Code for the publication: Nurkkala, J., et al. "Associations of polygenic risk scores for preeclampsia and blood pressure with hypertensive disorders of pregnancy." (2023) J. Hypertens. 41:380.
- Data: FinnGen https://www.finngen.fi/en
- PRS values were calculuted for FinnGen individuals using PRS-CS pipeline with default settings: https://github.com/getian107/PRScs
- Calculations were performed at the FinnGen PRS pipeline: https://github.com/FINNGEN/CS-PRS-pipeline
- BP GWAS summary from UKBB GWAS v3: https://docs.google.com/spreadsheets/d/1kvPoupSzsSFBNSztMzl04xMoSC3Kcx3CrjVf4yBmESU/edit#gid=227859291
- Pre-eclampsia GWAS was based on https://doi.org/10.1038/s41467-020-19733-6, but without FINRISK individuals.
ht_prs_preg
├── README.md # Overview
├── ht_prs_preg_final.Rmd # R markdown for the analysis
├── ht_prs_preg_final.html # html generated by R markdown
├── functions_article.R # Minor R functions for the main analysis
├── prs_calculations # Directory: PRS calculations
├── prepare_ukb_for_pipeline.R # Preprocess gwas summaries from ukb
├── prepare_ega_for_pipeline.R # Preprocess gwas summaries obtained from collaborators
├── prs_preecl.json # Inputs for the FinnGen PRS pipeline
├── prs_sandbox.wdl # wdl-file for the FinnGen PRS pipeline (from FinnGen)
├── PRS_data_preg3c.csv # Metafile for the FinnGen PRS pipeline
├── PRS_regions.txt # Auxilliary file for the FinnGen PRS pipeline (essentially empty file)