“…In a second analysis, we tested to see if the QTLs identified were enriched for these features relative to random locations in the genome. We examined potential Pbx1 and Emx2 dimerization motifs (Capellini et al, 2011), chromatin immunoprecipitation (ChIP)‐seq‐identified Pitx1 binding peaks (Infante, Park, Mihala, Kingsley, & Menke, 2013), ChIP‐seq‐identified Sox9‐binding peaks (Generic and Class I and II; Liu et al, 2015; Ohba, He, Hojo, & McMahon, 2015), Sox9 superenhancers (Liu & Lefebvre, 2015; Ohba et al, 2015), H3K27ac marked regulatory elements (of the flank and hind limb expressed at age E11.5; Infante et al, 2013), and DNase I hypersensitivity data from the ENCODE database generated on hind limb and flank tissues (ascertained at age E11.5; ENCODE Project Consortium, 2007).…”