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Day-03 - polygenic scoring

posted Feb 26, 2011, 8:23 PM by Colm O'Dushlaine   [ updated Oct 15, 2014, 10:01 AM ]
So, finally completed the polygenic scoring. Happily, I am in the bottom 5% of polygenic scores. So not much evidence of schizophrenia! 

- took my 23me data and plink-formatted
- took original ISC scores from here
- predicted ISC into a dataset of 1500 SCZ cases and 1500 controls (using no p-value cut-off here b.t.w.)
- predicted ISC into 23me data (with the caveat that many SNPs (~50%) were not covered...sort of an issue, but not a major one, I expect...and I can always empirically estimate the sampling error in this
- plotted me along with the dataset I scored against: 1=controls, with vertical line at 0.00095 highlighting my score, 2=schizophrenia cases

Colm O'Dushlaine,
Feb 26, 2011, 8:33 PM