- Metabolites are already transformed by logarithm function.
- Step 1 is already done by GWAS.
- Step 2 is done.
- Step 3 is done.
- Step 1, 2, 3 were merged.
- First summary of the 3 steps of the mediation analysis was reported to Cristian on 29-Nov-2022.
- When trying to replicate the achieved results on 29-Nov-22, I realized that log transformation affected association between the replicated variants and the metabolites in step 3 of mediation analysis, thus leading not to be able to replicate the significant relation between the CASZ1 variants and alpha_AAA metabolite in step 3. So, at the end we did not have any mediator for kidney function. Let's check it gaian with the PI (28-Jan-2023).
- We compared the distribution of metabolites under three tranformation function namely ln, log2, and inverse normal. At the end, semms that log2 transformation preserve better the natural distribution of the data (08-Feb-23).
Dariush