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. 2024 Apr 10;4(4):100539. doi: 10.1016/j.xgen.2024.100539
REAGENT or RESOURCE SOURCE IDENTIFIER
Deposited data

Simulated data Zhang et al.13 Harvard Dataverse: https://dataverse.harvard.edu/dataset.xhtml?persistentId=doi:10.7910/DVN/COXHAP
EUR GWAS summary data for BMI, HDL, and LDL based on UKBB samples (GWAS round 2 from the Neale Lab) Locke et al.37; Willer et al.37,38 http://www.nealelab.is/uk-biobank
Split GWAS summary data based on 80% individuals from PAGE for BMI, HDL, and LDL stratified for AFR and AMR Wojcik et al.3 Zenodo: https://doi.org/10.5281/zenodo.10800703
EAS GWAS summary data from BBJ for BMI, HDL, and LDL Kanai et al.39,40 http://jenger.riken.jp/en/result
GWAS summary data from GLGC for HDL, LDL, TC, and logTG stratified for EUR, AFR, AMR, EAS, and SAS Graham et al.25 https://csg.sph.umich.edu/willer/public/glgc-lipids2021/results/ancestry_specific/
GWAS summary data from All of Us for BMI and height stratified for EUR, AFR, and AMR This paper Harvard Dataverse: https://dataverse.harvard.edu/dataset.xhtml?persistentId=doi:10.7910/DVN/FAWEQK
LD information used in MUSSEL for EUR, AFR, AMR, EAS, and SAS This paper Zenodo: https://doi.org/10.5281/zenodo.10816301
1000 Genome Phase 3 Siva24 https://mathgen.stats.ox.ac.uk/impute/1000GP_Phase3.html

Software and algorithms

PLINK 1.9 Chang et al.41 https://www.cog-genomics.org/plink
PLINK 2.0 Purcelland Chang42 https://www.cog-genomics.org/plink/2.0/
LDpred2 Privé et al.14 https://privefl.github.io/bigsnpr/articles/LDpred2.html
PRS-CSx Ruan et al.9 https://github.com/getian107/PRScsx
CT-SLEB Zhang et al.13 https://github.com/andrewhaoyu/CTSLEB
LDSC Bulik-Sullivan et al.43 https://github.com/bulik/ldsc
MUSSEL This paper Zenodo: https://doi.org/10.5281/zenodo.10800738