Having established the within-modules conservation trend, we asked whether the modules themselves are conserved (in terms of membership) across the species.
With these modules, we first asked how the selection marker activity is affected by the relative arrangement and the activity of the gene expression cassette.
Next, we asked if individual module activation levels were correlated with distant metastasis free survival (DMFS).
During our study of SAGA we asked how this deubiquitination module is held within the complex.
In order to check the robustness of the pathway activity patterns in relation to the intrinsic subtype classification, we asked whether the identified modules showed the same pattern of variation in external independent cohorts.
Since zinc finger motif is a DNA-binding module (Klug and Rhodes, 1987), we ask if ZNF644 and WIZ associate with chromatin.
In light of such widespread changes, we asked whether particular gene co-expression modules were associated with DE.
Second, we asked fellows to self-assess their learning after each module and after the whole program.
Next, we asked if the known ID genes converge onto specific coexpression modules.
DOI: http://dx.doi.org/10.7554/eLife.01883.012 Similarly, we asked whether the septins, Bud6 and sphingolipids functioned upstream of the Bud1 module.
