Correlation metric construction

Arkin, A., Slien, P., and Ross, J., 1997. A test case of correlation metric construction of a reaction pathway from measurements. Science 277 1275-1279. 

We begin with the demonstration and explanation of this approach by analyzing some abstract reaction models. In chapter 8 we show the utility of this correlation metric construction (CMC) with application to time-series measurements on a part of glycolysis, and in chapter 13 on an extensive genome study. 

A number of caveats, improvements, and new directions are apparent. Correlation metric construction is a statistical analysis, hence care must be exercised to take into account the significance of all the calculated correlations. If we ignore any error in the... 

Experimental Test and Applications of Correlation Metric Construction... 

In this chapter we present an experimental test case of the deduction of a reaction pathway and mechanism by means of correlation metric construction from time-series measurements of the concentrations of chemical species [1], We choose as the system an enzymatic reaction network, the initial steps of glycolysis (fig. 8.1). Glycolysis is central in intermediary metabolism and has a high degree of regulation [2]. The reaction pathway has been well studied and thus it is a good test for the theory. Further, the reaction mechanism of this part of glycolysis has been modeled extensively [3]. 

Most of the methods outlined above are suitable for obtaining information on oscillatory reaction networks. As pointed out in several other chapters in this book, related methods can be used for determination of causal connectivities of species and deduction of mechanims in general nonoscillatory networks. Pulses of species concentration by an arbitrary amount have been proposed (see chapter 5) and experimentally applied to glycolysis (see chapter 6). Random perturbation by a species can be used and the response evaluated by means of correlation functions (see chapter 7) this correlation metric construction method has also been tested (see chapter 8). Another approach to determining reaction mechanisms by finding Jacobian matrix elements is described in Mihaliuk et al. [69]. 

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