Given the central role that SLC6A4 has in energy homoeostasis, and the previous genetic and epigenetic associations with obesity, this study sought to examine the relationship between SLC6A4 DMR methylation in cord tissue at birth and adiposity in infancy and childhood in children from the Southampton Women’s Survey (SWS) cohort (n = 680). Here, SLC6A4 is linked to obesity due to melanocortin 4 receptor deficiency.