is a Knowledge Graph.
The Monarch Initiative is an international consortium that leads key global standards and semantic data integration technologies. To maximize utility and impact, the Monarch platform is composed of multiple open-source, open-access components.
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Monarch Initiative Community: monarch-friends (site)
| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| kg-monarch.graph | KGX Distribution of KG-Monarch | monarch-kg.tar.gz (220.2 MB) | GraphProduct | kgx | KGX Distribution of KG-Monarch |
| kg-monarch.graph.jsonl.edges | KGX JSON-L Distribution of KG-Monarch Edges | monarch-kg_edges.jsonl (14.2 GB) | GraphProduct | kgx-jsonl | KGX JSON-Lines Distribution of KG-Mon... |
| kg-monarch.graph.jsonl.nodes | KGX JSON-L Distribution of KG-Monarch Nodes | monarch-kg_nodes.jsonl (1.1 GB) | GraphProduct | kgx-jsonl | KGX JSON-Lines Distribution of KG-Mon... |
| kg-monarch.graph.rdf | RDF Distribution of KG-Monarch | monarch-kg.nt.gz (838.5 MB) | GraphProduct | rdfxml | RDF Distribution of KG-Monarch |
| kg-monarch.graph.neo4j.edges | Neo4j Dump of KG-Monarch Edges | monarch-kg_edges.neo4j.csv (4.1 GB) | GraphProduct | neo4j | Neo4j Dump of KG-Monarch Edges |
| kg-monarch.graph.neo4j.nodes | Neo4j Dump of KG-Monarch Nodes | monarch-kg_nodes.neo4j.csv (333.4 MB) | GraphProduct | neo4j | Neo4j Dump of KG-Monarch Nodes |
| kg-monarch.graph.duckdb | DuckDB database of KG-Monarch | monarch-kg.duckdb (6.4 GB) | GraphProduct | ❔ | DuckDB database of KG-Monarch |
| kg-monarch.graph.jsonl | KGX JSON-L Distribution of KG-Monarch | monarch-kg.jsonl.tar.gz (301.0 MB) | GraphProduct | kgx-jsonl | KGX JSON-Lines Distribution of KG-Mon... |
| kg-monarch.graph.neo4j | Neo4j Dump of KG-Monarch | monarch-kg.neo4j.dump (1.3 GB) | GraphProduct | ❔ | Neo4j Dump of KG-Monarch |
| kg-monarch.associations.all | All Associations | association.all.tsv.gz (48.5 MB) | Product | tsv | All associations from the Monarch Kno... |
| kg-monarch.associations.causal_gene_to_disease | Causal Gene to Disease Associations | causal_gene_to_disease_association.all.tsv.gz (169.1 KB) | Product | tsv | Causal gene to disease associations |
| kg-monarch.associations.chemical_or_drug_to_disease | Chemical/Drug/Treatment to Disease/Phenotypic Feature Associations | chemical_or_drug_or_treatment_to_disease_or_phenotypic_feature_association.all.tsv.gz (19.1 KB) | Product | tsv | Chemical or drug or treatment to dise... |
| kg-monarch.associations.chemical_to_disease | Chemical to Disease/Phenotypic Feature Associations | chemical_to_disease_or_phenotypic_feature_association.all.tsv.gz (615.7 KB) | Product | tsv | Chemical to disease or phenotypic fea... |
| kg-monarch.associations.chemical_to_pathway | Chemical to Pathway Associations | chemical_to_pathway_association.all.tsv.gz (2.5 MB) | Product | tsv | Chemical to pathway associations |
| kg-monarch.associations.correlated_gene_to_disease | Correlated Gene to Disease Associations | correlated_gene_to_disease_association.all.tsv.gz (227.0 KB) | Product | tsv | Correlated gene to disease associations |
| kg-monarch.associations.disease_to_inheritance | Disease/Phenotypic Feature to Genetic Inheritance Associations | disease_or_phenotypic_feature_to_genetic_inheritance_association.all.tsv.gz (235.3 KB) | Product | tsv | Disease or phenotypic feature to gene... |
| kg-monarch.associations.disease_to_location | Disease/Phenotypic Feature to Location Associations | disease_or_phenotypic_feature_to_location_association.all.tsv.gz (21.5 KB) | Product | tsv | Disease or phenotypic feature to loca... |
| kg-monarch.associations.disease_to_phenotype | Disease to Phenotypic Feature Associations | disease_to_phenotypic_feature_association.all.tsv.gz (7.9 MB) | Product | tsv | Disease to phenotypic feature associa... |
