obophenotype/uberon: 2026-11-05 Release

<summary>Mappings removed: 8</summary>

| Subject | Predicate | Object | ----|----|----| | Brodmann (1909) area 10 (UBERON:0013541) | oio:hasDbXref | DHBA:146034836 | | agranular insular cortex (UBERON:0034893) | oio:hasDbXref | DHBA:10289 | | midbrain cerebral aqueduct (UBERON:0002289) | oio:hasDbXref | DHBA:10651 | | retrosplenial region (UBERON:0013531) | oio:hasDbXref | DHBA:266441669 | | reticulotegmental nucleus (UBERON:0002147) | oio:hasDbXref | DHBA:12414 | | lateral sulcus (UBERON:0002721) | oio:hasDbXref | DHBA:12110 | | body of fornix (UBERON:0004680) | oio:hasDbXref | DHBA:10577 | | periamygdaloid area (UBERON:0002656) | oio:hasDbXref | DHBA:10373 |

</details>

<details> <summary>Relationships removed: 20</summary>

| Subject| Predicate| Object| ----|----|----| | mandibular fossa of squamous part of temporal bone (UBERON:1200136) | subClassOf (rdfs:subClassOf) | bone fossa (UBERON:0004704) | | functional layer of endometrium (UBERON:0022356) | RO:0002220 | myometrium (UBERON:0001296) | | duodenal epithelium (UBERON:0008346) | subClassOf (rdfs:subClassOf) | epithelium of intestinal villus (UBERON:0013636) | | functional layer of endometrium (UBERON:0022356) | subClassOf (rdfs:subClassOf) | endometrium epithelium (UBERON:0004811) | | mastoid notch of mastoid part of temporal bone (UBERON:1200139) | subClassOf (rdfs:subClassOf) | bone foramen (UBERON:0005744) | | basal layer of endometrium (UBERON:0022355) | subClassOf (rdfs:subClassOf) | endometrium epithelium (UBERON:0004811) | | petrotympanic fissure of squamous part of temporal bone (UBERON:1200171) | subClassOf (rdfs:subClassOf) | bone foramen (UBERON:0005744) | | duodenal epithelium (UBERON:0008346) | BFO:0000050 | intestinal villus of duodenum (UBERON:0008342) | | internal auditory meatus of petrous part of temporal bone (UBERON:1200115) | subClassOf (rdfs:subClassOf) | bone foramen (UBERON:0005744) | | basal layer of endometrium (UBERON:0022355) | RO:0002220 | uterine lumen (UBERON:0013769) | | ileal epithelium (UBERON:0008345) | BFO:0000050 | intestinal villus of ileum (UBERON:0008344) | | jejunal epithelium (UBERON:0000400) | BFO:0000050 | intestinal villus of jejunum (UBERON:0008343) | | stylomastoid foramen of petrous part of temporal bone (UBERON:1200222) | subClassOf (rdfs:subClassOf) | bone foramen (UBERON:0005744) | | suprameatal foramen (UBERON:0018364) | subClassOf (rdfs:subClassOf) | bone foramen (UBERON:0005744) | | hiatus and groove of petrous part of temporal bone for greater petrosal nerve (UBERON:1200074) | subClassOf (rdfs:subClassOf) | bone foramen (UBERON:0005744) | | ileal epithelium (UBERON:0008345) | subClassOf (rdfs:subClassOf) | epithelium of intestinal villus (UBERON:0013636) | | jejunal epithelium (UBERON:0000400) | subClassOf (rdfs:subClassOf) | epithelium of intestinal villus (UBERON:0013636) | | mastoid foramen of mastoid part of temporal bone (UBERON:1200138) | subClassOf (rdfs:subClassOf) | bone foramen (UBERON:0005744) | | external auditory meatus of squamous part of temporal bone (UBERON:1200036) | subClassOf (rdfs:subClassOf) | bone foramen (UBERON:0005744) | | hiatus and groove of petrous part of temporal bone for lesser petrosal nerve (UBERON:1200075) | subClassOf (rdfs:subClassOf) | bone foramen (UBERON:0005744) |

