---
title: "WHICAP GWAS"
id: "9146"
type: "sample_set"
slug: "snd10132"
published_at: "2026-07-07T13:02:10+00:00"
modified_at: "2026-07-07T13:02:11+00:00"
url: "https://dss.niagads.org/sample-sets/snd10132/"
markdown_url: "https://dss.niagads.org/sample-sets/snd10132.md"
excerpt: "The WHICAP sample set was genotyped at the Children’s Hospital of Philadelphia using the Illumina Infinium OmniExpress BeadChip which captures genotype data on 730,525 genomic SNPs. The standard Alzheimer’s Disease Genetics Consortium (ADGC) quality control pipeline (Naj et al. 2011)..."
---

## Description

The WHICAP sample set was genotyped at the Children’s Hospital of Philadelphia using the Illumina Infinium OmniExpress BeadChip which captures genotype data on 730,525 genomic SNPs. The standard Alzheimer’s Disease Genetics Consortium (ADGC) quality control pipeline ([Naj et al. 2011](https://pubmed.ncbi.nlm.nih.gov/21460841/)
) was applied to this GWAS dataset. The final QC’d dataset is on GRCh38.

## Cohorts

- [Washington Heights and Inwood Community Aging project (WHICAP)](https://dss.niagads.org/cohorts/washington-heights-and-inwood-community-aging-project-whicap/)

## Sex

### Total number of samples: 647

Female39160.4 %

Male24237.4 %

Sex not reported: 14

## Race

### Total number of samples: 647

| White | 633 |
| --- | --- |
| NA | 14 |

## Ethnicity

### Total number of samples: 647

Not Hispanic or Latino

633

97.8%

Not Applicable/Not Available

14

2.2%

## Diagnosis

### Total number of samples: 647

| AD |  |  |
| --- | --- | --- |
| Control | 560 | 86.6% |
| Case | 73 | 11.3% |
| Unknown | 14 | 2.2% |

## APOE

### Total number of samples: 647

- 221 (0.2%)
- 2375 (11.6%)
- 248 (1.2%)
- 33423 (65.4%)
- 34117 (18.1%)
- 448 (1.2%)
- NA15 (2.3%)