Taken together, the analyses presented here suggest that genetic influences on psychiatric disorders comprise at least two general classes of loci. The first comprises a set of genes that confer relatively broad liability to psychiatric disorders by acting on early neurodevelopment and the establishment of brain circuitry. These pleiotropic genes begin to come online by the second trimester of fetal development and exhibit differentially high expression thereafter. The expression and differentiation of this generalized genetic risk into discrete psychiatric syndromes (e.g., ASD, BIP, AN) may then involve direct and/or interactive effects of additional sets of common and rare loci and environmental factors, possibly mediated by epigenetic effects, that shape phenotypic expression via effects on brain structure/function and behavior. Further research will be needed to clarify the nature of such effects.