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Detection of individual body time (BT) via a single-time-point assay has been a longstanding unfulfilled dream in medicine, because BT information can be exploited to maximize potency and minimize toxicity during drug administration and thus will enable highly optimized medication. To achieve this dream, we created a 'molecular timetable' composed of >100 'time-indicating genes,' whose gene expression levels can represent internal BT. Here we describe a robust method called the 'molecular-timetable method' for BT detection from a single-time-point expression profile. The power of this method is demonstrated by the sensitive and accurate detection of BT and the sensitive diagnosis of rhythm disorders. These results demonstrate the feasibility of BT detection based on single-time-point sampling, suggest the potential for expression-based diagnosis of rhythm disorders, and may translate functional genomics into chronotherapy and personalized medicine. DNA microarray | gene expression | chronotherapy

Highly parallel experimental biology is offering opportunities to not just accomplish work more easily, but to explore for underlying governing principles. Recent analysis of the large-scale organization of gene expression has revealed its complex and dynamic nature. However, the underlying dynamics that generate complex gene expression and cellular organization are not yet understood. To comprehensively and quantitatively elucidate these underlying gene expression dynamics, we have analyzed genome-wide gene expression in many experimental conditions in Escherichia coil, Saccharomyces cerevisiae, Arabidopsis thaliana, Drosophila melanogaster, Mus musculus, and Homo sapiens. Here we demonstrate that the gene expression dynamics follows the same and surprisingly simple principle from E. coli to human, where gene expression changes are proportional to their expression levels, and show that this 'proportional' dynamics or 'rich-travel-more' mechanism can regenerate the observed complex and dynamic organization of the transcriptome. These findings provide a universal principle in the regulation of gene expression, show how complex and dynamic organization can emerge from simple underlying dynamics, and demonstrate the flexibility of transcription across a wide range of expression levels. systems biology | DNA microarray | gene expression dynamics | transcription | transcriptional organization

Author(s): Hiroki R. Ueda (corresponding author) [1, 2]; Wenbin Chen [1]; Akihito Adachi [3]; Hisanori Wakamatsu [1]; Satoko Hayashi [1]; Tomohiro Takasugi [1]; Mamoru Nagano [3]; Ken-ichi Nakahama [3]; Yutaka [...]