Saliva methylome analysis of ART children that underwent embryo culture in G3 or K-SICM medium

Follow-up study of 9 year old IVF children who underwent embryo culture in G3 (Vitrolife) or K-SICM (Cook) medium. Genome-wide DNA methylation profiling of 9 year old IVF children (saliva samples) who had undergone embryo culture in G3 medium (Vitrolife) or K-SICM medium (Lonza). The EPIC array was used to profile the methylome at approximately 850,000 CpG sites across the human genome. Bisulphite converted DNA from umbilical cord blood samples from IVF 9-year-olds that had undergone embryo culture in G3 (n = 57 ) or HTF (n = 49) culture medium, were hybridised to the Illumina EPIC array. Data processing was conducted in R using the RnBeads package. Processing consisted of SWAN normalisation, and site/sample removal based on greedycut (detection p-value threshold 0.05), SNP proximity, position on the sex chromosomes, missing values in >5% of samples and sites not in a CpG context.