Table 1.

Reverse engineering applications used in this study.

Name	Type	Info	Reference
ARACNe	relevance network with mutual information	C command line	Basso et al. [6]
ParCorA	relevance network with partial Pearson or Spearman correlation	C command line	de la Fuente et al. [18]
GNRevealer	neural network	C++ command line	Hache et al. [9]
Banjo	Bayesian network	Java command line	Yu et al. [13]
LDST	state space model	Matlab script	Rangel et al. [10]
GeneNet	graphical Gaussian model	R script	Schäfer and Strimmer [7]

The applications can be downloaded or obtained from the algorithm developers. See references for more details.