{ "graph_id": "Reactome_Automat", "graph_name": "Reactome", "graph_description": "REACTOME is an open-source, open access, manually curated and peer-reviewed pathway database. Our goal is to provide intuitive bioinformatics tools for the visualization, interpretation and analysis of pathway knowledge to support basic and clinical research, genome analysis, modeling, systems biology and education.", "graph_url": "https://reactome.org/", "graph_version": "daa56e23aecd8900", "sources": [ { "source_id": "Reactome", "source_version": "V95", "parsing_version": "1.4", "supplementation_version": "1.1", "normalization_scheme": { "node_normalization_version": "2025sep1", "edge_normalization_version": "v4.3.6", "normalization_code_version": "1.4", "conflation": false, "strict": true }, "release_version": "c88ff019e607b1f0", "merge_strategy": null, "edge_merging_attributes": null, "edge_id_addition": false, "normalization_version": "2025sep1_v4.3.6_1.4_strict", "infores:reactome": { "id": "infores:reactome", "name": "Reactome", "description": "Reactome is a free, open-source, curated and peer-reviewed pathway database", "url": "https://reactome.org/", "attribution": "https://reactome.org/", "citation": "https://doi.org/10.1093/nar/gkad1025", "license": "CC0 1.0", "contentUrl": "https://reactome.org/", "fullCitation": "Milacic M, Beavers D, Conley P, Gong C, Gillespie M, Griss J, Haw R, Jassal B, Matthews L, May B, Petryszak R, Ragueneau E, Rothfels K, Sevilla C, Shamovsky V, Stephan R, Tiwari K, Varusai T, Weiser J, Wright A, Wu G, Stein L, Hermjakob H, D\u2019Eustachio P. The Reactome Pathway Knowledgebase 2024. Nucleic Acids Research. 2024. doi: 10.1093/nar/gkad1025" }, "normalized_nodes.jsonl": { "nodes": 129183 }, "normalized_edges.jsonl": { "edges": 634852 } }, { "source_id": "OntologicalHierarchy", "source_version": "2025-11-02", "parsing_version": "1.5", "supplementation_version": "1.1", "normalization_scheme": { "node_normalization_version": "2025sep1", "edge_normalization_version": "v4.3.6", "normalization_code_version": "1.4", "conflation": false, "strict": true }, "release_version": "e855b13b685fa645", "merge_strategy": "connected_edge_subset", "edge_merging_attributes": null, "edge_id_addition": false, "normalization_version": "2025sep1_v4.3.6_1.4_strict", "infores:ubergraph": { "id": "infores:ubergraph", "name": "Ubergraph Subclass Relationships", "description": "Subclass relationships from the redundant version of Ubergraph.", "url": "https://github.com/INCATools/ubergraph", "attribution": "https://github.com/INCATools/ubergraph", "citation": "https://doi.org/10.5281/zenodo.7249759", "license": "https://raw.githubusercontent.com/INCATools/ubergraph/master/LICENSE.txt", "contentUrl": "https://github.com/INCATools/ubergraph", "fullCitation": "Balhoff, J. P., Bayindir, U., Caron, A. R., Matentzoglu, N., Osumi-Sutherland, D., & Mungall, C. J. (2022, September 28). Ubergraph: integrating OBO ontologies into a unified semantic graph. ICBO 2022: International Conference on Biomedical Ontology (ICBO), Ann Arbor, Michigan, USA." }, "normalized_edges.jsonl": { "edges": 811298 }, "normalized_nodes.jsonl": { "nodes": 372135 } } ], "subgraphs": [], "build_status": "stable", "build_time": "2026-02-06T09:58:42", "build_error": null, "final_node_count": 501318, "final_edge_count": 1289423, "merged_nodes": 0, "merged_edges": 0, "unmerged_edge_count": 0, "qc_results": { "pass": true, "warnings": {}, "errors": {}, "primary_knowledge_sources": [ "infores:reactome", "infores:ubergraph" ], "aggregator_knowledge_sources": [], "node_curie_prefixes": { "UniProtKB": 184428, "REACT": 105571, "PR": 79548, "CHEBI": 71792, "MONDO": 25789, "GO": 17640, "UMLS": 11782, "HP": 3062, "NCBIGene": 802, "CL": 460, "NCIT": 240, "EFO": 105, "DOID": 32, "OMIM": 28, "UBERON": 23, "MESH": 9, "PUBCHEM.COMPOUND": 4, "UNII": 2, "ENSEMBL": 1 }, "node_types": [ { "type": [ "biolink:Protein" ], "count": 263976 }, { "type": [ "biolink:MolecularActivity" ], "count": 87648 }, { "type": [ "biolink:SmallMolecule" ], "count": 65947 }, { "type": [ "biolink:Disease" ], "count": 37906 }, { "type": [ "biolink:Pathway" ], "count": 21315 }, { "type": [ "biolink:BiologicalProcess" ], "count": 13733 }, { "type": [ "biolink:ChemicalEntity" ], "count": 4733 }, { "type": [ "biolink:PhenotypicFeature" ], "count": 3108 }, { "type": [ "biolink:MolecularMixture" ], "count": 1095 }, { "type": [ "biolink:Gene" ], "count": 803 }, { "type": [ "biolink:CellularComponent" ], "count": 