</details>

<details> <summary>Relationships added: 31</summary>

| Subject | Predicate | Object| ----|----|----| | ileal epithelium (UBERON:0008345) | BFO:0000050 | ileum (UBERON:0002116) | | mastoid foramen of mastoid part of temporal bone (UBERON:1200138) | subClassOf (rdfs:subClassOf) | foramen of skull (UBERON:0013685) | | holothurian cloaca (UBERON:1200386) | subClassOf (rdfs:subClassOf) | subdivision of digestive tract (UBERON:0004921) | | hiatus and groove of petrous part of temporal bone for lesser petrosal nerve (UBERON:1200075) | subClassOf (rdfs:subClassOf) | foramen of skull (UBERON:0013685) | | respiratory tree (Holothuroidea) (UBERON:1200387) | subClassOf (rdfs:subClassOf) | viscus (UBERON:0002075) | | internal auditory meatus of petrous part of temporal bone (UBERON:1200115) | subClassOf (rdfs:subClassOf) | foramen of skull (UBERON:0013685) | | jejunal epithelium (UBERON:0000400) | subClassOf (rdfs:subClassOf) | epithelium of small intestine (UBERON:0001902) | | functional layer of endometrium (UBERON:0022356) | BFO:0000050 | endometrium (UBERON:0001295) | | basal layer of endometrium (UBERON:0022355) | subClassOf (rdfs:subClassOf) | reproductive structure (UBERON:0005156) | | hiatus and groove of petrous part of temporal bone for greater petrosal nerve (UBERON:1200074) | subClassOf (rdfs:subClassOf) | foramen of skull (UBERON:0013685) | | duodenal epithelium (UBERON:0008346) | subClassOf (rdfs:subClassOf) | epithelium of small intestine (UBERON:0001902) | | functional layer of endometrium (UBERON:0022356) | subClassOf (rdfs:subClassOf) | reproductive structure (UBERON:0005156) | | duodenal epithelium (UBERON:0008346) | BFO:0000050 | duodenum (UBERON:0002114) | | jejunal epithelium (UBERON:0000400) | BFO:0000050 | jejunum (UBERON:0002115) | | functional layer of endometrium (UBERON:0022356) | RO:0002220 | uterine lumen (UBERON:0013769) | | mandibular fossa of squamous part of temporal bone (UBERON:1200136) | subClassOf (rdfs:subClassOf) | cranial fossa (UBERON:0008789) | | temporal bone (UBERON:0001678) | subClassOf (rdfs:subClassOf) | neurocranium bone (UBERON:0011164) | | basal layer of endometrium (UBERON:0022355) | RO:0002220 | myometrium (UBERON:0001296) | | respiratory tree (Holothuroidea) (UBERON:1200387) | RO:0002170 | holothurian cloaca (UBERON:1200386) | | respiratory tree (Holothuroidea) (UBERON:1200387) | RO:0002202 | holothurian cloaca (UBERON:1200386) | | respiratory tree (Holothuroidea) (UBERON:1200387) | subClassOf (rdfs:subClassOf) | respiration organ (UBERON:0000171) | | holothurian cloaca (UBERON:1200386) | RO:0002162 | NCBITaxon:7705 | | ileal epithelium (UBERON:0008345) | subClassOf (rdfs:subClassOf) | epithelium of small intestine (UBERON:0001902) | | suprameatal foramen (UBERON:0018364) | subClassOf (rdfs:subClassOf) | foramen of skull (UBERON:0013685) | | functional layer of endometrium (UBERON:0022356) | subClassOf (rdfs:subClassOf) | organ component layer (UBERON:0004923) | | mastoid notch of mastoid part of temporal bone (UBERON:1200139) | subClassOf (rdfs:subClassOf) | foramen of skull (UBERON:0013685) | | basal layer of endometrium (UBERON:0022355) | BFO:0000050 | endometrium (UBERON:0001295) | | basal layer of endometrium (UBERON:0022355) | subClassOf (rdfs:subClassOf) | organ component layer (UBERON:0004923) | | external auditory meatus of squamous part of temporal bone (UBERON:1200036) | subClassOf (rdfs:subClassOf) | foramen of skull (UBERON:0013685) | | petrotympanic fissure of squamous part of temporal bone (UBERON:1200171) | subClassOf (rdfs:subClassOf) | foramen of skull (UBERON:0013685) | | stylomastoid foramen of petrous part of temporal bone (UBERON:1200222) | subClassOf (rdfs:subClassOf) | foramen of skull (UBERON:0013685) |

</details>

<details> <summary>Text definitions changed: 2</summary>

| Term | Old Text Definition | New Text Definition | ----|----|----| | functional layer of endometrium (UBERON:0022356) | The layer of endometrial epithelium adjacent to the myometrium. | The layer of the endometrium adjacent to the uterine lumen, comprising the luminal epithelium, the superficial portions of the uterine glands, and the surrounding vascularized stroma, and supplied by the spiral arterioles. It proliferates and differentiates across the ovarian cycle under the influence of oestrogen and progesterone, and is the site of embryo implantation and decidualization. In menstruating species it is shed at menstruation and regenerated from the basal layer in the following cycle. | | basal layer of endometrium (UBERON:0022355) | The layer of endometrial epithelium adjacent to the uterine cavity. | The layer of the endometrium adjacent to the myometrium, comprising the basal portions of the uterine glands and the surrounding vascularized stroma, and supplied by the basal arteries. In menstruating species it is retained at menstruation and serves as the regenerative source from which the functional layer is restored; it harbours the epithelial and mesenchymal progenitor cell populations responsible for that regeneration. |

