Table 1.
The results of the methods for the Breast Cancer network instances generated using the phosphoproteomic data in [11].
The performance of the message passing algorithm [3] and the proposed method are respectively displayed under MSGP [3] and PCSF for ω = {1, 2}. The OBJ column reports the quality of the solutions (objective function values) obtained by the methods, and the running times of the algorithms are displayed under t(s) in seconds. The average statistics of 10 runs provided by both algorithms are reported for each instance.
Fig 1.
Functional enrichment analysis of the final subnetwork using the EnrichR API.
The node sizes and edge widths are proportional to the amount of times that node or edge appeared in the noisy runs. Nodes are colored according to cluster membership. As in the EnrichR API, the p-value is calculated using the Fisher test and adjusted for multiple hypotheses. The top 15 functional enrichment terms for each cluster are ranked according to the adjusted p-value and displayed in a tabular format when the mouse hovers over a node in that cluster. Each cluster can be visualized separately by “Select by group” icon located at the top of the figure.