Here we compare the steady states reported by our method with the ones from the methods of Li et al. and Davidich et al. For this we use vector notation to represent the activity levels of an ordered gene set.
While previous work has demonstrated that unaltered amounts of 20 S proteasome proteins may still represent different activity levels due to altered proteasomal regulations [ 16], the metabolic activities were measured for the 20 S proteasome.
Each node in this graph represents a state of the network, i.e. a vector with its vector components representing the activity levels of all network components.
In these networks, components (e.g., genes or proteins) assume discrete values representing their activity levels (e.g., gene expression).
(D ) In the matrix shown, the number of circles represents the activity levels of MBONs in response to the CS+ odor (the odor that is paired with the unconditioned stimulus during conditioning) and the CS− odor (a control odor).
Abstract nouns also represent activities.
On a two-dimensional lattice of n identical hexagonal cells we let D k and N k, k = 1,..., n, represent the activity level of the two proteins Delta and Notch in cell number k.
Here, the regression coefficient β ϕ s represents the activity level of RBP ϕ for segregant s, whereas K ϕ g represents the aggregated affinity of the 5′ UTRs, ORFs, 3′ UTRs, or the complete mRNA sequence of gene g of the BY strain for the factor under consideration, as mentioned previously.
Now we will describe the way we pass from a sequence of terns <img src="http://journals.plos.org/plosone/article/asset?id=info?doi/10.1371/journal.pone.0003100.e044.PNG" class= inline-graphic"/> representing the mean amplitude, amplitude and angular speed of a given subsystem to a continuous function representing the activity level of the subsystem.
The rows of H in (1) are the encoding coefficients for the k metagenes of W. Entry h ij in H represents the activity level of metagene i in sample j of the dataset.
