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. 2024 Jun 28;4(7):100602. doi: 10.1016/j.xgen.2024.100602
REAGENT or RESOURCE SOURCE IDENTIFIER
Deposited data

UK Biobank Exome and Genotype data Bycroft et al.45 https://www.ukbiobank.ac.uk/
Summary statistics This paper https://doi.org/10.5281/zenodo.10939698

Software and algorithms

SAIGE (1.1.9) Zhou et al.40 https://www.nature.com/articles/s41588-020-0621-6
HAIL (0.2.97) Hail team44 https://github.com/hail-is/hail
SHAPEIT5 (5.0.0) Delaneau et al.26 https://github.com/odelaneau/shapeit5
LDpred2 (1.12.1) Prive et al.32 https://github.com/privefl/bigsnpr
PLINK (1.9) Chang et al.41 https://www.cog-genomics.org/plink/1.9/
BCFtools (1.12) Danecek et al.46 https://samtools.github.io/bcftools/
Whatshap (1.6) Martin et al.27 https://whatshap.readthedocs.io/en/latest/
Variant Effect Predictor (95) McLaren et al.47 https://www.ensembl.org/info/docs/tools/vep/index.html
Gene lists Multiple authors28,48,49,50,51,52 https://github.com/macarthur-lab/gene_lists
Main pipeline code This paper https://github.com/frhl/wes_ko_ukbb_nexus,10.5281/zenodo.10926001