GWAS

Question 1

test used to look for correlations

Answer 1

Fisher’s exact test

Question 2

GWAS plot name

Answer 2

Manhattan plot

Question 3

issue w using GWAS in bacteria

Answer 3

often populations are inbreeding, so hard to know what is due to the trait and what’s not

Question 4

what we found from a h pylori GWAS

Answer 4

that it’s not only genes on a pathogenicity island which are involved in cancer- other genes were also up/downregulated in cancer

Question 5

example- GWAS to understand transmission

Answer 5

C. jejuni- looking at gene increases at stages of transmission, better oxygen tolerance and stuff in disease-causing strains

Question 6

example of complexities in a GWAS

Answer 6

epistasis- one gene impacting another, making it hard to tell which gene is actually responsible for changes in phenotype- e.g. SCCmec in S. aureus

> we can identify epistasis by trying to break apart gene sets, and seeing if the organism can survive that