Explorer¶
Interactive maps for navigating the phosphoproteomics landscape. Switch between the Method Map (tool taxonomy) and the Biology Map (kinase-substrate-pathway-drug network).
Click a node to see details. Edges show data flow (tool A feeds into tool B). Drag nodes to rearrange.
Click a node to highlight connections. Edges show kinase-substrate, pathway membership, and drug-target relationships.
About These Maps¶
Method Map¶
Shows the data flow between tools in a phosphoproteomics analysis pipeline. Nodes are colored by category (identification, kinase inference, pathway reconstruction, functional scoring, databases, infrastructure). Edges indicate that one tool's output feeds into another tool's input.
Key patterns visible in the map:
- PhosphoSitePlus and OmniPath are central hubs — most kinase inference and pathway tools depend on them as prior knowledge sources
- decoupleR bridges kinase inference and pathway reconstruction by providing a unified API
- The Saez-Rodriguez lab ecosystem (OmniPath → decoupleR → CARNIVAL/COSMOS) forms a connected subgraph
Biology Map¶
Shows the biological relationships between kinases, substrates, pathways, drugs, and cancer types. This is a simplified representation of the signaling landscape that phosphoproteomics tools aim to reconstruct.
Key patterns:
- EGFR is a convergence point — targeted by osimertinib, activated in NSCLC/CRC/GBM, feeds into MAPK pathway
- Drug-kinase-cancer triangles show the therapeutic logic: cancer activates kinase, drug inhibits kinase
- Pathway nodes aggregate multiple kinases, showing how individual phosphorylation events connect to higher-order signaling programs