---
# System prepended metadata

title: Project 2 draft

---

**1. Your research question**

How do different variants of the HLA genes affect the prevalence of Type I Diabetes in different ethnic groups?

**2. Your databases**
[Genome-Wide Association Studies (GWAS)](https://www.ebi.ac.uk/gwas/efotraits/MONDO_0005147)
[1000 Genomes Project](https://www.internationalgenome.org/home)
[Diabetes Data Portal - IDF Diabetes Atlas](https://diabetesatlas.org/data/en/country/211/us.html) 
[T1D Index - IDF Diabetes Atlas](https://www.t1dindex.org/)


**3. Updated description of your work/analysis plan**
* Decide on which region to perform analysis on
    * Use GWAS to determine which alleles of the HLA genes are significantly associated with T1D
* Use 1000 Genomes Project/Ensembl to determine the frequencies of these variants in different populations
    * Download tables of frequencies from population genetics (tables have frequencies, populations, subpopulations, and genotype data)
* Determine the frequency of T1D in different countries/regions/ethnic groups using the IDF Diabetes Atlas
* Integrate the data between the allele frequencies in each ethnic group with the prevalence of T1D in that ethnic group
    * Tables to be made:
        * SNP associated with T1D
        * SNP in population
        * Frequency of T1D in population
    * These 3 tables will be merged
* Conclude with which HLA variant(s) are highly associated with T1D in each ethnic group.

**R will be used to integrate databases and used to visualize in graph form

