---
title: "EFIGA1 WGS"
id: "7369"
type: "sample_set"
slug: "snd10104"
published_at: "2024-11-27T15:58:57+00:00"
modified_at: "2024-11-27T15:58:58+00:00"
url: "https://dss.niagads.org/sample-sets/snd10104/"
markdown_url: "https://dss.niagads.org/sample-sets/snd10104.md"
excerpt: "A total of 1,396 EFIGA cohort samples were sequenced at NYGC and USUHS using the Illumina HiSeqX platform. The BAM files were sent to GCAD for processing through the VCPA1.1 pipeline. A total of 1,373 samples passed sequencing metrics and..."
---

## Description

A total of 1,396 EFIGA cohort samples were sequenced at NYGC and USUHS using the Illumina HiSeqX platform. The BAM files were sent to GCAD for processing through the VCPA1.1 pipeline. A total of 1,373 samples passed sequencing metrics and quality control checks.

## Cohorts

- [Estudio Familiar de Influencia Genetica en Alzheimer (EFIGA)](https://dss.niagads.org/cohorts/estudio-familiar-de-influencia-genetica-en-alzheimer-efiga/)
- [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: 1,603

Female1,01263.1 %

Male59136.9 %

## Race

### Total number of samples: 1,600

| American Indian/Alaska Native | 1 |
| --- | --- |
| Native Hawaiian or Other Pacific Islander | 3 |
| Black or African American | 225 |
| White | 287 |
| Other | 1,065 |
| NA | 19 |

## Ethnicity

### Total number of samples: 1,603

Not Hispanic or Latino

187

11.7%

Hispanic or Latino

1,413

88.1%

Not Applicable/Not Available

3

0.2%

## Diagnosis

### Total number of samples: 1,603

| AD |  |  |
| --- | --- | --- |
| Control | 802 | 50.0% |
| Case | 520 | 32.4% |
| Other | 218 | 13.6% |
| Unknown | 63 | 3.9% |

## APOE

### Total number of samples: 1,603

- 2217 (1.1%)
- 23120 (7.5%)
- 2473 (4.6%)
- 33587 (36.6%)
- 34600 (37.4%)
- 44206 (12.9%)