Exact(1)
The final binarized expression data for all genes g∈ G in samples n∈ N for a selected context or phenotype is represented as the expression matrix X| G |×| N |, where X g, n = {0,1} represents the presence of gene g in sample n; for our liver training data, | G| = 20,283.
Similar(59)
Based on the present state and the selected context, a gene's state is updated.
In the Swanson's ABC model, they selected context, curcumin as the A terms in an open discovery procedure.
An exception handler is triggered in a service component if it has an exception handler attached to the selected context and targeting the raised exception.
The state of a gene is updated in the selected context; thus the next state depends on both the present state and the selected context.
∅3: A random perturbation occurs and the currently selected context remains for the next transition.
For a switching probability of q in the proposed CSSBN, the currently selected context i remains at time t with a probability of q and switches to one of the k contexts with a probability of 1 - q.
This probability indicates the likelihood to maintain the current context i or to select a new context from the k contexts (including the currently selected context i).
Following [ 19], one of four mutually exclusive events occurs at time t in a CSPBN with perturbation: ∅1: The predictor functions in the currently selected context are applied to update the gene expressions and this context remains for the next transition.
As discussed previously, the state of a CSPBN can be represented as S = (context, x) by considering the selected context and GAP information.
We looked for functional enrichment of specific gene ontologies (GO) in the two selected context fear modules using the program GOEAST, which provides an FDR corrected Q value [ 36] score for enrichment in each category.
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