Overview
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Within the application, add this dataset (accession NG00175) in the “Choose a Dataset” section.
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The p-value only files are available in the “Open Access Dataset” tab.
Description
This dataset includes summary statistics for a genome-wide association study meta-analysis of eleven neuropathology endophenotypes. Included neuropathology endophenotypes are neuritic plaques, tau neurofibrillary tangles, cerebral amyloid angiography, amyloid-beta plaques, TDP-43 deposits, Lewy body deposits, cerebral atherosclerosis, cerebral arteriolosclerosis, gross infarcts, microinfarcts, and hippocampal sclerosis. The individual studies used in this project were National Alzheimer’s Coordinating Center (NACC), Religious Orders Study (ROS) and Rush Memory and Aging Project (MAP), and Adult Changes in Thought (ACT; n =7,804 total autopsied participants across all four studies). Each study was analyzed individually (ROS and MAP were analyzed together) with meta-analysis being subsequently performed.
Available Filesets
| Name | Accession | Latest Release | Description |
|---|---|---|---|
| Neuropathology Endophenotypes GWAS; Full Summary Statistics (application needed) | fsa000145 | NG00175.v1 | Full Summary Statistics |
| Neuropathology Endophenotypes GWAS; P-Value Only (open access) | fsa000146 | NG00175.v1 | P-value Only |
View the File Manifest for a full list of files released in this dataset.
Related Studies
- Genome-wide association studies (GWAS) have identified >80 Alzheimer’s disease and related dementias (ADRD)-associated loci. However, the clinical outcomes used in most prior studies belie the complex nature of underlying neuropathologies.…
Consent Levels
| Consent | Number of Subjects |
|---|---|
| DS-ADRD-IRB-PUB-NPU | NA |
Visit the Data Use Limitations page for definitions of the consent levels above.
Acknowledgement
Acknowledgment statement for any data distributed by NIAGADS:
Data for this study were prepared, archived, and distributed by the National Institute on Aging Alzheimer’s Disease Data Storage Site (NIAGADS) at the University of Pennsylvania (U24-AG041689), funded by the National Institute on Aging.
Use the study-specific acknowledgement statements below (as applicable):
For investigators using any data from this dataset:
Please cite/reference the use of NIAGADS data by including the accession NG00175.
For investigators using GWAS of multiple neuropathology endophenotypes identifies new dementia risk loci (sa000072) data:
The authors disclosed receipt of the following financial support for the research, authorship and/or publication of this article: RF1AG082339 (to Yuriko Katsumata, Steven A Claas, Mark TW Ebbert, Peter T Nelson, and David W Fardo), R56AG057191 (to Yuriko Katsumata, Steven A Claas, and David W Fardo), F30NS124136 (to Lincoln MP Shade), P30 AG028383 (to Peter T Nelson), R35GM138636 (to Bernardo Aguzzoli Heberle, J Antony Brandon, Madeline L Page, and Mark TW Ebbert), R01AG068331 (to Bernardo Aguzzoli Heberle, J Antony Brandon, Madeline L Page, and Mark TW Ebbert), U01AG058654 (to Jonathan L Haines), P01AG078116 (to Yuriko Katsumata and Khine Zin Aung), R01AG082730 (to David W Fardo), R01LM012535 (to Kwangsik Nho), U19AG024904 (to Andrew J Saykin), U01AG068057 (to Andrew J Saykin), U01AG072177 (to Andrew J Saykin), U19AG074879 (to Kwangsik Nho and Andrew J Saykin), U24AG072122 (to Walter A Kukull), P30AG072976 (to Andrew J Saykin), the BrightFocus Foundation (A2020161S to Mark TW Ebbert), Alzheimer’s Association (2019-AARG-644082 to Mark TW Ebbert), the University of Kentucky Center for Clinical and Translational Science TL-1 Fellowship (TL1TR0019970), the National Center for Advancing Translational Sciences (UL1TR001998) and the Dean of the College of Medicine, University of Kentucky. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health (NIH), the University of Kentucky or other participating institutions. The NACC database is funded by NIA/NIH under grant U01AG016976. NACC data are contributed by the NIA-funded ADCs—P30 AG019610 (E Reiman), P30 AG013846 (N Kowall), P50 AG008702 (S Small), P50 AG025688 (A Levey), P50 AG047266 (T Golde), P30 AG010133 (A Saykin), P50 AG005146 (M Albert), P50 AG005134 (B Hyman), P50 AG016574 (R Petersen), P50 AG005138 (M Sano), P30 AG008051 (T Wisniewski), P30 AG013854 (R Vassar), P30 AG008017 (J Kaye), P30 AG010161 (D Bennett), P50 AG047366 (V Henderson), P30 AG010129 (C DeCarli), P50 AG016573 (F LaFerla), P50 AG005131 (J Brewer), P50 AG023501 (B Miller), P30 AG035982 (R Swerdlow), P30 AG028383 (L Van Eldik), P30 AG053760 (H Paulson), P30 AG010124 (J Trojanowski), P50 AG005133 (O Lopez), P50 AG005142 (H Chui), P30 AG012300 (R Rosenberg), P30 AG049638 (S Craft), P50 AG005136 (T Grabowski), P50 AG033514 (S Asthana), P50 AG005681 (J Morris) and P50 AG047270 (S Strittmatter). The results published here are in part based on data obtained from the AD Knowledge Portal. Genotyping was supported by the ADGC through the National Institute of Aging (U01AG032984 and RC2AG036528). Samples from the National Cell Repository for Alzheimer’s Disease, which receives government support under a cooperative agreement grant (U24AG21886) awarded by the NIA, were used in this study. We thank contributors who collected samples used in this study, as well as patients and their families whose help and participation made this work possible. Data for this study were prepared, archived and distributed by the National Institute on Aging Alzheimer’s Disease Data Storage Site (NIAGADS) at the University of Pennsylvania (U24AG041689-01). We thank the study participants and staff of the Rush Alzheimer’s Disease Center. The ROS and the Rush MAP are supported by grants from the NIH (P30AG10161, P30AG72975, R01AG15819, R01AG17917, R01AG22018, R01AG33678, R01AG34374, R01AG36042, R01AG40039, R01AG042210, U01AG46152, U01AG61356, R01AG47976, R01AG43379, RF1AG54057, R01AG56352, R01NS78009 and UH2NS100599) and the Illinois Department of Public Health. The ACT study was funded by the NIA (U19AG066567). Data collection for this work was additionally supported, in part, by previous funding from the NIA (U01AG006781). All statements in this report, including its findings and conclusions, are solely those of the authors and do not necessarily represent the views of the NIA or the NIH. We thank the participants of the ACT study for the data they have provided and the many ACT investigators and staff who steward that data. You can learn more about ACT at https:// actagingstudy.org/.
