/mini_project_2020

COVID-19 MiniProject

Residential Training Mini-Project

Interrogating public datasets and paths to results on Covid19 in East Africa (Africa)

Aimed at:

  1. Understand the genetic diversity between African SARS-CoV-19
  2. Infer relatedness if the African SARS-CoV-19 to global strains causing COVID-19
  3. Estimate the rate of evolution of SARS-CoV-19 in Africa

Method

  1. Extract all SARS-COVID-19 sequences from sequnce databases Wolfram Data Repository EMBL COVID-19 Data Repository How can we extract data from GISAID
  2. Perform multiple sequence alignments
  3. Infer conserved and diverse genetic regions
  4. Perfom phylogenetic inferences

Data

Extracted 103 African seqeunces from GenBank