Abstract: Transgenic technology is widely used, particularly for obtaining the high-quality crops.But in the commercialization of genetically modified crops, the safety of the products has been concerned. The continuous development of the omics has provided a new method for the safety evaluation of genetically modified crops. In view of the instantaneity and availability of metabolite data, the comparison results of metabolites for 6 crops between wild and transgenic samples were analyzed comprehensively, and the data were collected from many articles which had been reported in the metabolomics analysis of genetically modified crops.Eight differential metabolites were obtained with the representativeness based on the significant test, and the result of metabolic pathway enrichment showed that the proteins associated with them were involved in energy metabolism, which was same as the published result of the transgenic unintended effect study for single-species. The study revealed that transgenic event affected the energy metabolism of these six crops from both metabolites and proteins aspects, and the phenomenon may be prevalent in a variety of genetically modified crops. It is hoped to provide a reference for the safety evaluation of genetically modified crops.