MetStaT (version 1.0)

RevNetZeroSlopes: Example data for RevNetZeroSlopesMethod

Description

The data provide an example for the Zero Slopes method to reverse engineer a metabolomic network. The matrix dataset contains measured metabolite concentrations at different times.

Usage

data(RevNetZeroSlopes)

Format

The format is: RevNetZeroSlopes, numerical matrix with dim(dataset) = 51 4 4. first dimension: time second dimension: metabolites third dimension: experiments

Source

Chassagnole, C., D. A. Fell, et al. (2001). "Control of the threonine-synthesis pathway in Escherichia coli: a theoretical and experimental approach." Biochemical Journal 356: 433-444.

Details

The dataset contains 4 experiments with the following initial conditions: experiment 1, metabolite 1 is 20% increased from steady state experiment 2, metabolite 2 is 20% increased from steady state experiment 3, metabolite 3 is 20% increased from steady state experiment 4, metabolite 4 is 20% increased from steady state

Running the example produces the vertex-edge matrix:

-1 1 0 0 1 -1 1 0 0 1 -1 0 0 0 1 -1

References

Reverse engineering of metabolic networks, a critical assessment. Diana M. Hendrickx, Margriet M. W. B. Hendriks, Paul H. C. Eilers, Age K. Smilde and Huub C. J. Hoefsloot. Mol. BioSyst, Volume 7:2 (2011) pages 511-520