Pathogen-specific innate immune response patterns are distinctly affected by genetic diversity - Nature Communications

we have also calculated diffQTLs for all reQTLs identified by β-comparison and used Spearman correlation as a measure of similarity. This showed that both methods lead to nearly identical results.

For the identification of timepoint-specific reQTLs, we used all significant reQTLs from one timepoint and tested these against the other timepoint in a z test and vice versa. All reQTLs with a Bonferroni correctedmonocytes were cultured and stimulated withfor 12 h under same conditions as mentioned above. Afterwards, IL-1β levels in supernatants were measured by ELISA according to manufacturer’s instructions .

Monocyte and T cell stimulations as well as ELISA measurements were performed in duplicates for all samples. All sample values were blank-curated and medium control-curated before concentration calculation via the corresponding standard curve formula. Statistical analysis of IL-1β and IFNγ levels was performed with two-tailed Wilcoxon rank sum test.

. We selected for GWAS that analyze disease associations in European study cohort of >1000 people. A listed GWAS SNP was assumed to coincide with a reQTL if the GWAS SNP was in high linkage disequilibrium with the top SNP per gene. A full list of the identified GWAS reQTLs is in Supplementary Data

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