is a Data Source.
It is part of the Ber collection.
STRING is a database of known and predicted protein-protein interactions. The interactions include direct (physical) and indirect (functional) associations derived from computational prediction, knowledge transfer between organisms, and interactions aggregated from other primary databases.
genomics, biomedical, proteomics
Unknown
infores:string
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| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| string.protein.links | STRING Protein Links | protein.links.v12.0.txt.gz (128.7 GB) | GraphProduct | txt | protein network data (full network, s... |
| string.protein.links.detailed | STRING Protein Links Detailed | protein.links.detailed.v12.0.txt.gz (189.6 GB) | GraphProduct | txt | protein network data (full network, i... |
| string.protein.links.full | STRING Protein Links Full | protein.links.full.v12.0.txt.gz (199.6 GB) | GraphProduct | txt | protein network data (full network, i... |
| string.protein.physical.links | STRING Protein Physical Links | protein.physical.links.v12.0.txt.gz (11.1 GB) | GraphProduct | txt | protein network data (physical subnet... |
| string.protein.physical.links.detailed | STRING Protein Physical Links Detailed | protein.physical.links.detailed.v12.0.txt.gz (13.8 GB) | GraphProduct | txt | protein network data (physical subnet... |
| string.protein.physical.links.full | STRING Protein Physical Links Full | protein.physical.links.full.v12.0.txt.gz (14.5 GB) | GraphProduct | txt | protein network data (physical subnet... |
| string.cog.links | STRING COG Links | COG.links.v12.0.txt.gz (176.8 MB) | GraphProduct | txt | association scores between orthologou... |
| string.cog.links.detailed | STRING COG Links Detailed | COG.links.detailed.v12.0.txt.gz (238.7 MB) | GraphProduct | txt | association scores (incl. subscores p... |
| string.protein.info | STRING Protein Info | protein.info.v12.0.txt.gz (1.2 GB) | Product | txt | list of STRING proteins incl. their d... |
| string.protein.sequences | STRING Protein Sequences | protein.sequences.v12.0.fa.gz (12.1 GB) | Product | fasta | sequences of the proteins in STRING (... |
| string.protein.aliases | STRING Protein Aliases | protein.aliases.v12.0.txt.gz (3.2 GB) | Product | txt | aliases for STRING proteins: locus na... |
| string.protein.homology | STRING Protein Homology | protein.homology.v12.0.txt.gz (17.4 GB) | Product | txt | SW alignment scores between proteins ... |
| string.protein.enrichment.terms | STRING Protein Enrichment Terms | protein.enrichment.terms.v12.0.txt.gz (22.0 GB) | Product | txt | list of terms associated with protein... |
| string.clusters.proteins | STRING Clusters Proteins | clusters.proteins.v12.0.txt.gz (13.1 GB) | Product | txt | hierarchical STRING clusters and thei... |
| string.clusters.info | STRING Clusters Info | clusters.info.v12.0.txt.gz (207.8 MB) | Product | txt | hierarchical STRING clusters annotations |
| string.clusters.tree | STRING Clusters Tree | clusters.tree.v12.0.txt.gz (55.3 MB) | Product | txt | hierarchical STRING clusters tree (re... |
| string.protein.network.embeddings | STRING Protein Network Embeddings | protein.network.embeddings.v12.0.h5 (17.9 GB) | Product | hdf5 | cross-species (aligned) eukaryotic pr... |
| string.protein.sequence.embeddings | STRING Protein Sequence Embeddings | protein.sequence.embeddings.v12.0.h5 (38.3 GB) | Product | hdf5 | ProtT5 eukaryotic protein sequence em... |
| string.protein.orthology | STRING Protein Orthology | protein.orthology.v12.0.txt.gz (2.0 GB) | Product | txt | hierarchical eggNOG orthologous group... |
| string.cog.mappings | STRING COG Mappings | COG.mappings.v12.0.txt.gz (720.3 MB) | Product | txt | LCA orthologous groups (COGs,NOGs,KOG... |
