| { |
| "embedding": "string_net", |
| "species": "Homo sapiens", |
| "shape": [ |
| 19699, |
| 512 |
| ], |
| "dtype": "float32", |
| "gene_identifier": "Current HGNC symbol for one-to-one mappings; original identifier for unresolved or duplicate-symbol groups", |
| "row_order": "genes.json[i] identifies embeddings.npy[i]; row_mapping.csv is in the same order", |
| "origin": { |
| "database": "STRING", |
| "version": "12.5", |
| "taxon_id": 9606, |
| "representation": "Cross-species-aligned SPACE protein network embeddings", |
| "url": "https://stringdb-downloads.org/download/protein.network.embeddings.v12.5/9606.protein.network.embeddings.v12.5.h5", |
| "filename": "9606.protein.network.embeddings.v12.5.h5", |
| "sha256": "cd5bddc6ea556f7f1aa147f8235a8133fba56a02a9251c8b1f3600c6c76eba83", |
| "auxiliary_files": [ |
| { |
| "filename": "9606.protein.info.v12.5.txt.gz", |
| "sha256": "144de4b0d98c6a7dfde6ddc2591cf88657f27b989eadff4f501450c3ed1f0f1c", |
| "url": "https://stringdb-downloads.org/download/protein.info.v12.5/9606.protein.info.v12.5.txt.gz" |
| }, |
| { |
| "filename": "9606.protein.aliases.v12.5.txt.gz", |
| "sha256": "b65f730b993ed0c1bd72edf4565d3d425db42861101b29699704810e8f125680", |
| "url": "https://stringdb-downloads.org/download/protein.aliases.v12.5/9606.protein.aliases.v12.5.txt.gz" |
| } |
| ], |
| "citations": [ |
| "https://doi.org/10.1093/bioinformatics/btaf496", |
| "https://doi.org/10.1093/nar/gkae1113" |
| ], |
| "license": "CC BY 4.0", |
| "license_evidence": "https://string-db.org/cgi/download?species_text=Homo+sapiens" |
| }, |
| "preprocessing": { |
| "filtering": "None; all source proteins retained", |
| "normalization": "None", |
| "pooling": "None", |
| "conversion": "float16 -> float32, exactly preserving the stored source values", |
| "row_order": "Original HDF5 protein order; differs between network and sequence files" |
| }, |
| "identifier_mapping": { |
| "authority": "HGNC approved complete set", |
| "url": "https://storage.googleapis.com/public-download-files/hgnc/tsv/tsv/hgnc_complete_set.txt", |
| "sha256": "2828618d23d315be76ea415f7ef0e951858716ebab07e2d584190f52e5178c1e", |
| "snapshot_retrieved_utc": "2026-10-14T20:45:19.024543+00:00", |
| "latest_record_date_modified": "2026-10-12", |
| "approved_records": 45277, |
| "license": "CC0", |
| "license_url": "https://www.genenames.org/about/license/", |
| "collision_policy": "Keep all rows. Use current symbols for one-to-one mappings; retain original names for all members of duplicate-symbol groups and for unresolved/ambiguous mappings.", |
| "case_policy": "Exact, case-sensitive identifier matching; no suffix stripping or guessed renaming", |
| "row_mapping": "row_mapping.csv is in embeddings.npy row order and records canonical symbols, stable IDs, evidence and publication identifiers", |
| "method": "Intersect nonempty HGNC-ID, Ensembl-gene-ID and Entrez-ID candidate sets from STRING aliases; unresolved conflicts stay unresolved. When no stable-ID candidates exist, try UniProt, preferred current symbol, annotated current symbol, preferred previous symbol, then preferred alias; require one candidate.", |
| "statistics": { |
| "rows": 19699, |
| "resolved_to_hgnc": 19415, |
| "unmapped": 279, |
| "ambiguous": 5, |
| "duplicate_canonical_symbols": 40, |
| "rows_in_duplicate_symbol_groups": 80, |
| "renamed_identifiers": 540, |
| "exported_identifiers_that_are_current_hgnc_symbols": 19373, |
| "identifier_policies": { |
| "canonical_symbol": 19334, |
| "original_unresolved": 283, |
| "original_duplicate_symbol": 80, |
| "original_identifier_collision": 2 |
| } |
| } |
| }, |
| "files": { |
| "embeddings.npy": { |
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| "bytes": 40343680 |
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| "bytes": 227603 |
| }, |
| "proteins.json": { |
| "sha256": "42a6dad869e464575e10bf7755c7e5dd90e46ec6a760e053c416e6250fea4485", |
| "bytes": 512177 |
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| "bytes": 5089646 |
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| }, |
| "verification": "Every reloaded vector exactly equals its source cast to float32; every input row retained; unique published IDs and row mapping checked; no added WT row." |
| } |
|
|
