The paper presents the results of an integrated medical genetic survey carried out in the town of Chapayevsk. The survey included an estimation of the incidence of congenital malformations (CMF), congenital morphogenetic options (CMGO), evaluation of the frequency of chromosomal mutations of various types and micronuclei in human somatic cells. The incidence of CMF among newborn infants corresponds to that in Russia, but such forms of CMF as congenital hydrocephalus and agenesia and disgenesis of the kidney were more common in the town. The study ascertained that the average number of CMGO per child was on the increase. Cytogenetic findings unambiguously demonstrate that there was a spatial gradient within the town (from the plant to remote districts), higher rates of chromosomal aberrations. Further studies of the effects of dioxins on genetic health are required to assess the actual genetic risk due to its human contact.