Abstract
Microarray analyses have provided opportunity to investigate quantitative information coded in the genome by measuring transcriptome, which records the decoded information from the genome. State of a cell and differences between other states can be studied through genome information, by comparing a set of transcriptome data to others. Clearly, those data should be shared and compared with researchers, and the knowledge should be integrated. However, there have been difficulties in data comparisons between experiments and laboratories. The barrier must be the lack of an universal framework that provide a set of common standard for data analysis.
A new framework that use thermodynamic model is introduced, by explaining the bases of the framework and the process of scientific testing. Additionally, differences of obtained results by the frameworks are presented by showing stability of log-ratio measurements and reproducibility of analyses. Artificial decoding of genome information is also mentioned.