| string.species | STRING Species List | species.v12.0.txt (999.2 KB) | Product | txt | organisms in STRING |
| string.species.tree | STRING Species Tree | species.tree.v12.0.txt (92.8 MB) | Product | txt | STRING tree of species |
| string.database.schema | STRING Database Schema | database.schema.v12.0.pdf (51.8 KB) | DocumentationProduct | STRING database schema | |
| string.database.items | STRING Database Items Schema | items_schema.v12.0.sql.gz (42.4 GB) | Product | ❔ | full database, part I: the players (p... |
| string.database | STRING Database Network Schema | network_schema.v12.0.sql.gz (262.2 GB) | GraphProduct | ❔ | full database, part II: the networks ... |
| string.database.evidence | STRING Database Evidence Schema | evidence_schema.v12.0.sql.gz (55.4 GB) | Product | ❔ | full database, part III: interaction ... |
| string.api | STRING REST API | help?subpage=api | ProgrammingInterface | ❔ | RESTful API for programmatic access t... |
| string.web | STRING Web Interface | string-db.org | GraphicalInterface | ❔ | Web interface for searching, visualiz... |
| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| ubkg.neo4j | UBKG Neo4j Docker Distribution | ubkg-downloads.xconsortia.org | GraphProduct | ❔ | Turnkey neo4j distributions that depl... |
| ubkg.csv | UBKG Ontology CSV Files | ubkg-downloads.xconsortia.org | GraphProduct | csv | Ontology CSV files that can be import... |
| spoke.graph | SPOKE Graph | ❔ | GraphProduct | ❔ | The SPOKE knowledge graph containing ... |
| bioteque.embeddings | Bioteque Embeddings | embeddings | Product | ❔ | Network embeddings of the Bioteque gr... |
| clinicalkg.graph | CKG Graph Dump | 1 | GraphProduct | mixed | Neo4j database dump of the Clinical K... |
| 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 | 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.rdf | RDF Distribution of KG-Monarch | monarch-kg.nt.gz (838.5 MB) | GraphProduct | rdfxml | RDF Distribution of KG-Monarch |
| kg-monarch.graph.neo4j | Neo4j Dump of KG-Monarch | monarch-kg.neo4j.dump (1.3 GB) | GraphProduct | ❔ | Neo4j Dump of KG-Monarch |
| kg-monarch.graph.duckdb | DuckDB database of KG-Monarch | monarch-kg.duckdb (6.4 GB) | GraphProduct | ❔ | DuckDB database of KG-Monarch |
| automat.stringdb | stringdb_automat | 4ca5a0ce557e2c18 | GraphProduct | kgx-jsonl | STRING-DB Automat |
| pheknowlator.graph | PheKnowLator graph | knowledge_graphs?pageState=(%22StorageObjectListTable%22:(%22f%22:%22%255B%255D%22))&inv=1&invt=Ab5_1Q&project=pheknowlator | GraphProduct | owl | PheKnowLator graph files, including s... |
| 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.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 |
| epigraphdb.graph | EpiGraphDB Graph Database | graph-database | GraphProduct | neo4j | Integrated graph knowledge base combi... |
| aop-db.data | AOP-DB Data | adverse-outcome-pathway-database-aop-db-version-2 | Product | ❔ | The EPA has developed the Adverse Out... |
| cancer-genome-interpreter.clinicalkg.graph | CKG Graph Dump | 1 | GraphProduct | mixed | Neo4j database dump of the Clinical K... |
| genecards.protein.interactions ⚠ | GeneCards Protein Interactions | www.genecards.org | Product | http | Protein interaction data aggregated f... |
| unibiomap.links | UniBioMap Graph Links | unibiomap.links.csv (1.3 GB) | GraphProduct | csv | Core UniBioMap graph edges file. |
| unibiomap.auxs | UniBioMap Graph Auxiliaries | unibiomap.auxs.tsv (563.9 MB) | GraphProduct | tsv | Auxiliary UniBioMap graph annotations... |
| unibiomap.pred | UniBioMap Predicted Graph | unibiomap.pred.csv (2.3 GB) | GraphProduct | csv | Predicted UniBioMap graph edges with ... |
| unibiomap.pred.full | UniBioMap Predicted Graph (Full) | unibiomap.pred.full.csv (5.9 GB) | GraphProduct | csv | Full unfiltered UniBioMap predicted g... |