Fig. 2.

Deciphering the genetic basis of interindividual variation in immune response to MTB infection. (A) Plot contrasting the evidence for cis-eQTL in the untreated and infected DCs. For every gene we plotted the additive model P values (−log₁₀ transformed) for the most strongly associated cis-SNP (defined as SNPs located in 200-kb window centered on the TSS of a proximal gene) with gene expression levels in the untreated (x axis) or infected (y axis) DCs, respectively. The red dashed lines specify the P values corresponding to an FDR of 1%. The blue dashed lines specify the second, more relaxed, cutoff (∼50% FDR) used to confidently classify response eQTL. Only genes with strong evidence of a cis-eQTL in at least one of the conditions (FDR of 1%) are plotted. (B) Proportion of cis-eQTL (y axis) observed among all tested genes and among genes that were classified as differentially expressed (DEG) following infection with MTB. (C) Example of a response eQTL found only in the untreated samples. (D) Example of a response eQTL found only in the infected samples.