Author Contributions

J.M.T. led the multiomics analysis, performed data analysis and statistical analyses, produced all figures and wrote the manuscript. Y.G. developed and executed data processing pipelines and contributed to variant curation. E.I. was responsible for patient recruitment, sample collection and generation of multiomic datasets at Cincinnati Children′s Hospital. D.D. and E.R. contributed to variant curation. M.T. developed and executed genomic data processing pipelines. D.H. designed and implemented transcriptomic analysis pipelines. H.H., J.A., N.A.K., T.E.F., J.T. and K.N.W. contributed to clinical data collection, patient phenotyping and neurodevelopmental outcome assessment. R.D. provided scientific expertise in neurodevelopmental disorders and contributed to data interpretation. The Congenital Heart Disease Synergy Study Group contributed to funding acquisition and the development of analytical pipelines used in this study. E.P.K. provided scientific expertise and contributed to data interpretation. S.L.D., D.S.W. and E.G. conceived and supervised the study and acquired funding.