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--- catslife:instruments:polygenic_scores_pgss [2024/04/11 08:59]
gustavsd created
+++ catslife:instruments:polygenic_scores_pgss [2024/04/11 14:55] (current)
gustavsd [Information About the PGS Pipeline]
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 We started with the lightly QC'd genetic datafiles from Luke Evans that was imputed to HRC. Additional QC was then applied to remove INFO/R2<=.80, remove multiallelic variants, and rename to RSID (build 37). Additional filters in plink were as follows: --geno .05 --maf .01 --mind .05 --hwe 1e-10
-PGSs were then computed using PRScs (CITE) and/or SbayesR (CITE) programs. See the table below for which specific traits have been scored. Example scripts for generating your own scores are provided on RC, but please contact Daniel Gustavson if you have any questions and/or want to request specific scores generated in the future.
+PGSs were then computed using PRScs (Ge et al., 2019) and/or SbayesR (Lloyd-Jones et al., 2019) software. See the table below for which specific traits have been scored. Example scripts for generating your own scores are provided on RC, but please contact Daniel Gustavson if you have any questions and/or want to request specific scores generated in the future.
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+| **TRAIT** | **CITATION** | **PRScs** | **SbayesR** |
+| Alzheimer's Disease | Bellenguez 2023 | X | X |
+| Alzheimer's Disease | Kunkle 2019 | X |  |
+| Educational Attainment | Okbay 2022 | X | X |
+| Executive Function | Hatoum 2023 | X |  |
+| Impulsivity (3 BIS subscales) | Sanchez-Roige 2023 | X |  |
+| Impulsivity (5 UPPS subscales) | Sanchez-Roige 2023 | X |  |
+| General Cognitive Ability | Davies 2018 | X |  |
+| Intelligence (Childhood) | Benyamin 2014 | X |  |
+| Neuroticism | Baselmans 2019 | X |  |

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