References
- Case studies: applying network controllability in cancer
- Kanhaiya, K., Czeizler, E., Gratie, C., Ion, P.: Controlling directed protein interaction networks in cancer.
Technical Report 1155, Turku Centre for Computer Science (2016)
- Target structural network controllability method that is the core of this pipeline
- Czeizler, E., Gratie, C., Chiu, W.K., Kanhaiya, K., Petre, I.: Target controllability of linear networks. In:
Bartocci, E., Lio, P., Paoletti, N. (eds.) Computational Methods in Systems Biology. Lecture Notes in
Bioinformatics, vol. 9859, pp. 67--81. Springer, (2016)
- The original paper inspiring our research direction: method to identify the set of driver nodes with the time-dependent control that can guide the system's entire dynamics.
- Liu, Y.-Y., Slotine, J.-J., Barabasi, A.-L.: Controllability of complex networks. Nature 473(7346), 167--173
(2011). doi:10.1038/nature10011
- Anduril pipeline framework: the underlying framework for our backend analysis pipeline
- Ovaska, K., Laakso, M., Haapa-Paananen, S., Louhimo, R., Chen, P., Aittoaki, V., Valo, E.: Large-scale data
integration framework provides a comprehensive view on glioblastoma multiforme. Genome medicine 2(9), 65
(2010). doi:10.1186/gm186
- Moksiskaan - the tool to integrate pathway data from different sources into comprehensive biomolecular networks
- Laakso, M., Hautaniemi, S.: Integrative platform to translate gene sets to networks. Bioinformatics 26,
1802--1803 (2010). doi:10.1093/bioinformatics/btq277