MitoInteract / recovery /config-bindingdb.json
Ethan Troy
feat: add source-aware BindingDB recovery track
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{
"release": "202607",
"publisher": "BindingDB (The Binding Database, bindingdb.org)",
"downloaded": "2026-07-19",
"license": {
"name": "Creative Commons Attribution 3.0 Unported (CC BY 3.0)",
"url": "https://creativecommons.org/licenses/by/3.0/",
"notes": "BindingDB states that data curated by BindingDB staff are provided under CC BY 3.0; attribution to BindingDB is required in derived works."
},
"source_notes": [
"Publisher-verified TSV exports of the BindingDB 202607 release, obtained directly from the BindingDB download page.",
"The 'BindingDB BindingDB Articles' export is the main ~640-column per-measurement table restricted to curated literature articles (US patents and some other data sources are excluded from this particular export).",
"The 'rsid_eaids' export maps each BindingDB Reactant_set_id to its ENTRYID_ASSAYID assay key(s); the 'Assays' export gives assay name and description keyed by ENTRYID + ASSAYID.",
"The Reactant_set_id -> assay mapping can be one-to-many; each mapped assay is emitted as a separate source record, never merged.",
"Measurement cells may carry relation prefixes (=, <, <=, >, >=, ~); the adapter preserves the raw cell text and the parsed relation and never relabels Ki/IC50/EC50 as Kd.",
"Files must be supplied by the operator from a local dataset cache; this config intentionally contains no local absolute paths."
],
"files": {
"main_zip": {
"role": "main_articles_table",
"url": "https://www.bindingdb.org/rwd/bind/downloads/BindingDB_BindingDB_Articles_202607_tsv.zip",
"zip_name": "BindingDB_BindingDB_Articles_202607_tsv.zip",
"member": "BindingDB_BindingDB_Articles.tsv",
"sha256": "d2584d1519318d00ab5f46289da5ab3549affe732d598a5072f8777b6b3b5262"
},
"mapping_zip": {
"role": "reactant_set_to_assay_map",
"url": "https://www.bindingdb.org/rwd/bind/downloads/BindingDB_rsid_eaids_202607_tsv.zip",
"zip_name": "BindingDB_rsid_eaids_202607_tsv.zip",
"member": "BindingDB_rsid_eaids.tsv",
"sha256": "9bc94ffd13de2fdcfc40e6c73c8b81c9e745ca0103632545b7120a1f2247f84b"
},
"assays_zip": {
"role": "assay_names_descriptions",
"url": "https://www.bindingdb.org/rwd/bind/downloads/BindingDB_Assays_202607_tsv.zip",
"zip_name": "BindingDB_Assays_202607_tsv.zip",
"member": "BindingDB_Assays.tsv",
"sha256": "27cc219d3fc9517eba5cbcaf7cdac1c3065371e06e62d3e5bd147dd3e0cd3e12"
}
}
}