We first investigated whether the identified probe that comprised a cis-eQTLs (probe distance of 250 kb, FDR of 0.05) showed co-expression with all other probes that mapped to different chromosomes for both the celiac peripheral blood dataset and the HapMap B cell line dataset. We correlated the measured intensity levels with all other probes that mapped on different chromosomes, through a Spearman's rank correlation analysis. By applying Bonferroni correction to account for multiple testing, sets of significantly correlated transcript-pairs could be identified.