Related Publications
Shade LMP., et al. GWAS of multiple neuropathology endophenotypes identifies new risk loci and provides insights into the genetic risk of dementia. Nat Genet. 2024 Oct 8. doi: 10.1038/s41588-024-01939-9. PubMed Link
Approved Users
- Investigator:Fernandez, VictoriaInstitution:ACE Alzheimer CenterProject Title:GADIRDate of Approval:February 10, 2026Request status:ApprovedResearch use statements:Show statementsTechnical Research Use Statement:The objective of this study is to contribute to our understanding of neurodegenerative diseases by examining the genetic contributors of major dementia neuropathological hallmarks (amyloid-β deposition, tau pathology, TDP-43, hippocampal sclerosis, Lewy body pathology, and cerebrovascular disease, among others. We will generate the largest Iberian database(N=3500) of neuropathologically curated brains (Aim 1) with a subset of those (N≈350) undergoing deep digital phenotyping (Aim 3). We will generate an associated genetic map (Aim 2) order to elucidate how common and rare genetic variants contribute to specific pathologies. We additionally aim to determine how polygenic risk scores (PRS) and pathway-specific PRS correspond to single and mixed neuropathological profiles, and to clarify the genetic architecture driving co-pathologies that frequently complicate clinical diagnosis. Eventually, we will replicate and fine-map our findings (Aim 4) leveraging available datasets at NIAGADS and other public repositories.Our analysis plan includes genome-wide association testing of ordinal, binary, and quantitative neuropathological traits; rare-variant burden analyses for coding and non-coding regions; PRS and pathway-PRS modeling across multiple dementia-related diseases; unsupervised clustering to identify variant sets defining specific endophenotypes; and pathway and network analyses to interpret significant signals. Colocalization and functional annotation approaches will integrate genomic findings with transcriptomic and proteomic resources.Data obtained from NIAGADS will be used to strengthen replication, broaden meta-analytic power, validate associations across independent neuropathology cohorts, and support functional interpretation using available genetic, expression, and multi-omic datasets. All analyses will use de-identified data in compliance with ethical and data-sharing standards.Non-Technical Research Use Statement:Dementia is an immensely challenging and prevalent condition, deeply impacting the lives of over 55 million individuals worldwide. While Alzheimer's disease stands as the most commonly recognized form of dementia, there exist other conditions that present comparable symptoms but distinct underlying pathological characteristics. To provide more effective support to patients and their families, we need to better understand the genetic causes associated to each of these brain pathologies, and to develop advanced tools for early classification and diagnosis. This grant proposal aims to tackle these challenges by establishing the largest Iberian (Spanish and Portuguese) database of dementia neuropathological cases, marked by a modernized and standardized neuropathological classification alongside comprehensive genomic data. Our goal is to delve further into the genetic architecture underpinning these pathological features and to refine existing risk assessment tools for more accurate diagnoses.
- Investigator:Wingo, ThomasInstitution:University of California DavisProject Title:Identifying Alzheimer's Disease Genetic Risk Factors By Integrated Genomic and Proteomic AnalysisDate of Approval:January 21, 2026Request status:ApprovedResearch use statements:Show statementsTechnical Research Use Statement:We aim to uncover new genetic risk variants for Alzheimer’s disease (AD), AD-related dementia (ADRD), and behavioral and psychiatric symptoms (BPS) associated with AD/ADRD. We expect to use whole-genome sequencing (WGS), whole-genome genotyping (WGG), and whole-exome sequencing (WES) data. Additionally, we will use the results of brain proteomic analysis to nominate genes and pathways for AD, ADRD, and dementia BPS. We plan to publish our findings to share them with the scientific community.Outcomes that will be tested include: (1) clinical disease status, (2) pathologic characterization (e.g., measures of beta-amyloid, tau, etc.), (3) cognitive decline, (4) BPSD, and (5) outcomes related to AD/ADRD severity. For sequencing data, we will extract raw sequencing reads from CRAM/BAM (or equivalent encrypted files) and re-map those to hg38 build of the human genome using PEMapper. Bascalling will be performed using PECaller using default settings. Variant annotation will use Bystro and quality control will follow approaches to assess completeness and account for ancestry as is customary in our lab. For rare variants, we will a variety of kernel-based approaches and for common variants, use standard statistical modeling. For all analyses, we plan to control for population structure deriving principal components from the underlying sequencing or genotyping data.Non-Technical Research Use Statement:Our aim is to identify genetic variants that are associated with Alzheimer's Disease (AD) to uncover new genetic associations. We will examine the role of important risk factors for AD (e.g., age and sex) in our analyses. Separately, we will perform integration of genetic findings for AD with information about how genetic variants influence or are associated with gene expression in the brain, cerebrospinal fluid, or blood to uncover new pathways of disease. Our overarching aim is to use genetic discoveries to identify mechanisms of AD pathogenesis to help nominate new treatment targets.