is an Aggregator.
KG-Bioportal transforms the ontologies hosted by BioPortal into KGX node and edge files, so each can be used as a knowledge graph. Transforms run monthly on GitHub Actions and every successful result is published as a release asset, alongside a manifest of per-ontology status and node/edge counts. Over a thousand ontologies are covered; the graph browser is the authoritative listing.
biomedical, clinical, information technology, general
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| ID | Name | URL | Category | Format | Description |
|---|---|---|---|---|---|
| kg-bioportal.browser | KG-Bioportal Graph Browser | graphs | GraphicalInterface | http | Browsable listing of every KG-Bioport... |
| kg-bioportal.manifest | KG-Bioportal Transform Manifest | onto_stats.yaml (333.1 KB) | Product | yaml | Manifest of every transform attempt, ... |
| kg-bioportal.graphs | KG-Bioportal KGX Graphs | latest | GraphProduct | kgx | KGX TSV graphs for all successfully t... |
| kg-bioportal.code | KG-Bioportal Transform Pipeline | kg-bioportal | ProcessProduct | python | Python package and GitHub Actions wor... |
KG-Bioportal is a transform pipeline and graph collection: it takes the ontologies
in BioPortal and converts each into
KGX node and edge TSVs. The transforms run
monthly on GitHub Actions, and each successful result is attached to a GitHub
release as <ACRONYM>.tar.gz.
Because KG-Bioportal covers all of BioPortal, its inventory runs to well over a thousand entries – far more than belongs on a single registry page. Use the graph browser to search the full set. Every archive is also reachable directly at a stable URL:
https://github.com/ncbo/kg-bioportal/releases/latest/download/<ACRONYM>.tar.gz
Where an ontology transformed by KG-Bioportal already has a KG-Registry resource
page, that page carries the transform as its own <resource>.kg-bioportal
product, added by util/sync_kg_bioportal.py. Transforms that failed or were
skipped have no artifact and are not recorded here; the browser explains those
cases. KG-Bioportal’s graph browser in turn draws part of its listing from
KG-Registry, so the sync deliberately never creates registry resources from the
KG-Bioportal manifest.
The largest ontologies – NCBITaxon, SNOMED CT, RxNorm, PR, NCIT, and others – exceed what GitHub-hosted runners can transform and are skipped rather than failing the build. Their status and the reason are recorded in the manifest.
Created: August 06, 2026 | Last modified: August 06, 2026