In GWAS studies, 5 x 10^-8 seems the defacto standard for association. A lesser known threshhold is 1 x 10^-5.
This threshhold is often called "suggestive association."
I am writing to ask, where did this figure come from? Were empirical tests or statistical simulations done to select this level?
I can find many papers that USE this level, but far fewer that JUSTIFY it. Any relevant citations would be welcome, and thank you.
this is interesting - of course the bulk of the literature of which I am aware derives an understanding of these levels from the number of effectively independent markers.
so would be odd to use a pig based threshold unless they have similar levels of LD and numbers of haploblocks
Hi Vincent,
I added the paper because of " was first proposed by Lander and Kruglyak [17] " to indicate that they were the first to propose this. If you go to the paper of Lander Kruglyak, you will find a more precise explanation of the suggestive linkage. Good luck!
Thank you for clarifying, lindsay!