The analysis of the recurrence of CNAs and the eQTL map we present are based on a large sample, providing a high-confidence map of molecular associations in iPSCs. We have presented preliminary experimental characterisation of some of the CNAs and eQTLs we detected, however our results are inconclusive. An important next step will be to perform more extensive functional characterisation to understand how iPSC cellular phenotypes are influenced by CNAs and iPSC eQTLs. We anticipate that the lines and data we have generated here will be a valuable starting point for future studies to understand how germline and somatic genetic variation influences iPSC growth and differentiation.
