There are numerous ways for the identification of accidental changes in GM Foods’ composition, which may arise due to the genetic changes, such as comparative analysis of (chemical) GM and non GM foods. These ways of identification of alterations commonly include DNA/RNA microarrays, metabolomics and protein profiling methods. These profiling methods are very useful but still studies on sensitivity, specificity and substantiation are needed. Furthermore, bioinformatics studies may be quite useful for the successful application of these profiling methods to analyze the safety of genetically modified (GM) foods. These bioinformatic methods employ the comparison of different linked databases which may cover all the information significant for profiling. These methods are also significant in identifying the changes at various stages of development under diverse environmental conditions.