Fig. 3. pcHi-C connects predicted regulatory elements to their putative target genes.

(A) Randomly assigning a gene to a peak (see Materials and Methods) resulted in fewer peaks that matched the direction of change with that of differentially expressed genes than when using pcHi-C interactions or the nearest gene to pair peaks to genes. (B) The FOXO1 gene is more highly expressed in decidualized samples (fourfold increase, P = 7 × 10⁻²²) and its promoter physically interacts (red arcs) with distal regulatory elements (yellow highlights) that show increased activation in decidualized samples. The nearest expressed gene to these differential peaks is COG6.