{
  "@id": "https://kgx-storage.rtx.ai/releases/semmeddb/2026_04_21/",
  "@type": "sc:Dataset",
  "name": "semmeddb",
  "description": "A knowledge graph built for the NCATS Biomedical Data Translator project using Translator-Ingests, Biolink Model, and Node Normalizer.",
  "license": "MIT",
  "url": "https://kgx-storage.rtx.ai/releases/semmeddb/2026_04_21/",
  "version": "semmeddb_semmeddb-2023-kg2.10.3_e250939a_2025sep1_4.3.6",
  "dateCreated": "2026_04_21",
  "biolinkVersion": "4.3.6",
  "babelVersion": "2025sep1",
  "distribution": [
    {
      "@id": "semmeddb.tar.xz",
      "@type": "cr:FileObject",
      "contentUrl": "semmeddb.tar.xz",
      "encodingFormat": "application/x-xz",
      "description": "Compressed tar archive containing the KGX files: nodes.jsonl and edges.jsonl"
    }
  ],
  "isBasedOn": [
    {
      "id": "semmeddb",
      "name": "SemMedDB Minimal Reference Ingest Guide (RIG)",
      "description": "Literature-derived semantic predications extracted by SemRep from PubMed; this RIG documents a post-processed RTX-KG2 edges subset rather than a raw MySQL ingest.",
      "license": "",
      "url": [
        "SemMedDB (original NLM source behind SemRep; not the file this ingest reads directly): https://lhncbc.nlm.nih.gov/temp/SemRep_SemMedDB_SKR/SemMedDB_download.html",
        "RTX-KG2 public SemMedDB edges slice (gzipped JSONL \u2014 this is what translator-ingests downloads): https://rtx-kg2-public.s3.us-west-2.amazonaws.com/kg2.10.3-semmeddb-edges.jsonl.gz RTX-KG2 has already projected SemMedDB predications into Biolink-shaped edges (predicate, publications, publications_info, kg2_ids, optional qualifiers, domain_range_exclusion). This pipeline transforms that slice with Koza; it does not ingest raw SemMedDB MySQL dumps."
      ],
      "version": "semmeddb-2023-kg2.10.3"
    }
  ],
  "schema": {
    "nodes": [
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        "category": [
          "biolink:SmallMolecule"
        ],
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        "id_prefixes": {
          "CHEBI": 4090,
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          "PUBCHEM.COMPOUND": 675
        },
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          "information_content": 4076,
          "description": 2471
        }
      },
      {
        "category": [
          "biolink:SmallMolecule",
          "biolink:Drug"
        ],
        "count": 1804,
        "id_prefixes": {
          "CHEBI": 1645,
          "UNII": 144,
          "PUBCHEM.COMPOUND": 15
        },
        "attributes": {
          "name": 1804,
          "equivalent_identifiers": 1804,
          "information_content": 1617,
          "description": 1274
        }
      },
      {
        "category": [
          "biolink:ChemicalEntity"
        ],
        "count": 4577,
        "id_prefixes": {
          "UMLS": 2506,
          "MESH": 1480,
          "CHEBI": 369,
          "UNII": 160,
          "DRUGBANK": 61,
          "DrugCentral": 1
        },
        "attributes": {
          "name": 4577,
          "equivalent_identifiers": 4577,
          "information_content": 368,
          "description": 289
        }
      },
      {
        "category": [
          "biolink:Drug"
        ],
        "count": 1158,
        "id_prefixes": {
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          "UNII": 213,
          "CHEBI": 134,
          "DRUGBANK": 46,
          "MESH": 15,
          "RXCUI": 13,
          "PUBCHEM.COMPOUND": 11,
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        },
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          "equivalent_identifiers": 1158,
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        }
      },
      {
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          "biolink:SmallMolecule"
        ],
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        },
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        }
      },
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        "category": [
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        ],
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        },
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        }
      },
      {
        "category": [
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        ],
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        },
        "attributes": {
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          "equivalent_identifiers": 4,
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          "description": 3
        }
      },
      {
        "category": [
          "biolink:Cell"
        ],
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        "id_prefixes": {
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          "CL": 221
        },
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        }
      },
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        ],
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        }
      },
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        "category": [
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        ],
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        },
        "attributes": {
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          "equivalent_identifiers": 62
        }
      },
      {
        "category": [
          "biolink:PhenotypicFeature"
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        "id_prefixes": {
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          "NCIT": 568,
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        },
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          "equivalent_identifiers": 4038,
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        }
      },
      {
        "category": [
          "biolink:BiologicalProcess"
        ],
        "count": 2338,
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        "attributes": {
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          "equivalent_identifiers": 2338,
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        }
      },
      {
        "category": [
          "biolink:MolecularActivity"
        ],
        "count": 995,
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          "GO": 274
        },
        "attributes": {
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          "equivalent_identifiers": 995,
          "information_content": 274,
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        }
      },
      {
        "category": [
          "biolink:CellularComponent"
        ],
        "count": 929,
        "id_prefixes": {
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        },
        "attributes": {
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          "equivalent_identifiers": 929,
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          "description": 717
        }
      },
      {
        "category": [
          "biolink:Gene"
        ],
        "count": 821,
        "id_prefixes": {
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          "HGNC": 8
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        "attributes": {
          "name": 821,
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        }
      },
      {
        "category": [
          "biolink:OrganismTaxon"
        ],
        "count": 5473,
        "id_prefixes": {
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        },
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      },
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          "biolink:Protein"
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        }
      },
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        ],
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        }
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        "category": [
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        ],
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        },
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      },
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        "category": [
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        ],
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        "id_prefixes": {
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          "UniProtKB": 12
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        }
      },
      {
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        ],
        "count": 100,
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        }
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      {
        "category": [
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        ],
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        },
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        }
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        }
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        }
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        }
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        }
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        },
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        }
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        }
      },
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