Firstly, the criticality of a task is evaluated using the proposed Weighted Proximity Prestige (WPP) index, which takes into account both the network structure and the dynamic urgency levels of response goals.
Both the network structure and the supporting evidence are stored in a MongoDB database (www.mongodb.org).
The reliable identification of essential genes in a biological network depends on both the network structure and the algorithm used to identify the essentiality of genes.
Thus, we refine the candidates of active regulatory networks, in terms of both the network structure by GCP and the extent of gene expression by enrichment probability.
In these situations, both the network structure and reaction kinetics are known, and the network model can be simulated using a system of ordinary differential equations (ODEs).
To achieve this, we report a procedure that simultaneously varies both the network structure and the mathematical operation that reproduces gene essentiality.
In order to evaluate the significance of the algorithm used to predict essential genes, it is necessary to vary both the network structure and the algorithm to predict essentiality.
However, none of the methods cited above had the purpose to visualize high-throughput data by computing a specific network layout based on the omics data themselves, which would combine both the network structure and the data associated to the network node attributes.
We conduct extensive experiments to show that the proposed sampling approach significantly outperforms several alternative methods in both retaining the network structures and preserving the information with a small set of sampling targets, suggesting the utility of the proposed method in various realistic settings.
We conduct extensive experiments and show that our proposed sampling approach significantly outperforms several alternative methods in both retaining the network structures and preserving the information with a small set of sampling targets, suggesting the utility of the proposed method in various realistic settings.
