Question: About P/Or Value
0
gravatar for Ardmore
7.9 years ago by
Ardmore140
Ardmore140 wrote:

In GWAS Analysis using PLINK. In assoc file result there is a column P and OR. I am not sure what is "OR". What does it mean "OR"? And what are expected values? I mean higher value or lower value?

Thanks,

gwas plink • 1.6k views
ADD COMMENTlink written 7.9 years ago by Ardmore140
3
gravatar for David Quigley
7.9 years ago by
David Quigley11k
San Francisco
David Quigley11k wrote:

P is the P value; OR is the Odds Ratio for the result. Consider reading the documentation to the tool: http://pngu.mgh.harvard.edu/~purcell/plink/anal.shtml. If you're unsure what a P value is, start reading statistics and genetics tutorials such as the GWAS series at Nature Reviews: Genetics.

ADD COMMENTlink written 7.9 years ago by David Quigley11k

Thanks, it is good enough. How to mark it as answer?

ADD REPLYlink written 7.9 years ago by Zhshqzyc490

You can click the white check mark next to a response to mark it as the accepted answer.

ADD REPLYlink written 7.9 years ago by David Quigley11k
2
gravatar for Larry_Parnell
7.9 years ago by
Larry_Parnell16k
Boston, MA USA
Larry_Parnell16k wrote:

OR is odds ratio. An OR greater than one for a given genotype indicates increased risk for that phenotype.

ADD COMMENTlink written 7.9 years ago by Larry_Parnell16k

Okay, then how about P? High value is good or bad?

ADD REPLYlink written 7.9 years ago by Zhshqzyc490
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