Question: Reference allele effect allele and beta calculation

0

papriscope •

**0**wrote:This is a simple stats question, I'm a newbie and learning and I just want to make sure I'm not missing some step.

If I have summary statistics for various SNPs with betas given, and I wish to 'flip' so to say the reference / effect alleles,

- is it simply flipping the sign of the beta? and then calculating the
`OR = exp(beta)`

,`95%CI = exp(beta+1.96*SE)`

or`exp(beta-1.96*SE)`

like I would with any categorical variable switching correct. - I'm using the z-score/ normal distribution to generate the confidence interval, is that okay? or should I be aware of something?

So for example if the Ref/Effect

```
A/T beta = -0.23
SE =0.16
T/A beta= 0.23
SE=0.16
OR=1.25 (95% CI 0.91-1.72)
```

Thank you!

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modified 4 months ago
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Biostar ♦♦

**20**• written 4 months ago by papriscope •**0**