Please enable JavaScript.
Coggle requires JavaScript to display documents.
Theory exploration - Coggle Diagram
Theory exploration
Rich-club phenomenon
Structure and dynamics of core/periphery networks
Peter Csermely, András London, Ling-Yun Wu, and Brian Uzzi
Ensembles of reference networks based on the rich- club structure for non-evolving networks
Raul J. Mondragon and Shi Zhou
introduce two types of ensemble networks (networks generated from existing networks, preserving properties such as node degree or rich-club coefficient) to generate null models that can be used as reference
- need more passes for this paper to fully understand
- observed that protein networks do not exhibit rich-club phenomenon on most connected proteins
- need more investigation if this fact can be used somehow
- note: reference networks are needed to ensure rich-club measurements are not due to chance;
basically to detect if a real underlying structure is present
-
-
The rich-club phenomenon across complex network hierarchies
Julian J. McAuley, Luciano da Fontoura Costa and Tib´erio S. Caetano
compute normalized rich-club coefficient of real-world networks for multiple values of k and hierarchy of networks (edges between level-2 neighbors, level-3, etc)
rich-club phenomenon observed in second order hierarchy of protein interaction network nodes (based on normalized coefficient)
-
- may be an observation on general structure of PPINs
- probably starting point for discovering core-periphery structures?
-
-
-
collection of results for rich-club metric measurements, different types of cores, nested networks, etc
can be used as general reference later, also list of open questions at the end can be investigated
Estimating degree–degree correlation and network cores from the connectivity of high–degree nodes in complex networks
R. J. Mondragón
more recent papers
On the Planarity of Validated Complexes of Model Organisms in Protein-Protein Interaction Networks
Kathryn Cooper, Nathan Cornelius, William Gasper, Sanjukta Bhowmick, and Hesham Ali
solution
investigate correlation between induced graphs of verified complexes and non-complexes with graph planarity
differentiation
-
results not yet conclusive, future work needed on more reliable PPINs and more organisms
-
benefits
novel potential seed for future computational methods if the correlation turns out to be significant