540 }, { "type": [ "biolink:Cell" ], "count": 463 }, { "type": [ "biolink:ChemicalMixture" ], "count": 23 }, { "type": [ "biolink:AnatomicalEntity" ], "count": 19 }, { "type": [ "biolink:GrossAnatomicalStructure" ], "count": 9 } ], "node_properties": [ "category", "definition", "equivalent_identifiers", "id", "information_content", "name", "url" ], "predicate_totals": { "biolink:subclass_of": 790615, "biolink:occurs_in": 251035, "biolink:has_input": 99582, "biolink:has_output": 78522, "biolink:precedes": 65640, "biolink:disease_has_basis_in": 3006, "biolink:has_part": 704, "biolink:affects": 273, "biolink:located_in": 46 }, "edges_with_publications": {}, "edge_properties": [ "agent_type", "complex_context", "knowledge_level", "object", "object_aspect_qualifier", "object_direction_qualifier", "original_object", "original_subject", "predicate", "primary_knowledge_source", "qualified_predicate", "subject" ], "s-p-o_types": [ { "subject_type": [ "biolink:Protein" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalEntity" ], "count": 343230 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:Pathway" ], "count": 83548 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_input", "object_type": [ "biolink:SmallMolecule" ], "count": 63414 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:Pathway" ], "count": 19403 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Disease" ], "count": 132178 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalEntity" ], "count": 134773 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:MolecularActivity" ], "count": 4231 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:SmallMolecule" ], "count": 32068 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:CellularComponent" ], "count": 124847 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_input", "object_type": [ "biolink:Protein" ], "count": 32724 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:precedes", "object_type": [ "biolink:MolecularActivity" ], "count": 64588 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_output", "object_type": [ "biolink:SmallMolecule" ], "count": 62448 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:CellularComponent" ], "count": 13394 }, { "subject_type": [ "biolink:Protein" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Protein" ], "count": 65508 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_output", "object_type": [ "biolink:Protein" ], "count": 15085 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:MolecularActivity" ], "count": 711 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_output", "object_type": [ "biolink:ChemicalEntity" ], "count": 970 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:BiologicalProcess" ], "count": 42890 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:BiologicalProcess" ], "count": 3893 }, { "subject_type": [ "biolink:ChemicalEntity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:SmallMolecule" ], "count": 1640 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:BiologicalProcess" ], "count": 11102 }, { "subject_type": [ "biolink:PhenotypicFeature" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Disease" ], "count": 3721 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:PhenotypicFeature" ], "count": 880 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:precedes", "object_type": [ "biolink:Pathway" ], "count": 790 }, { "subject_type": [ "biolink:ChemicalEntity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalEntity" ], "count": 7069 }, { "subject_type": [ "biolink:Cell" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Cell" ], "count": 537 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:BiologicalProcess" ], "count": 1718 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Pathway" ], "count": 3364 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_input", "object_type": [ "biolink:Gene" ], "count": 1814 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:BiologicalProcess" ], "count": 5890 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_input", "object_type": [ "biolink:ChemicalEntity" ], "count": 1581 }, { "subject_type": [ "biolink:MolecularMixture" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:SmallMolecule" ], "count": 805 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:has_part", "object_type": [ "biolink:Protein" ], "count": 640 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Pathway" ], "count": 