---
title: "NG00180 – Four large scale pQTL and mQTL atlases in plasma from European and African ancestral groups"
id: "8428"
type: "dataset"
slug: "ng00180"
published_at: "2025-08-14T19:39:31+00:00"
modified_at: "2026-03-19T15:12:55+00:00"
url: "https://dss.niagads.org/datasets/ng00180/"
markdown_url: "https://dss.niagads.org/datasets/ng00180.md"
excerpt: "All data provided in this dataset are open access and are available publicly in the “Open Access Dataset” tab."
taxonomy_dataset_categories:
  - "ADRD"
  - "Data Type"
  - "Disease"
  - "Open Access"
  - "Open and Controlled Access Data"
  - "Summary Statistics"
---

## Overview

All data provided in this dataset are open access and are available publicly in the “Open Access Dataset” tab.

#### Description

To build ancestry-stratified genetic maps of the plasma proteome and metabolome, we performed pQTL and metabolite-QTL (mQTL) analyses on participants of African and European ancestry from Knight-ADRC cohort separately. We utilized an aptamer-based assay (SomaScan 7k platform) to measure protein levels and a mass-spectrometry assay (Metabolon HD4 platform) to quantify the metabolite levels. The proteomic and metabolomic datasets were generated from the same cohort. Following quality control procedures for the omics data and integration with array-based post-imputation genotype data, we constructed four maps/atlases: i) AFR pQTL (414 participants and 6,907 proteins), ii) EUR pQTL (2,338 participants and 6,907 proteins), iii) AFR mQTL (417 participants and 1,413 metabolites), and iv) EUR mQTL (2,392 participants and 1,483 metabolites).

In total, 3,170 participants from all genetic ancestries were selected for both proteomics and metabolomics profiling. The plasma proteomic and metabolomic datasets were generated from participants, which included 1,254 AD patients, 1,720 healthy controls, 34 frontotemporal dementia patients, and 162 individuals with an unclassified neurodegenerative disease. The dataset consists of GWAS summary statistics (GRCh38) for all 16,710 traits (EUR-proteins: 6.907; AFR-proteins: 6,907; EUR-metabolites: 1,483; AFR-metabolites: 1,413).

#### Available Filesets

| Name | Accession | Latest Release | Description |
| --- | --- | --- | --- |
| KGAD EUR AFR QTL: Full summary statistics | fsa000148 | NG00180.v1 | Full summary statistics |

View the [File Manifest](https://st1.niagads.org/portal/download-public/NG00180.v1/fm)
 for a full list of files released in this dataset.

## Related Studies

- [sa000074 - Four large scale pQTL and mQTL atlases in plasma from European and African ancestral groups](https://dss.niagads.org/studies/sa000074/) Initially focused on the European population, multiple genome-wide association studies (GWAS) of complex diseases, such as type-2 diabetes (T2D), Alzheimer disease (AD), have now extended to other populations. However, to… [Learn more](https://dss.niagads.org/studies/sa000074/)

## 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 [NG00180](https://archive.niagads.org/datasets/NG00180)
.

### For investigators using Four large scale pQTL and mQTL atlases in plasma from European and African ancestral groups (sa000074) data:

We thank all the participants for giving consent included in this study. We thank the contributions of John Budde and Pat Kohlfeld for sample preparation and shipment. Funding: This work was supported by grants from the National Institutes of Health (R01AG044546 (CC), P01AG003991 (CC), RF1AG053303 (CC), RF1AG058501 (CC), U01AG058922 (CC), RF1AG074007 (YJS)), the Chan Zuckerberg Initiative, the Michael J. Fox Foundation (CC), and the Alzheimer’s Association Zenith Fellows Award (ZEN-22-848604, CC).

## Publications

- Yang C. **European and African ancestry-specific plasma protein-QTL and metabolite-QTL analyses identify ancestry-specific T2D effector proteins and metabolites.***Nature communications. 2025 Aug 11.*[PubMed link](https://pubmed.ncbi.nlm.nih.gov/40789849/)

### Total number of participants: 0