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To test whether the ModuLand method family can identify key network nodes, we calculated the change of network integrity [30] during the disintegration of the USA Western Power Grid network [31].
Given sets of nodes, we calculated the shortest-paths from a set of interest nodes to all other nodes in the network.
For bridging nodes, we calculated the betweenness centrality using algorithms implemented in the Cytoscape plugin NetworkAnalyzer [ 23] and then drew the betweenness distribution to define the point that the distribution began to reach its asymptote.
12 To evaluate the impact of excluding treatment nodes we calculated the relative change in the estimated treatment effects of the remaining treatments; changes in the top three ranked treatments, according to the probability of being best; and changes in the probability of being the best treatment for the top treatment of the full model.
In addition to the BC-ratio which is based on the betweenness centrality of the nodes, we calculated the SH-SY5Y integrity with the diseases and process in question using degree, closeness and flow (also known as "random walk") betweenness centralities [ 78, 80].
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To obtain information on the degree to which a single country i is integrated in the network with respect to vertical interaction with adjacent nodes, we calculate a centrality coefficient.
On the other hand, given a domain-domain interaction network of n nodes, we calculate the proximity between two domains using two measures: (1) shortest path with Gaussian kernel (SG) and (2) diffusion kernel (DK).
For each node, we calculated the variance of the estimated ages over all the runs.
Thus, for each node we calculated the clustering coefficient Cw, which is defined as the number of interactions between the neighbours of a single node divided by those that could possibly exist.
To determine the extent to which one character state received significantly more support over the other state at a particular node, we calculated the number of bootstrap replicates for which the ratio between the two proportional likelihood scores (e.g., L present/L absent) was greater than 7.4 [ 109].
If N is a boundary node, we calculate R h v ( N ) by linear extrapolation from the values of R h v already obtained at two neighboring interior nodes, N 1 and N 2 (with diagonal directions being used for edge nodes and corner nodes) (see Figure 2).
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com