Description
The NIH’s All of Us data is one of the largest health data resources available and includes demographic, survey, electronic health record (EHR), Fitbit, genomic, and other data from over 400,000 participants with a target to grow to 1,000,000 participants. The data is extensive, currently including EHR data from over 378,000 participants, survey data from over 409,000 participants, short-read whole genomic sequencing (WGS) data from 245,400 participants, long-read WGS data from 1,040 participants, short-read WGS structural variant data from 11,400 participants, and genotyping arrays from 312,940 participants.
The All of Us data is also one of the most diverse health data resources available, with over 50% of participants from racial and ethnic minorities and 80% of participants underrepresented in biomedical research.
The All of Us Evenings with Genetics (AoUEwG) Research Program of the Department of Molecular and Human Genetics at Baylor College of Medicine is training the next generation of biomedical researchers on the platform and tools available to be used for projects leveraging data from All of Us.
The training provided at this workshop includes the topics below:
- An introduction to the All of Us Researcher Workbench as the online platform for accessing and analyzing the All of Us data
- A demonstration of starting a project on the Researcher Workbench by creating a workspace and retrieving the desired datasets
- A review of best practices for cleaning and analyzing retrieved datasets in All of Us Jupyter Notebooks that support Python and R programming languages, limited bash commands, and genomic analysis software, including Hail and Plink
- A discussion of analyzing the genomic data in a genome-wide association study (GWAS) using Hail that is scalable and efficient, and includes principal component analyses (PCA)
- Supplementary material to review after the workshop for continued practice and learning
