Neurodevelopmental disorders can be divided into four subgroups, based on their (mostly hypothetical) genetic aetiology (Table 1). The first subgroup is characterized by aneuploidy (an abnormal number of chromosomes). The most well-known neurodevelopmental aneuploidy is Down’s syndrome with a trisomy of chromosome 21. Disorders of the second subgroup contain chromosomal micro-deletions, such as the deletion of chromosomal region 7q11.2 (which harbours more than 20 genes) in William’s-Beuren syndrome. In each neurodevelopmental disorder of the third subgroup, only a single gene is affected. For example, the fragile X syndrome is a genetic disorder caused by a mutation (CGG repeat expansion) of the fragile X mental retardation 1 (FMR1) gene on the X chromosome. The neurodevelopmental disorders with a complex aetiology, such as autism and schizophrenia, comprise the fourth subgroup and are thought to be caused by (a combination of) genetic, environmental and epigenetic factors. In this review, we focus on the neurodevelopmental disorders with a complex aetiology and the current thoughts on their genetic, environmental and epigenetic aetiologies.