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STRING uses a relational database system (PostgreSQL) to store primary data and precomputed predictions. For convenience, we provide selected data-items as flatfiles below.
Please note: the complete dataset of STRING is also available - but it requires signing a license agreement (free for academics, see here for details).
Files that do not require a separate license agreement are published under a Creative Commons Attribution 3.0 License or a Creative Commons Attribution-Noncommercial-Share Alike 3.0 License.
For commercial use or customized versions, please contact biobyte solutions GmbH. |
| Protein mode (flatfiles) |
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| - File - | - Description - | - Access - | |
| protein.sequences.v9.1.fa.gz (1.2 Gb) | sequences of all proteins in STRING |  | |
| protein.links.v9.1.txt.gz (4.1 Gb) | protein network data (scored links between proteins) | | |
| protein.links.detailed.v9.1.txt.gz (6.1 Gb) | protein network data (incl. subscores per channel); commercial entities require a license. |  | |
| protein.actions.v9.1.txt.gz (728.3 Mb) | interaction types for protein links | | |
| protein.actions.detailed.v9.1.txt.gz (835.8 Mb) | interaction types for protein links (incl. subscores per type); commercial entities require a license. | | |
| protein.links.full.v9.1.txt.gz (6.6 Gb) | protein network data (incl. distinction: direct vs. interologs); all users require a license | license required | |
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| COG mode (flatfiles) |
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| - File - | - Description - | - Access - | |
| COG.mappings.v9.1.txt.gz (83.7 Mb) | orthologous groups (COGs,NOGs,KOGs,...) and their proteins | | |
| protein.sequences.v9.1.fa.gz (1.2 Gb) | sequences of all proteins in STRING (can be used as a blast db) | | |
| species.mappings.v9.1.txt.gz (11.2 Mb) | presence / absence of orthologous groups in species | | |
| COG.links.v9.1.txt.gz (131.6 Mb) | association scores between orthologous groups | | |
| COG.links.detailed.v9.1.txt.gz (203.4 Mb) | association scores (incl. subscores per channel); commercial entities require a license. | | |
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| General flatfiles & full database dumps |
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| - File - | - Description - | - Access - | |
| species.v9.1.txt (77.9 Kb) | organisms in STRING | | |
| species.tree.v9.1.txt (26.4 Kb) | STRING tree of species | | |
| database.schema.v9.1.pdf (119 Kb) | STRING database schema | | |
| protein.aliases.v9.1.txt.gz (445 Mb) | aliases for STRING proteins: locus names, accessions, descriptions... | | |
| mapping_files (FTP directory) | separate identifier mapping files, for several frequently used name_spaces... | | |
| items_schema.v9.1.sql.gz (empty) | full database, part I: the players (proteins, species, COGs,...) | license required | |
| network_schema.v9.1.sql.gz (empty) | full database, part II: the networks (nodes, edges, scores,...) | license required | |
| evidence_schema.v9.1.sql.gz (empty) | full database, part III: interaction evidence (datasets, abstracts, predictions, ...) | license required | |
| homology_schema.v9.1.sql.gz (empty) | full database, part IV: homology data (all-against-all BLAST searches) | license required | |
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Please note: STRING is subject to periodic updates. Therefore, do visit back on this page to get the latest associations whenever needed.
Protein identifiers in the above files contain two substrings each: 'NNNNN.aaaaaa'. The first substring is the NCBI taxonomy species identifier, and the second substring is the RefSeq/Ensembl-identifier of the protein.
Please note that some of the files are very large. You may experience problems downloading them, depending on your browser and/or operating system. |
