fixed LD for vesicle-mediated transport for #26260

[github-actions[bot]]

Here's a diff of how these changes impact the classified ontology:

Ontology comparison

Left

• Ontology IRI: http://purl.obolibrary.org/obo/go.owl
• Version IRI: http://purl.obolibrary.org/obo/go/releases/2024-11-19/go.owl
• Loaded from: file:/__w/go-ontology/go-ontology/src/ontology/../../reasoned-master.owl/reasoned.owl

Right

• Ontology IRI: http://purl.obolibrary.org/obo/go.owl
• Version IRI: http://purl.obolibrary.org/obo/go/releases/2024-11-19/go.owl
• Loaded from: file:/__w/go-ontology/go-ontology/src/ontology/../../reasoned-pr.owl/reasoned.owl

Ontology imports

Ontology annotations

Golgi vesicle transport http://purl.obolibrary.org/obo/GO_0048193

Removed

• Golgi vesicle transport EquivalentTo transport and (results in transport to from or in some Golgi-associated vesicle)

Added

• Golgi vesicle transport EquivalentTo vesicle-mediated transport and (results in transport to from or in some Golgi-associated vesicle)

early endosome to late endosome transport http://purl.obolibrary.org/obo/GO_0045022

Removed

• early endosome to late endosome transport EquivalentTo transport and (occurs in some cytoplasm) and (has target start location some early endosome) and (has target end location some late endosome)

Added

• early endosome to late endosome transport EquivalentTo vesicle-mediated transport and (occurs in some cytoplasm) and (has target start location some early endosome) and (has target end location some late endosome)

early endosome to recycling endosome transport http://purl.obolibrary.org/obo/GO_0061502

Removed

• early endosome to recycling endosome transport EquivalentTo transport and (occurs in some cytoplasm) and (has target start location some early endosome) and (has target end location some recycling endosome)

Added

• early endosome to recycling endosome transport EquivalentTo vesicle-mediated transport and (occurs in some cytoplasm) and (has target start location some early endosome) and (has target end location some recycling endosome)

endocytic recycling http://purl.obolibrary.org/obo/GO_0032456

Removed

• endocytic recycling EquivalentTo transport and (has target start location some endosome) and (has target end location some plasma membrane) and (process has causal agent some vesicle)

Added

• endocytic recycling EquivalentTo vesicle-mediated transport and (has target start location some endosome) and (has target end location some plasma membrane)

endosomal transport http://purl.obolibrary.org/obo/GO_0016197

Removed

• endosomal transport EquivalentTo transport and (occurs in some intracellular anatomical structure) and (process has causal agent some endosome)

Added

• endosomal transport EquivalentTo vesicle-mediated transport and (occurs in some intracellular anatomical structure) and (process has causal agent some endosome)

endosome to lysosome transport http://purl.obolibrary.org/obo/GO_0008333

Removed

• endosome to lysosome transport EquivalentTo intracellular transport and (has target start location some endosome) and (has target end location some lysosome) and (process has causal agent some vesicle)

Added

• endosome to lysosome transport EquivalentTo vesicle-mediated transport and (has target start location some endosome) and (has target end location some lysosome)

exocytosis http://purl.obolibrary.org/obo/GO_0006887

Removed

• exocytosis EquivalentTo transport and (process has causal agent some exocytic vesicle)

Added

• exocytosis EquivalentTo vesicle-mediated transport and (process has causal agent some exocytic vesicle)

late endosome to Golgi transport http://purl.obolibrary.org/obo/GO_0034499

Removed

• late endosome to Golgi transport EquivalentTo transport and (occurs in some cytoplasm) and (has target start location some late endosome) and (has target end location some Golgi apparatus) and (process has causal agent some vesicle)

