The PathwayGenerator (PG) web-interface was created using the mammalian neuronal cell signaling network
extracted from literature by Avi Ma'ayan
and members of the Iyengar lab
at Mount Sinai School of Medicine
between 2003 and 2006. A paper
describing the topology of this network was published in Science
in 2005. The network contains mostly directed and signed links (i.e. activation/inhibition with source and target nodes specified).
Using Dijkstra's shortest path algorithm
, we searched for pathways starting from ligand-receptor interactions to reach effector proteins in a limited number of steps. The search was directed such that the flow must follow the orientation of the arrows. In total, approximately 5,000 pathways were created and can be visualized here. An implementation of the algorithm is provided with the SNAVI
source code. If you wish to create a similar web-based interface for a different network, this can be achieved with SNAVI
, published in BMC Systems Biology
in 2009. Thank you for trying PG.
Please choose a pathway option: