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Such information can be incorporated by including these genes in V C using a module extension procedure (see methods).
When some genes are excluded from the set of selected genes (often differentially expressed genes) due to marginal expression changes or for other reasons, the module extension procedure adapted in SSIM can incorporate them and increase the functional interpretability of gene modules without sacrificing the statistical significance of functional association of gene modules.
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(A) Flowchart of phase extension procedure.
Mutants were constructed using the single-overlap extension procedure.
Thus, for example, both may be determined by extension procedures.
As shown in Figure 11, Tripal modules are hierarchical, and can be classified into several layers: Core module, Chado modules, Extension modules and Application layers.
A layer above the Tripal Core and Chado modules are extension modules.
The TotalHill method also takes into account the neighboring links of lower centrality during the module-extension step.
They work by downloading modules — one module per procedure — consisting of 3D-rendered representations of the procedures.
Since eigengenes form a network, one can use a module detection procedure to identify modules comprised of eigengenes.
Even when modules are defined using a module detection procedure, cross-tabulation based approaches face potential pitfalls.
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