118 }, { "subject_type": [ "biolink:Protein" ], "predicate": "biolink:affects", "object_type": [ "biolink:Protein" ], "count": 264 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:disease_has_basis_in", "object_type": [ "biolink:MolecularActivity" ], "count": 2141 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:Pathway" ], "count": 931 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:disease_has_basis_in", "object_type": [ "biolink:Pathway" ], "count": 839 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:BiologicalProcess" ], "count": 244 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:precedes", "object_type": [ "biolink:BiologicalProcess" ], "count": 24 }, { "subject_type": [ "biolink:ChemicalMixture" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalEntity" ], "count": 24 }, { "subject_type": [ "biolink:MolecularMixture" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalEntity" ], "count": 739 }, { "subject_type": [ "biolink:CellularComponent" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:CellularComponent" ], "count": 1305 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:precedes", "object_type": [ "biolink:Pathway" ], "count": 51 }, { "subject_type": [ "biolink:CellularComponent" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:AnatomicalEntity" ], "count": 388 }, { "subject_type": [ "biolink:ChemicalEntity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Protein" ], "count": 6 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:precedes", "object_type": [ "biolink:BiologicalProcess" ], "count": 187 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:has_part", "object_type": [ "biolink:SmallMolecule" ], "count": 46 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:CellularComponent" ], "count": 349 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:disease_has_basis_in", "object_type": [ "biolink:BiologicalProcess" ], "count": 26 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_input", "object_type": [ "biolink:MolecularMixture" ], "count": 46 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:MolecularMixture" ], "count": 21 }, { "subject_type": [ "biolink:Cell" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:AnatomicalEntity" ], "count": 67 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:has_part", "object_type": [ "biolink:Gene" ], "count": 12 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:located_in", "object_type": [ "biolink:Cell" ], "count": 27 }, { "subject_type": [ "biolink:Protein" ], "predicate": "biolink:located_in", "object_type": [ "biolink:Cell" ], "count": 16 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalMixture" ], "count": 5 }, { "subject_type": [ "biolink:AnatomicalEntity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:CellularComponent" ], "count": 5 }, { "subject_type": [ "biolink:CellularComponent" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:GrossAnatomicalStructure" ], "count": 25 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:affects", "object_type": [ "biolink:Protein" ], "count": 9 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Protein" ], "count": 1 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:has_part", "object_type": [ "biolink:ChemicalEntity" ], "count": 6 }, { "subject_type": [ "biolink:GrossAnatomicalStructure" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:AnatomicalEntity" ], "count": 3 }, { "subject_type": [ "biolink:ChemicalMixture" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalMixture" ], "count": 7 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_input", "object_type": [ "biolink:ChemicalMixture" ], "count": 3 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_output", "object_type": [ "biolink:MolecularMixture" ], "count": 18 }, { "subject_type": [ "biolink:Protein" ], "predicate": "biolink:located_in", "object_type": [ "biolink:GrossAnatomicalStructure" ], "count": 2 }, { "subject_type": [ "biolink:GrossAnatomicalStructure" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:GrossAnatomicalStructure" ], "count": 6 }, { "subject_type": [ "biolink:MolecularMixture" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:MolecularMixture" ], "count": 3 }, { "subject_type": [ "biolink:ChemicalEntity" ], "predicate": "biolink:located_in", "object_type": [ "biolink:Cell" ], "count": 1 }, { "subject_type": [ "biolink:MolecularMixture" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalMixture" ], "count": 