</details>

<details> <summary>Synonyms added: 9</summary>

| Term | New Synonym | Predicate | ----|----|----| | basal layer of endometrium (UBERON:0022355) | endometrial basal layer | oio:hasExactSynonym | | functional layer of endometrium (UBERON:0022356) | endometrial functional layer | oio:hasExactSynonym | | basal layer of endometrium (UBERON:0022355) | basalis layer | oio:hasExactSynonym | | basal layer of endometrium (UBERON:0022355) | stratum basale endometrii | oio:hasExactSynonym | | functional layer of endometrium (UBERON:0022356) | functionalis layer | oio:hasExactSynonym | | functional layer of endometrium (UBERON:0022356) | outer layer of endometrium | oio:hasRelatedSynonym | | holothurian cloaca (UBERON:1200386) | cloaca | oio:hasBroadSynonym | | respiratory tree (Holothuroidea) (UBERON:1200387) | holothurian respiratory tree | oio:hasExactSynonym | | functional layer of endometrium (UBERON:0022356) | stratum functionale endometrii | oio:hasExactSynonym |

</details>

<details> <summary>Classes added: 2</summary>

| Term | ----| | holothurian cloaca (UBERON:1200386) | | respiratory tree (Holothuroidea) (UBERON:1200387) |

</details>

<details> <summary>Text definitions added: 2</summary>

| Term | New Text Definition | ----|----| | holothurian cloaca (UBERON:1200386) | A subdivision of the digestive tract that is the posterior-most region of the gut of a sea cucumber, and from the dorsal wall of whose anterior part the respiratory trees arise. | | respiratory tree (Holothuroidea) (UBERON:1200387) | A respiration organ of a sea cucumber, one of a pair of branching tubular diverticula that arise from the dorsal wall of the anterior part of the cloaca, lie in the body cavity on either side of the intestine, and are ventilated with seawater drawn in through the anus and cloaca. |

</details>

<details> <summary>Mappings added: 3</summary>

| Subject | Predicate | Object | ----|----|----| | rostral sulcus (UBERON:0025763) | oio:hasDbXref | DHBA:146034836 | | anterior column of fornix (UBERON:0002940) | oio:hasDbXref | DHBA:10577 | | cortical amygdaloid nucleus (UBERON:0002891) | oio:hasDbXref | DHBA:10373 |

</details>

<details> <summary>Synonyms removed: 2</summary>

| Term | Removed Synonym | ----|----| | agranular insular cortex (UBERON:0034893) | dysgranular insular cortex | | functional layer of endometrium (UBERON:0022356) | functional layer of endometrium |

</details>

<details> <summary>Nodes renamed: 1</summary>

| ID | Old Label | New Label | ----|----|----| | UBERON:0022356 | outer layer of endometrium | functional layer of endometrium |

What's Changed

• Add CLARA review workflow (issue #3778) by @ubyndr in https://github.com/obophenotype/uberon/pull/3779
• Add holothurian cloaca as child of "subdivision of digestive tract" by @matentzn in https://github.com/obophenotype/uberon/pull/3789
• Use claude-opus-5-5 for the ai4c-agent by @cmungall in https://github.com/obophenotype/uberon/pull/3797
• Add respiratory tree (Holothuroidea) as child of "respiration organ" by @matentzn in https://github.com/obophenotype/uberon/pull/3798
• Reallocate the ID range for automatic IDs. by @gouttegd in https://github.com/obophenotype/uberon/pull/3799
• Add 'mkeays' to ai-controllers list by @ubyndr in https://github.com/obophenotype/uberon/pull/3805
• Add part_of relationship from temporal bone to vault of skull (#3791) by @ai4c-agent[bot] in https://github.com/obophenotype/uberon/pull/3792
• Modernise #gogoeditdiff workflow and fix classify build by @ubyndr in https://github.com/obophenotype/uberon/pull/3810
• Fix swapped definitions of basal/functional layers of endometrium (#3803) by @ai4c-agent[bot] in https://github.com/obophenotype/uberon/pull/3807
• Remove part_of intestinal villus from duodenal/jejunal/ileal epithelium (#3802) by @ai4c-agent[bot] in https://github.com/obophenotype/uberon/pull/3806
• Fix DHBA xrefs causing inferred equivalences and unsatisfiable classes (#3815) by @dosumis in https://github.com/obophenotype/uberon/pull/3816
• Refresh imports by @ubyndr in https://github.com/obophenotype/uberon/pull/3818
• uberon release 05th nov by @ct31-sanger in https://github.com/obophenotype/uberon/pull/3820

Full Changelog: https://github.com/obophenotype/uberon/compare/v2026-10-01...v2026-11-05