TOPMed protein prediction

associated analysis for our manuscript "Protein prediction for trait mapping in diverse populations"

Genotype level data

TOPMed MESA

1000 Genomes

INTERVAL

Summary statistics data

PAGE

UKBB

Software

PrediXcan/S-PrediXcan https://github.com/hakyimlab/MetaXcan

GENESIS https://bioconductor.org/packages/release/bioc/html/GENESIS.html

MatrixeQTL https://github.com/andreyshabalin/MatrixEQTL

COLOC https://github.com/chr1swallace/coloc

dap-g https://github.com/xqwen/dap

glmnet https://cran.r-project.org/web/packages/glmnet/index.html

torus https://github.com/xqwen/torus

plink1.9 https://www.cog-genomics.org/plink/1.9/

plink2 https://www.cog-genomics.org/plink/2.0/

bcftools http://samtools.github.io/bcftools/bcftools.html

vcftools https://vcftools.github.io/man_latest.html