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Here, we use a two-trait Bayesian integrative analysis approach on 43 287 ASD, UDD\/ID, CHD, and SCZ case trios to increase statistical power for gene discovery and to identify shared risk genes. At a posterior probability &amp;gt; 0.80, we identified 180 candidate risk genes for ASD, 315 for UDD\/ID, 49 for CHD, and 47 for SCZ, including genes not previously reported, and also detected shared risk genes in pair-wise analyses. Gene set enrichment analysis of the ASD-UDD\/ID, ASD-SCZ, and UDD\/ID-SCZ shared risk genes overwhelmingly implicated gene sets associated with the synapse and epigenetic modification, while CHD-ASD shared risk genes were enriched in cell cycle phase transition gene sets, and CHD-UDD\/ID shared risk genes implicated cardiac development. ASD-UDD\/ID risk genes had elevated expression in interneurons and pyramidal cells, while ASD-UDD\/ID and CHD-UDD\/ID shared risk genes showed elevated connectivity in protein\u2013protein interaction networks. Leveraging information across disorders with genetic overlap, both to increase power for candidate risk gene discovery and also as a method to elucidate shared genetic mechanisms.<\/jats:p>","DOI":"10.1093\/nargab\/lqaf162","type":"journal-article","created":{"date-parts":[[2025,11,13]],"date-time":"2025-11-13T12:57:49Z","timestamp":1763038669000},"source":"Crossref","is-referenced-by-count":2,"title":["Joint analysis of\n                    <i>de novo<\/i>\n                    mutations from autism spectrum disorder, schizophrenia, congenital heart disease, and other developmental disorders improves detection power and implicates shared molecular pathways and CNS processes"],"prefix":"10.1093","volume":"7","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-6900-7046","authenticated-orcid":false,"given":"Marc","family":"Kealhofer","sequence":"first","affiliation":[{"name":"Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University , Richmond, VA 23298-0126 ,","place":["United States"]},{"name":"VCU School of Medicine, Virginia Commonwealth University , Richmond, VA 23298-5026 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ruth","family":"Brown","sequence":"additional","affiliation":[{"name":"Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University , Richmond, VA 23298-0126 ,","place":["United States"]},{"name":"Department of Psychiatry, Virginia Commonwealth University , Richmond, VA 23298-0308 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Brien P","family":"Riley","sequence":"additional","affiliation":[{"name":"Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University , Richmond, VA 23298-0126 ,","place":["United States"]},{"name":"Department of Psychiatry, Virginia Commonwealth University , Richmond, VA 23298-0308 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tan-Hoang","family":"Nguyen","sequence":"additional","affiliation":[{"name":"Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University , Richmond, VA 23298-0126 ,","place":["United States"]},{"name":"Department of Psychiatry, Virginia Commonwealth University , Richmond, VA 23298-0308 ,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2025,12,17]]},"reference":[{"key":"2025121705143830900_B1","doi-asserted-by":"crossref","first-page":"339","DOI":"10.1016\/S2215-0366(16)30376-5","article-title":"Neurodevelopmental disorders","volume":"4","author":"Thapar","year":"2017","journal-title":"The Lancet Psychiatr"},{"key":"2025121705143830900_B2","doi-asserted-by":"publisher","first-page":"611","DOI":"10.1097\/WCO.0000000000000710","article-title":"What are neurodevelopmental 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