer's & Dementia: Diagnosis, Assessment & Disease Monitoring published by Wiley Periodicals LLC on behalf of Alzheimer's Association.

                This is an open access article under the terms of the http://creativecommons.org/licenses/by-nc/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited and is not used for commercial purposes.

                History
                : 19 March 2024
                : 09 January 2024
                : 17 April 2024
                Page count
                Figures: 4, Tables: 1, Pages: 11, Words: 6543
                Funding
                Funded by: NIH , doi 10.13039/100000002;
                Award ID: R01‐MH109706
                Award ID: P20‐GM103440
                Award ID: R01LM014087
                Award ID: RF1‐AG071566
                Categories
                Research Article
                Research Articles
                Custom metadata
                2.0
                April‐June 2024
                Converter:WILEY_ML3GV2_TO_JATSPMC version:6.4.4 mode:remove_FC converted:07.06.2024

                ad clinical impairment status,amyloid accumulation,longitudinal gwas,rvmmat,time‐varying genetic effects

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