The goal of this work was to determine the frequency of major types of polymorphism in the genes of interleukin-1 receptor antagonist (IL-1RA) and TNF-alpha in patients with Helicobacter pylori-associated gastritis and duodenal ulcer and elucidate its correlation with clinical manifestation of the disease. A total of 126 patients were selected for the study with different gastroduodenal pathologies and H. pylori detected in biopsy material. The obtained data indicate a possible correlation between the risk of developing duodenal ulcer and the presence of the allele A in the TNF-alpha gene at the -308 position in the patients. Polymorphism analysis of the IL-1RA gene revealed a statistically significant difference in the availability of the 2/L genotype in the studied groups of patients. The conducted research demonstrates that a parallel typing of the H. pylori virulence genes and determination of the cytokine gene polymorphism in the biopsy material taken from the patient is required for characterization of the bacterium-host interaction.