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Integrative Analysis of Transcriptome and Metabolome Data

Biological systems have to react to environmental and/or developmental changes by adjusting their biochemical/cellular machinery on numerous levels. In many cases small molecules play a crucial role as signal molecules transmitting changes in state to receptor molecules which subsequently translate this into changes on various levels of the realization of genomic information. We here start out from the hypothesis that in most biological systems there are many more small molecules which also serve a signalling function than generally acknowledged. This hypothesis is based on three simple arguments, which present limitations in classical approaches to detect signalling molecules: In order to identify a signalling molecule one has to be able to monitor the response of the system under study towards this signal In order to identify a signalling molecule one has to be able to detect and quantify this molecule A third important point to consider is the fact that in many cases test for signalling molecules were performed by externally applying the putative signal molecule to the system. It is obvious that further problem linked to uptake and mobility of the compound arise during this approach. We therefore set out to design an experiment where we tried to largely overcome these three limitations. As to the response of the system we decided to use the transcriptional response as a readout.