Question: How To Perform Gender Stratification Analysis For Gwas Data
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gravatar for David_emir
5.8 years ago by
David_emir330
India
David_emir330 wrote:

Right now i have done QC' ing using PLINK, for my Geno-typed data. I was looking for conducting Gender stratification, I have the following concerns/doubts which i am not able to solve. It would be great if you guys help me out.

1 - Gender stratification, if p values is consistently low, even on statistical correction, what can be done ? 2- How to Overlay MY SNP data with other major studies (Case control studies), and is their any databases where the genotype data is stored? 3- I have the Geno typed data with me, what all the other analysis can be done on it ?

I know this might be very silly questions, for a novice like me ......... its worth millions ! i am really feeling the heat of it. so, sorry for annoyance (in case)

Thanks a lot for your help !

pathway gwas pipeline plink • 1.9k views
ADD COMMENTlink modified 5.8 years ago by Istvan Albert ♦♦ 80k • written 5.8 years ago by David_emir330

1) You can add sex as a covariate in the model or simply divide your data set in two parts, males and females. The first approach is usually preferred, and I think most software easily allow you to specify covariates.

ADD REPLYlink written 5.8 years ago by Fabio Marroni2.2k
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