A second yeast dataset was obtained from the DREAM5 website (synapse.org/#!Synapse:syn2787209/wiki/70349).
A large gene expression dataset was obtained from biological triplicates of Enchytraeus crypticus (a globally distributed soil organism used in standard ecotoxicity tests), sampled under 51 experimental conditions (42 treatments and 9 controls), involving exposure to several substances, at several concentrations and durations according to a factorial design (Supplementary Table S1).
The randomized dataset was obtained from RBS bank, starting in January 2005.
The first dataset was obtained from a 4,000 ha strip located on predominantly flat terrain (Table 1) within Kaingaroa forest in the central North Island.
The second dataset was obtained from the Stanford Network Analysis Project (SNAP), which is the Gnutella peer to peer network from 2002 with 6301 nodes and 20,777 edges [27].
It is calculated as the normalized dot product between vectors a and b: (text {sim}(mathbf {a}, mathbf {b})= cos (angle (mathbf {a},mathbf {b})) =frac {mathbf {a}cdot mathbf {b}}{|mathbf {a}|cdot |mathbf {b}|}). 2 The dataset was obtained from "For Academics" section, at http://help.sentiment140.com/for-students.
This dataset was obtained from a study on the effect of tree density on root distribution of hybrid poplar (Populus deltoides Marshall x P. nigra L. clones 'Veronese' and 'Tasman') growing on two nearby (<1 km apart) pastoral hill country sites at AgResearch's Ballantrae Hill Country Research Station near Palmerston North (Douglas et al. 2010).
Corresponding miR-124 overexpression dataset was obtained from [13].
The second dataset was obtained from Stadler et al. [30] (S-dataset).
The third dataset was obtained from Goren et al. [29] (G-dataset).
The first dataset was obtained from Ke et al. [40] (K-dataset).
