is an Aggregator.
The Human Metabolome Database (HMDB) is a comprehensive curated knowledgebase of small molecule metabolites found in the human body, integrating chemical, clinical, biochemical, spectral, and physiological data along with associated enzyme, transporter, and disease information to support metabolomics, biomarker discovery, systems biology, and precision medicine research.
Unknown
Unknown
Unknown
| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| hmdb.portal | HMDB Web Portal | www.hmdb.ca | GraphicalInterface | http | Web portal providing integrated searc... |
| hmdb.fasta.enzymes | HMDB Enzyme Protein Sequences (FASTA) | downloads#protein-gene-sequences | Product | fasta | All metabolite metabolizing enzyme pr... |
| hmdb.fasta.genes | HMDB Gene Sequences (FASTA) | downloads#protein-gene-sequences | Product | fasta | All metabolite metabolizing enzyme ge... |
| hmdb.structures.sdf | HMDB Metabolite Structures (SDF) | downloads#structures | Product | sdf | All metabolite structures (SDF) |
| hmdb.xml.metabolites | HMDB All Metabolites (XML) | downloads#metabolite-protein-xml | Product | xml | All metabolites dataset (XML) |
| hmdb.xml.proteins | HMDB All Proteins (XML) | downloads#metabolite-protein-xml | Product | xml | All proteins dataset (XML) |
| hmdb.xml.metabolites.urine | HMDB Urine Metabolites (XML) | downloads#metabolite-protein-xml | Product | xml | Urine metabolites subset (XML) |
| hmdb.xml.metabolites.serum | HMDB Serum Metabolites (XML) | downloads#metabolite-protein-xml | Product | xml | Serum metabolites subset (XML) |
| hmdb.xml.metabolites.csf | HMDB CSF Metabolites (XML) | downloads#metabolite-protein-xml | Product | xml | Cerebrospinal fluid (CSF) metabolites... |
| hmdb.xml.metabolites.saliva | HMDB Saliva Metabolites (XML) | downloads#metabolite-protein-xml | Product | xml | Saliva metabolites subset (XML) |
| hmdb.xml.metabolites.feces | HMDB Feces Metabolites (XML) | downloads#metabolite-protein-xml | Product | xml | Feces metabolites subset (XML) |
| hmdb.xml.metabolites.sweat | HMDB Sweat Metabolites (XML) | downloads#metabolite-protein-xml | Product | xml | Sweat metabolites subset (XML) |
| hmdb.spectra.mass.images | HMDB Mass Spectra Images | downloads#spectra | Product | ❔ | Mass spectra image files archive |
| hmdb.spectra.nmr.fid | HMDB NMR Spectra FID Files | downloads#spectra | Product | ❔ | NMR spectra FID files archive |
| hmdb.spectra.nmr.peaklist | HMDB NMR Peaklists (TXT) | downloads#spectra | Product | txt | Raw NMR peaklist text files archive |
| hmdb.spectra.gc.predicted.txt | HMDB GC-MS Predicted Peaklists (TXT) | downloads#spectra | Product | txt | Predicted GC-MS spectra peaklist text... |
| hmdb.spectra.msms.predicted.txt | HMDB MS-MS Predicted Peaklists (TXT) | downloads#spectra | Product | txt | Predicted MS-MS spectra peaklist text... |
| hmdb.spectra.msms.experimental.txt | HMDB MS-MS Experimental Peaklists (TXT) | downloads#spectra | Product | txt | Experimental MS-MS spectra peaklist t... |
| hmdb.spectra.all.peaklists | HMDB All Raw Spectra Peaklists (TXT) | downloads#spectra | Product | txt | All raw spectra peaklists (aggregated... |
| hmdb.spectra.nmr.xml | HMDB NMR Spectra (XML) | downloads#spectra | Product | xml | NMR spectra collection (XML) |
| hmdb.spectra.gc.predicted.xml | HMDB GC-MS Predicted Spectra (XML) | downloads#spectra | Product | xml | Predicted GC-MS spectra collection (XML) |
| hmdb.spectra.gc.experimental.xml | HMDB GC-MS Experimental Spectra (XML) | downloads#spectra | Product | xml | Experimental GC-MS spectra collection... |
| hmdb.spectra.msms.predicted.xml | HMDB MS-MS Predicted Spectra (XML) | downloads#spectra | Product | xml | Predicted MS-MS spectra collection (XML) |
| hmdb.spectra.msms.experimental.xml | HMDB MS-MS Experimental Spectra (XML) | downloads#spectra | Product | xml | Experimental MS-MS spectra collection... |
| hmdb.spectra.all.xml | HMDB All Spectra (XML) | downloads#spectra | Product | xml | All spectra files aggregate (XML) |
| clinicalkg.graph | CKG Graph Dump | 1 | GraphProduct | mixed | Neo4j database dump of the Clinical K... |
| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| automat.hmdb | hmdb_automat | 6715124699b6dbf0 | GraphProduct | kgx-jsonl | HMDB Automat |
Created: August 12, 2025 | Last modified: September 03, 2025