is a Data Source.
The Small Molecule Pathway Database (SMPDB) is an interactive, visual database containing more than 30,000 small molecule pathways found in humans. SMPDB provides detailed pathway diagrams for metabolic pathways, metabolic disease pathways, metabolite signaling pathways, and drug-action pathways. All pathways include information on relevant organs, subcellular compartments, cofactors, protein locations, metabolite locations, chemical structures, and protein quaternary structures. Each small molecule is hyperlinked to HMDB or DrugBank and each protein is hyperlinked to UniProt.
pathways, biological systems, drug discovery, chemistry and biochemistry
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| ID | Name | URL | Category | Format | Relation | Description |
|---|---|---|---|---|---|---|
| clinicalkg.graph | CKG Graph Dump | 1 | GraphProduct | mixed | had primary source | Neo4j database dump of the Clinical K... |
| cancer-genome-interpreter.clinicalkg.graph | CKG Graph Dump | 1 | GraphProduct | mixed | had primary source | Neo4j database dump of the Clinical K... |
| unibiomap.links | UniBioMap Graph Links | unibiomap.links.csv (1.3 GB) | GraphProduct | csv | had primary source | Core UniBioMap graph edges file. |
| unibiomap.auxs | UniBioMap Graph Auxiliaries | unibiomap.auxs.tsv (563.9 MB) | GraphProduct | tsv | had primary source | Auxiliary UniBioMap graph annotations... |
| unibiomap.pred | UniBioMap Predicted Graph | unibiomap.pred.csv (2.3 GB) | GraphProduct | csv | had primary source | Predicted UniBioMap graph edges with ... |
| unibiomap.pred.full | UniBioMap Predicted Graph (Full) | unibiomap.pred.full.csv (5.9 GB) | GraphProduct | csv | had primary source | Full unfiltered UniBioMap predicted g... |
| ckg.graph | CKG Graph Database Dump | 1 | GraphProduct | neo4j | had primary source | Graph database dump and additional re... |
SMPDB is a comprehensive visual database of human small molecule pathways, providing detailed interactive pathway diagrams for metabolic, disease, signaling, and drug-action pathways with extensive molecular and structural annotations.
Created: December 03, 2025 | Last modified: December 03, 2025