| kg-monarch.associations.gene_to_expression_site | Gene to Expression Site Associations | gene_to_expression_site_association.all.tsv.gz (47.3 MB) | Product | tsv | Gene to expression site associations |
| kg-monarch.associations.gene_to_gene_homology | Gene to Gene Homology Associations | gene_to_gene_homology_association.all.tsv.gz (37.9 MB) | Product | tsv | Gene to gene homology associations |
| kg-monarch.associations.gene_to_pathway | Gene to Pathway Associations | gene_to_pathway_association.all.tsv.gz (6.0 MB) | Product | tsv | Gene to pathway associations |
| kg-monarch.associations.gene_to_phenotype | Gene to Phenotypic Feature Associations | gene_to_phenotypic_feature_association.all.tsv.gz (20.5 MB) | Product | tsv | Gene to phenotypic feature associations |
| kg-monarch.associations.genotype_to_disease | Genotype to Disease Associations | genotype_to_disease_association.all.tsv.gz (474.9 KB) | Product | tsv | Genotype to disease associations |
| kg-monarch.associations.genotype_to_gene | Genotype to Gene Associations | genotype_to_gene_association.all.tsv.gz (4.0 MB) | Product | tsv | Genotype to gene associations |
| kg-monarch.associations.genotype_to_phenotype | Genotype to Phenotypic Feature Associations | genotype_to_phenotypic_feature_association.all.tsv.gz (21.2 MB) | Product | tsv | Genotype to phenotypic feature associ... |
| kg-monarch.associations.genotype_to_variant | Genotype to Variant Associations | genotype_to_variant_association.all.tsv.gz (5.6 MB) | Product | tsv | Genotype to variant associations |
| kg-monarch.associations.macromolecular_machine_to_biological_process | Macromolecular Machine to Biological Process Associations | macromolecular_machine_to_biological_process_association.all.tsv.gz (32.4 MB) | Product | tsv | Macromolecular machine to biological ... |
| kg-monarch.associations.macromolecular_machine_to_cellular_component | Macromolecular Machine to Cellular Component Associations | macromolecular_machine_to_cellular_component_association.all.tsv.gz (18.7 MB) | Product | tsv | Macromolecular machine to cellular co... |
| kg-monarch.associations.macromolecular_machine_to_molecular_activity | Macromolecular Machine to Molecular Activity Associations | macromolecular_machine_to_molecular_activity_association.all.tsv.gz (23.4 MB) | Product | tsv | Macromolecular machine to molecular a... |
| kg-monarch.associations.pairwise_gene_to_gene_interaction | Pairwise Gene to Gene Interaction Associations | pairwise_gene_to_gene_interaction.all.tsv.gz (51.4 MB) | Product | tsv | Pairwise gene to gene interaction ass... |
| kg-monarch.associations.variant_to_disease | Variant to Disease Associations | variant_to_disease_association.all.tsv.gz (429.6 KB) | Product | tsv | Variant to disease associations |
| kg-monarch.associations.variant_to_gene | Variant to Gene Associations | variant_to_gene_association.all.tsv.gz (4.1 MB) | Product | tsv | Variant to gene associations |
| kg-monarch.associations.variant_to_phenotype | Variant to Phenotypic Feature Associations | variant_to_phenotypic_feature_association.all.tsv.gz (9.4 MB) | Product | tsv | Variant to phenotypic feature associa... |
| kg-monarch.phenio.semsql | Phenio SQLite (SemSQL) | phenio.db.gz (3.2 GB) | Product | sqlite | Phenio SQLite database in SemSQL form... |
| kg-monarch.solr | Solr Data | solr.tar.gz (32.3 GB) | Product | ❔ | Solr index data for the Monarch Knowl... |
| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| cpathkg.code | C-Path Knowledge Graph Integration | c-path-knowledge-graph-integration | ProcessProduct | python | This repository is a code reference f... |
| epigraphdb.graph | EpiGraphDB Graph Database | graph-database | GraphProduct | neo4j | Integrated graph knowledge base combi... |
Last modified: December 09, 2025