1 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:PhenotypicFeature" ], "count": 2 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_output", "object_type": [ "biolink:Gene" ], "count": 1 } ], "source_breakdown": [ { "aggregator": [ null ], "breakdown": { "infores:ubergraph": { "node_count": 384423, "edge_count": 774913, "subject_prefixes": { "UniProtKB": 313342, "CHEBI": 177164, "PR": 95396, "MONDO": 85359, "GO": 51599, "UMLS": 46363, "HP": 3698, "NCIT": 894, "CL": 604, "EFO": 317, "DOID": 104, "OMIM": 53, "UBERON": 14, "MESH": 6 }, "subject_types": [ { "type": [ "biolink:Protein" ], "count": 408738 }, { "type": [ "biolink:SmallMolecule" ], "count": 166870 }, { "type": [ "biolink:Disease" ], "count": 133058 }, { "type": [ "biolink:BiologicalProcess" ], "count": 42874 }, { "type": [ "biolink:ChemicalEntity" ], "count": 8715 }, { "type": [ "biolink:MolecularActivity" ], "count": 4231 }, { "type": [ "biolink:PhenotypicFeature" ], "count": 3721 }, { "type": [ "biolink:Pathway" ], "count": 2791 }, { "type": [ "biolink:CellularComponent" ], "count": 1718 }, { "type": [ "biolink:MolecularMixture" ], "count": 1548 }, { "type": [ "biolink:Cell" ], "count": 604 }, { "type": [ "biolink:ChemicalMixture" ], "count": 31 }, { "type": [ "biolink:GrossAnatomicalStructure" ], "count": 9 }, { "type": [ "biolink:AnatomicalEntity" ], "count": 5 } ], "predicates": { "biolink:subclass_of": 774913 }, "object_prefixes": { "CHEBI": 520385, "MONDO": 134867, "GO": 51132, "PR": 37399, "UniProtKB": 28116, "UMLS": 1087, "HP": 806, "CL": 530, "UBERON": 481, "NCIT": 58, "EFO": 28, "MESH": 24 }, "object_types": [ { "type": [ "biolink:ChemicalEntity" ], "count": 485835 }, { "type": [ "biolink:Disease" ], "count": 135899 }, { "type": [ "biolink:Protein" ], "count": 65515 }, { "type": [ "biolink:BiologicalProcess" ], "count": 44115 }, { "type": [ "biolink:SmallMolecule" ], "count": 34513 }, { "type": [ "biolink:MolecularActivity" ], "count": 4231 }, { "type": [ "biolink:Pathway" ], "count": 1550 }, { "type": [ "biolink:CellularComponent" ], "count": 1310 }, { "type": [ "biolink:PhenotypicFeature" ], "count": 882 }, { "type": [ "biolink:Cell" ], "count": 537 }, { "type": [ "biolink:AnatomicalEntity" ], "count": 458 }, { "type": [ "biolink:GrossAnatomicalStructure" ], "count": 31 }, { "type": [ "biolink:MolecularMixture" ], "count": 24 }, { "type": [ "biolink:ChemicalMixture" ], "count": 13 } ], "s-p-o_types": [ { "subject_type": [ "biolink:Protein" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalEntity" ], "count": 343230 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Disease" ], "count": 132178 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalEntity" ], "count": 134773 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:MolecularActivity" ], "count": 4231 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:SmallMolecule" ], "count": 32068 }, { "subject_type": [ "biolink:Protein" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Protein" ], "count": 65508 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:BiologicalProcess" ], "count": 42874 }, { "subject_type": [ "biolink:ChemicalEntity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:SmallMolecule" ], "count": 1640 }, { "subject_type": [ "biolink:PhenotypicFeature" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Disease" ], "count": 3721 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:PhenotypicFeature" ], "count": 880 }, { "subject_type": [ "biolink:ChemicalEntity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalEntity" ], "count": 7069 }, { "subject_type": [ "biolink:Cell" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Cell" ], "count": 537 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Pathway" ], "count": 1550 }, { "subject_type": [ "biolink:MolecularMixture" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:SmallMolecule" ], "count": 805 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:BiologicalProcess" ], "count": 1241 }, { "subject_type": [ "biolink:ChemicalMixture" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalEntity" ], "count": 24 }, { "subject_type": [ "biolink:MolecularMixture" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalEntity" ], "count": 739 }, { "subject_type": [ "biolink:CellularComponent" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:CellularComponent" ], "count": 1305 }, { "subject_type": [ "biolink:CellularComponent" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:AnatomicalEntity" ], "count": 388 }, { "subject_type": [ "biolink:ChemicalEntity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Protein" ], "count": 6 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:MolecularMixture" ], "count": 21 }, { "subject_type": [ "biolink:Cell" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:AnatomicalEntity" ], "count": 67 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalMixture" ], "count": 5 }, { "subject_type": [ "biolink:AnatomicalEntity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:CellularComponent" ], "count": 5 }, { "subject_type": [ "biolink:CellularComponent" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:GrossAnatomicalStructure" ], "count": 25 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Protein" ], "count": 1 }, { "subject_type": [ "biolink:GrossAnatomicalStructure" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:AnatomicalEntity" ], "count": 3 }, { "subject_type": [ "biolink:ChemicalMixture" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalMixture" ], "count": 7 }, { "subject_type": [ "biolink:GrossAnatomicalStructure" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:GrossAnatomicalStructure" ], "count": 6 }, { "subject_type": [ "biolink:MolecularMixture" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:MolecularMixture" ], "count": 3 }, { "subject_type": [ "biolink:MolecularMixture" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:ChemicalMixture" ], "count": 1 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:PhenotypicFeature" ], "count": 2 } ] }, "infores:reactome": { "node_count": 129183, "edge_count": 514510, "subject_prefixes": { "REACT": 507704, "MONDO": 3710, "GO": 2777, "UniProtKB": 282, "CHEBI": 37 }, "subject_types": [ { "type": [ "biolink:MolecularActivity" ], "count": 461699 }, { "type": [ "biolink:Pathway" ], "count": 47167 }, { "type": [ "biolink:Disease" ], "count": 3710 }, { "type": [ "biolink:BiologicalProcess" ], "count": 1615 }, { "type": [ "biolink:Protein" ], "count": 282 }, { "type": [ "biolink:SmallMolecule" ], "count": 36 }, { "type": [ "biolink:ChemicalEntity" ], "count": 1 } ], "predicates": { "biolink:occurs_in": 251035, "biolink:has_input": 99582, "biolink:has_output": 78522, "biolink:precedes": 65640, "biolink:subclass_of": 15702, "biolink:disease_has_basis_in": 3006, "biolink:has_part": 704, "biolink:affects": 273, "biolink:located_in": 46 }, "object_prefixes": { "REACT": 172789, "GO": 162594, "CHEBI": 128491, "UniProtKB": 48722, "NCBIGene": 1824, "CL": 44, "PUBCHEM.COMPOUND": 28, "UNII": 13, "ENSEMBL": 3, "UBERON": 2 }, "object_types": [ { "type": [ "biolink:CellularComponent" ], "count": 138590 }, { "type": [ "biolink:SmallMolecule" ], "count": 125908 }, { "type": [ "biolink:Pathway" ], "count": 107494 }, { "type": [ "biolink:MolecularActivity" ], "count": 67440 }, { "type": [ "biolink:Protein" ], "count": 48722 }, { "type": [ "biolink:BiologicalProcess" ], "count": 21859 }, { "type": [ "biolink:ChemicalEntity" ], "count": 2557 }, { "type": [ "biolink:Gene" ], "count": 1827 }, { "type": [ "biolink:MolecularMixture" ], "count": 64 }, { "type": [ "biolink:Cell" ], "count": 44 }, { "type": [ "biolink:ChemicalMixture" ], "count": 3 }, { "type": [ "biolink:GrossAnatomicalStructure" ], "count": 2 } ], "s-p-o_types": [ { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:Pathway" ], "count": 83548 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_input", "object_type": [ "biolink:SmallMolecule" ], "count": 63414 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:Pathway" ], "count": 19403 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:CellularComponent" ], "count": 124847 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_input", "object_type": [ "biolink:Protein" ], "count": 32724 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:precedes", "object_type": [ "biolink:MolecularActivity" ], "count": 64588 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_output", "object_type": [ "biolink:SmallMolecule" ], "count": 62448 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:CellularComponent" ], "count": 13394 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_output", "object_type": [ "biolink:Protein" ], "count": 15085 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:MolecularActivity" ], "count": 711 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_output", "object_type": [ "biolink:ChemicalEntity" ], "count": 970 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:BiologicalProcess" ], "count": 3893 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:BiologicalProcess" ], "count": 9861 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:precedes", "object_type": [ "biolink:Pathway" ], "count": 790 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:BiologicalProcess" ], "count": 1718 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_input", "object_type": [ "biolink:Gene" ], "count": 1814 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:BiologicalProcess" ], "count": 5890 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_input", "object_type": [ "biolink:ChemicalEntity" ], "count": 1581 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:has_part", "object_type": [ "biolink:Protein" ], "count": 640 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Pathway" ], "count": 118 }, { "subject_type": [ "biolink:Protein" ], "predicate": "biolink:affects", "object_type": [ "biolink:Protein" ], "count": 264 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:disease_has_basis_in", "object_type": [ "biolink:MolecularActivity" ], "count": 2141 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:Pathway" ], "count": 931 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:disease_has_basis_in", "object_type": [ "biolink:Pathway" ], "count": 839 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:BiologicalProcess" ], "count": 244 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:precedes", "object_type": [ "biolink:BiologicalProcess" ], "count": 24 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:precedes", "object_type": [ "biolink:Pathway" ], "count": 51 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:Pathway" ], "count": 1814 }, { "subject_type": [ "biolink:Pathway" ], "predicate": "biolink:precedes", "object_type": [ "biolink:BiologicalProcess" ], "count": 187 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:has_part", "object_type": [ "biolink:SmallMolecule" ], "count": 46 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:occurs_in", "object_type": [ "biolink:CellularComponent" ], "count": 349 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:disease_has_basis_in", "object_type": [ "biolink:BiologicalProcess" ], "count": 26 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_input", "object_type": [ "biolink:MolecularMixture" ], "count": 46 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:has_part", "object_type": [ "biolink:Gene" ], "count": 12 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:located_in", "object_type": [ "biolink:Cell" ], "count": 27 }, { "subject_type": [ "biolink:Protein" ], "predicate": "biolink:located_in", "object_type": [ "biolink:Cell" ], "count": 16 }, { "subject_type": [ "biolink:BiologicalProcess" ], "predicate": "biolink:subclass_of", "object_type": [ "biolink:BiologicalProcess" ], "count": 16 }, { "subject_type": [ "biolink:SmallMolecule" ], "predicate": "biolink:affects", "object_type": [ "biolink:Protein" ], "count": 9 }, { "subject_type": [ "biolink:Disease" ], "predicate": "biolink:has_part", "object_type": [ "biolink:ChemicalEntity" ], "count": 6 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_input", "object_type": [ "biolink:ChemicalMixture" ], "count": 3 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_output", "object_type": [ "biolink:MolecularMixture" ], "count": 18 }, { "subject_type": [ "biolink:Protein" ], "predicate": "biolink:located_in", "object_type": [ "biolink:GrossAnatomicalStructure" ], "count": 2 }, { "subject_type": [ "biolink:ChemicalEntity" ], "predicate": "biolink:located_in", "object_type": [ "biolink:Cell" ], "count": 1 }, { "subject_type": [ "biolink:MolecularActivity" ], "predicate": "biolink:has_output", "object_type": [ "biolink:Gene" ], "count": 1 } ] } } } ], "predicates_by_knowledge_source": { "infores:ubergraph": { "biolink:subclass_of": 774913 }, "infores:reactome": { "biolink:occurs_in": 251035, "biolink:has_input": 99582, "biolink:has_output": 78522, "biolink:precedes": 65640, "biolink:subclass_of": 15702, "biolink:disease_has_basis_in": 3006, "biolink:has_part": 704, "biolink:affects": 273, "biolink:located_in": 46 } } }, "neo4j_dump": "https://stars.renci.org/var/plater/graphs/Reactome_Automat/daa56e23aecd8900/neo4j.dump", "memgraph_dump": "https://stars.renci.org/var/plater/graphs/Reactome_Automat/daa56e23aecd8900/memgraph.cypher" }