Fig. 5
From: COLLAGENE enables privacy-aware federated and collaborative genomic data analysis
GWAS results using LOAD dataset with secure and plain protocols, GMMAT, and plink2. aP-value concordance between secure and plain federated GWAS using LOAD dataset. b Concordance between secure protocol and GMMAT. c Concordance between secure protocol and plink2. d The distribution of number of missing subjects per variant (y-axis) stratified by difference in absolute log10(p-value) assigned by secure protocol and plink2. The bars correspond to low (red) and high (blue) p-value difference. Number of variants is shown at the top of the bars. e The distribution of missing subjects per variant stratified by difference in absolute log10(p-value) assigned by secure and plain federated protocol. The bars correspond to low (red) and high (blue) p-value difference. f Manhattan plot shows the variant position (x-axis) vs − log10(p-value) for secure protocol. Red horizontal line shows 5 × 10−8 cutoff for the p-value. g Manhattan plot shows the variant position (x-axis) vs − log10(p-value) for plink2