This signaling network is the reduced COSMOS network solution obtained in the cosmos test on 786-O NCI60 data. Here, this network solution is reused as an exemplary input prior knowledge network (PKN).
Usage
data(toy_network)Format
An object of class “data.frame” with 19 rows
(interactions) and three variables:
sourceSource node, either metabolite or protein
interactionType of interaction, 1 = Activation, -1 = Inhibition
targetTarget node, either metabolite or protein
A detailed description of the identifier formatting can be found under
https://metapkn.omnipathdb.org/00__README.txt.
Source
The network data are available on github: https://github.com/saezlab/COSMOS_MSB/tree/main/results/COSMOS_result/COSMOS_res_session.RData. The toy_network is the combined network of the COSMOS network solutions CARNIVAL_Result2 and CARNIVAL_Result_rerun subsequently reduced to 19 exemplary nodes.
References
Dugourd, A., Kuppe, C. and Sciacovelli, M. et. al. (2021) Molecular Systems Biology. 17, e9730.
Examples
data(toy_network)