Added

• late endosome to Golgi transport EquivalentTo vesicle-mediated transport and (occurs in some cytoplasm) and (has target start location some late endosome) and (has target end location some Golgi apparatus)

late endosome to vacuole transport http://purl.obolibrary.org/obo/GO_0045324

Removed

• late endosome to vacuole transport EquivalentTo intracellular transport and (has target start location some late endosome) and (has target end location some vacuole) and (process has causal agent some vesicle)

• late endosome to vacuole transport SubClassOf vacuolar transport

Added

• late endosome to vacuole transport EquivalentTo vesicle-mediated transport and (has target start location some late endosome) and (has target end location some vacuole)

late endosome to vacuole transport via multivesicular body sorting pathway http://purl.obolibrary.org/obo/GO_0032511

Added

• late endosome to vacuole transport via multivesicular body sorting pathway SubClassOf vacuolar transport

lysosome to ER cholesterol transport http://purl.obolibrary.org/obo/GO_0090120

Removed

• lysosome to ER cholesterol transport EquivalentTo transport and (occurs in some cytoplasm) and (has target start location some lysosome) and (has target end location some endoplasmic reticulum) and (has primary input some cholesterol)

• lysosome to ER cholesterol transport SubClassOf vesicle-mediated cholesterol transport

Added

• lysosome to ER cholesterol transport EquivalentTo vesicle-mediated transport and (occurs in some cytoplasm) and (has target start location some lysosome) and (has target end location some endoplasmic reticulum) and (has primary input some cholesterol)

• lysosome to ER cholesterol transport SubClassOf vesicle-mediated transport

• lysosome to ER cholesterol transport SubClassOf intracellular cholesterol transport

neurotransmitter receptor transport postsynaptic membrane to endosome http://purl.obolibrary.org/obo/GO_0098968

Removed

• neurotransmitter receptor transport postsynaptic membrane to endosome EquivalentTo protein transport and (has start location some postsynaptic membrane) and (has target end location some postsynaptic early endosome) and (process has causal agent some vesicle) and (has primary input some neurotransmitter receptor complex)

• neurotransmitter receptor transport postsynaptic membrane to endosome SubClassOf protein localization to postsynapse

• neurotransmitter receptor transport postsynaptic membrane to endosome SubClassOf protein localization to early endosome

• neurotransmitter receptor transport postsynaptic membrane to endosome SubClassOf establishment of protein localization to organelle

• neurotransmitter receptor transport postsynaptic membrane to endosome SubClassOf neurotransmitter receptor transport

Added

• neurotransmitter receptor transport postsynaptic membrane to endosome EquivalentTo vesicle-mediated transport and (has start location some postsynaptic membrane) and (has target end location some postsynaptic early endosome) and (has primary input some neurotransmitter receptor complex)

• neurotransmitter receptor transport postsynaptic membrane to endosome SubClassOf has primary input some neurotransmitter receptor complex

plasma membrane to endosome transport http://purl.obolibrary.org/obo/GO_0048227

Removed

• plasma membrane to endosome transport EquivalentTo transport and (has target start location some plasma membrane) and (has target end location some endosome)

Added

• plasma membrane to endosome transport EquivalentTo vesicle-mediated transport and (has target start location some plasma membrane) and (has target end location some endosome)

recycling endosome to Golgi transport http://purl.obolibrary.org/obo/GO_0071955

Removed

• recycling endosome to Golgi transport EquivalentTo transport and (has target start location some recycling endosome) and (has target end location some Golgi apparatus) and (process has causal agent some vesicle)

Added

• recycling endosome to Golgi transport EquivalentTo vesicle-mediated transport and (has target start location some recycling endosome) and (has target end location some Golgi apparatus)

vesicle-mediated cholesterol transport http://purl.obolibrary.org/obo/GO_0090119

Removed

• vesicle-mediated cholesterol transport EquivalentTo cholesterol transport and (occurs in some cytosol) and (process has causal agent some vesicle)

Added

• vesicle-mediated cholesterol transport EquivalentTo vesicle-mediated transport and (occurs in some cytosol) and (has primary input some cholesterol)