Multiscale Embedded Gene Co-expression Network Analysis
Fig 2
Comparison of acceptance rates of correlation pairs into PFN links.
A,B) Results from PFN construction from TCGA lung squamous cell carcinoma (LUSC) data including 20523 genes. 57562 links out of maximal possible link number of 61563 are embedded. The left panel (A) shows the acceptance rates without PCP (denoted as “serial”, and colored as blue), and after performing PCP (denoted as “PCP”, and colored as red), as a function of number of links already embedded on the PFN, normalized by the maximum possible number of embedded links. The right panel (B) shows the ratio of acceptance rates after PCP to the acceptance rates without PCP is plotted as a function number of links already embedded on the PFN, normalized by the maximum possible number of embedded links. C,D) Results from TCGA thyroid carcinoma (THCA) data including 16639 genes. 44802 out of maximal possible link number of 49911 are embedded. The right and left panel show the same plots as described in the case of LUSC.