How to calculate Polygenic Risk Score from Summary Results with Z-Score only
I have summary results from a large GWAS. The information given in this summary statistics is the following columns:
Chromosome, Position, Markername, Effect_allele, Other_allele, P-value , Zscore.
If i understood it correctly, the Z-score is the standardized effect measure (effect/StdError). Is there a way to create a PRS based on this Zscore instead of based on the original effect-estimates? Or do i have to estimate the beta from the Zscore in any way (by using allele frequency,..)? Has anyone done this before? All advice is appreciated!
• 3,914 views
•
link
updated
by
Sam
•
written
by
AnnaStieber •
•
written
by
AnnaStieber •
1 answer
Log in to answer this question.
More posts like this
-
Estimating per-variant heritability from summary stats
written by Daniel •
-
Imputing allele frequency into GWAS summary statistics
written by newbie problems •
-
How to calculate beta and SE from z-score , p-value and frequency
written by Star •
-
error related to MetaXcan
written by rheab1230 •
-
How to include BETA and SE in output of METAL
written by anamaria
-
Is z-score the same as standardised betas in GWAS summary statistics
written by rk •
-
Effect Allele Frequency in base summary statistics for PRSs calculation
written by bigfoot •
-
Effect Allele Frequency (EAF) to Minor Allele Frequency (MAF)
written by bigfoot •
-
Why there is no beta of SE output in some meta GWAS results?
written by lilingjoyo •
-
Caclulate effect estimates and SE from Z scores
written by muralinmars •
