National Council of Technological and Scientific Development (CNPq), Brazil, and L.C.R. is partially funded by the European Union’s Horizon 2020 research and innovation program under Zika-PLAN grant agreement No. 734584.Dengue virus infection during pregnancy increased the risk for any neurologic congenital anomaly in the infant by roughly 50% and for other congenital malformations of brain 4-fold. Our results show an association between dengue during pregnancy and congenital anomalies of the brain, suggesting that flaviviruses other than Zika virus are associated with such malformations.