Abstract: With the rapid development of the genetically modified (GM) industry， the safety of GM foods gradually attracted peoples extensive attentions. The nutrition compounds of the GM crops might be changed and even generate some toxic compounds， caused by the unknown effects of exogenous genes， which might possess potential harmfulness to the health of human beings, animals and the environment. Therefore， to evaluate the unintended effects of exogenous genes is one of the most important contents of the safety assessment of GM foods. Because of potential unintended effects and nonpredictability of exogenous genes， the methods of orientation evaluation based on “substantial equivalence” is very difficult to fully take the genetic modification caused by the unintended effects into account.In current study， the distribution and mechanism of integration sites in transgenic plant was illuminated， as well the unintended effects that is possibly induced by GM crops， to compare the difference of gene expression between GM crops and nonGM crops using gene chip， quantitative proteomic analysis and metabolomics analysis technologies at mRNA， protein as well as metabolism levels will be a complementary scheme for the orientation evaluation in the process of food safety assessment and also crucial to the safety assessment of GM foods.

Key words: transgenic crops, unintended effects, microarray, proteome, metabolomics