depending on the choice of profiling platform with the huge amount of legacy data generated throughout the years based on former technologies the diversity of existing platforms and the emergence of new ones it can be advantageous to provide compatibility of data across various platforms breaking platform barriers means saving the cost of re profiling of samples in order to perform combined analysis it can also solve the backward compatibility problem and facilitate the adoption of new profiling technologies by allowing legacy data to be readily transformed for use with data from newer platforms specifically tremendous resources have been spent on microarray studies and it is desirable to transfer the knowledge and insights from these studies onto new platforms such as next generation sequencing ngs technologies embodiments of the present invention facilitate cross platform compatibility of gene expression data using models that transform expression data from one platform to another these embodiments can also in the clinical research setting be applied across different cohorts available to a clinical researcher in order to evaluate many signatures on a new cohort either by transforming the input data to the primary platform or by adapting the parameters of a signature to the alternative platforms with reference to fig1 one embodiment of a method in accord with the present invention for transforming gene expression data begins with the construction of a primary model step 100 for directly transforming expression data from a first profiling platform to a second profiling platform without an intermediate transformation the primary model may then be used to transform expression data from the first platform to the second platform step 104 however in some embodiments the.