2026-07-15 Release

2026-07-15 Release

Changed

• add Zenodo DOI for v2026-07-13 ODK release

Fixed

• ci: use working-directory for metadata validation step
• metadata: align ontology metadata with repository and release QC

Ontology diff

See release-diff.md for the ROBOT diff against the previous release.

Ontology diff (summary)

Ontology comparison

Left

• Ontology IRI: http://purl.obolibrary.org/obo/pbpko.owl
• Version IRI: http://purl.obolibrary.org/obo/pbpko/releases/2026-07-13/pbpko.owl
• Loaded from: file:/work/src/ontology/tmp/current-release.owl

Right

• Ontology IRI: http://purl.obolibrary.org/obo/pbpko.owl
• Version IRI: http://purl.obolibrary.org/obo/pbpko/releases/2026-07-15/pbpko.owl
• Loaded from: file:/work/src/ontology/pbpko.owl

Ontology imports

Ontology annotations

Removed

• creator _:genid2147487981

• creator _:genid2147487982

• creator _:genid2147487983

• creator _:genid2147487984

• creator _:genid2147487985

• creator _:genid2147487986

• description "Physiologically Based Pharmacokinetic Models (PBPK) are widely used in both pharmaceutical and environmental domain by experts to assess the kinetics of xenobiotics. Thousands of papers have been published over years but the major drawback being utilization of inconsistent vocabulary which reduce the potential for automation. Machine-readable semantic technology like ontology can be used to improve the reporting of PBPK models. Currently there are multiple ontologies related to life science domain on portals like Bioportal, still there is no dedicated ontology for describing PBPK. The objective of this work is to develop a dedicated ontology for PBPK named PBPKO which can be used in future by wider kinetic community. PBPKO has covered possible mechanisms, existing kinetic terms in multiple databases and commonly utilized terminology by experts. This is freely available ontology with first version (V1.0) being published following FAIR guidelines using ROBOT tool and published at OBO foundry (crispae.github.io/pbpko/ (github.com)). It will be further enriched by including multiple species and much more kinetic terms with the help of experts. PBPKO annotates both physiological and biochemical parameters related to PBPK modeling. This ontology can be further used for text mining of PBPK parameters and model output."

• description "Physiologically Based Pharmacokinetic Models ontology for describing PBPK models, parameters, and processes."

• modified "2026-02-16"^^date

• title "PBPK ontology"

• versionInfo "2026-07-13"

Added

• creator _:genid2147492320

• creator _:genid2147492321

• creator _:genid2147492322

• creator _:genid2147492323

• creator _:genid2147492324

• creator _:genid2147492325

• description "The PBPK (Physiologically Based Pharmacokinetic) Ontology (PBPKO) describes PBPK models, parameters, compartments, and pharmacokinetic processes for pharmaceutical and environmental life-science applications. It is aligned with Basic Formal Ontology (BFO) and the Relation Ontology (RO), and integrates terms from OBO Foundry ontologies including GO, OBI, and IAO."

• modified "2026-07-15"^^date

• versionInfo "2026-07-15"

• seeAlso pbpko

• seeAlso https://insilicovida-research-lab.github.io/pbpko/

_:genid2147487981

Removed

• _:genid2147487981 homepage 0000-0003-1673-5725

• _:genid2147487981 mbox wur.nl

• _:genid2147487981 name "Johannes Kruisselbrink"

_:genid2147487982

Removed

• _:genid2147487982 homepage 0000-0002-7685-9140

• _:genid2147487982 mbox jsi.si

• _:genid2147487982 name "Panče Panov"

_:genid2147487983

Removed

• _:genid2147487983 homepage 0000-0001-8345-1349

• _:genid2147487983 mbox iispv.cat

• _:genid2147487983 name "Deepika Deepika"

_:genid2147487984

Removed

• _:genid2147487984 homepage 0000-0002-9795-5967

• _:genid2147487984 mbox iispv.cat

Full diff: src/ontology/reports/release-diff.md in the repository.