Obsoleted 15 terms; fixes #29219

[raymond91125]

No description provided.

[github-actions]

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/2024-12-04/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/2024-12-04/go.owl
• Loaded from: file:/__w/go-ontology/go-ontology/src/ontology/../../reasoned-pr.owl/reasoned.owl

Ontology imports

Ontology annotations

obsolete DNA ligation http://purl.obolibrary.org/obo/GO_0006266

Removed

• obsolete DNA ligation in_subset goslim_pir

• obsolete DNA ligation definition "The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase."

  • database_cross_reference "ISBN:0815316194"

• obsolete DNA ligation label "DNA ligation"

• obsolete DNA ligation SubClassOf DNA metabolic process

Added

• obsolete DNA ligation comment "The reason for obsoletion is that the term represents a molecular function."

• obsolete DNA ligation term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete DNA ligation definition "OBSOLETE. The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase."

  • database_cross_reference "ISBN:0815316194"

• obsolete DNA ligation deprecated true

• obsolete DNA ligation label "obsolete DNA ligation"

obsolete DNA ligation involved in DNA recombination http://purl.obolibrary.org/obo/GO_0051102

Removed

• obsolete DNA ligation involved in DNA recombination label "DNA ligation involved in DNA recombination"

• obsolete DNA ligation involved in DNA recombination definition "The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase, that contributes to DNA recombination."

  • database_cross_reference "GOC:ai"

• obsolete DNA ligation involved in DNA recombination EquivalentTo obsolete DNA ligation and (part of some DNA recombination)

• obsolete DNA ligation involved in DNA recombination SubClassOf part of some DNA recombination

• obsolete DNA ligation involved in DNA recombination SubClassOf obsolete DNA ligation

Added

• obsolete DNA ligation involved in DNA recombination label "obsolete DNA ligation involved in DNA recombination"

• obsolete DNA ligation involved in DNA recombination comment "The reason for obsoletion is that the term represents a molecular function."

• obsolete DNA ligation involved in DNA recombination term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete DNA ligation involved in DNA recombination deprecated true

• obsolete DNA ligation involved in DNA recombination definition "OBSOLETE. The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase, that contributes to DNA recombination."

  • database_cross_reference "GOC:ai"

obsolete DNA ligation involved in DNA repair http://purl.obolibrary.org/obo/GO_0051103

Removed

• obsolete DNA ligation involved in DNA repair label "DNA ligation involved in DNA repair"

• obsolete DNA ligation involved in DNA repair definition "The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase, that contributes to DNA repair."

  • database_cross_reference "GOC:ai"

• obsolete DNA ligation involved in DNA repair EquivalentTo obsolete DNA ligation and (part of some DNA repair)

• obsolete DNA ligation involved in DNA repair SubClassOf obsolete DNA ligation

• obsolete DNA ligation involved in DNA repair SubClassOf part of some DNA repair

Added

• obsolete DNA ligation involved in DNA repair comment "The reason for obsoletion is that the term represents a molecular function."

• obsolete DNA ligation involved in DNA repair definition "OBSOLETE. The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase, that contributes to DNA repair."

  • database_cross_reference "GOC:ai"

• obsolete DNA ligation involved in DNA repair label "obsolete DNA ligation involved in DNA repair"

• obsolete DNA ligation involved in DNA repair term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete DNA ligation involved in DNA repair deprecated true

obsolete DNA-dependent DNA replication DNA ligation http://purl.obolibrary.org/obo/GO_0051104

Removed

• obsolete DNA-dependent DNA replication DNA ligation definition "The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase, that contributes to DNA-dependent DNA replication."

  • database_cross_reference "GOC:dph"

  • database_cross_reference "GOC:tb"

  • database_cross_reference "GOC:ai"

• obsolete DNA-dependent DNA replication DNA ligation label "DNA-dependent DNA replication DNA ligation"

• obsolete DNA-dependent DNA replication DNA ligation EquivalentTo obsolete DNA ligation and (part of some DNA-templated DNA replication)

• obsolete DNA-dependent DNA replication DNA ligation SubClassOf part of some DNA-templated DNA replication

• obsolete DNA-dependent DNA replication DNA ligation SubClassOf obsolete DNA ligation

Added

• obsolete DNA-dependent DNA replication DNA ligation deprecated true

• obsolete DNA-dependent DNA replication DNA ligation label "obsolete DNA-dependent DNA replication DNA ligation"

• obsolete DNA-dependent DNA replication DNA ligation definition "OBSOLETE. The re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase, that contributes to DNA-dependent DNA replication."

  • database_cross_reference "GOC:dph"

  • database_cross_reference "GOC:tb"

  • database_cross_reference "GOC:ai"

• obsolete DNA-dependent DNA replication DNA ligation term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete DNA-dependent DNA replication DNA ligation comment "The reason for obsoletion is that the term represents a molecular function."

obsolete bacterial-type DNA replication DNA ligation http://purl.obolibrary.org/obo/GO_1902327

Removed

• obsolete bacterial-type DNA replication DNA ligation label "bacterial-type DNA replication DNA ligation"

• obsolete bacterial-type DNA replication DNA ligation definition "Any DNA ligation that is involved in bacterial-type DNA replication."

  • database_cross_reference "GOC:TermGenie"

  • database_cross_reference "GOC:mtg_cell_cycle"

• obsolete bacterial-type DNA replication DNA ligation EquivalentTo obsolete DNA ligation and (part of some bacterial-type DNA replication)

• obsolete bacterial-type DNA replication DNA ligation SubClassOf part of some bacterial-type DNA replication

• obsolete bacterial-type DNA replication DNA ligation SubClassOf obsolete cell cycle DNA replication DNA ligation

Added

• obsolete bacterial-type DNA replication DNA ligation deprecated true

• obsolete bacterial-type DNA replication DNA ligation definition "OBSOLETE. Any DNA ligation that is involved in bacterial-type DNA replication."

  • database_cross_reference "GOC:TermGenie"

  • database_cross_reference "GOC:mtg_cell_cycle"

• obsolete bacterial-type DNA replication DNA ligation comment "The reason for obsoletion is that the term represents a molecular function."

• obsolete bacterial-type DNA replication DNA ligation term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete bacterial-type DNA replication DNA ligation label "obsolete bacterial-type DNA replication DNA ligation"

obsolete base-excision repair, DNA ligation http://purl.obolibrary.org/obo/GO_0006288

Removed

• obsolete base-excision repair, DNA ligation definition "The ligation by DNA ligase of DNA strands. Ligation occurs after polymerase action to fill the gap left by the action of endonucleases during base-excision repair."

  • database_cross_reference "ISBN:1550091131"

• obsolete base-excision repair, DNA ligation label "base-excision repair, DNA ligation"

• obsolete base-excision repair, DNA ligation EquivalentTo obsolete DNA ligation and (part of some base-excision repair)

• obsolete base-excision repair, DNA ligation SubClassOf obsolete DNA ligation involved in DNA repair

• obsolete base-excision repair, DNA ligation SubClassOf part of some base-excision repair

Added

• obsolete base-excision repair, DNA ligation label "obsolete base-excision repair, DNA ligation"

• obsolete base-excision repair, DNA ligation definition "OBSOLETE. The ligation by DNA ligase of DNA strands. Ligation occurs after polymerase action to fill the gap left by the action of endonucleases during base-excision repair."

  • database_cross_reference "ISBN:1550091131"

• obsolete base-excision repair, DNA ligation comment "The reason for obsoletion is that the term represents a molecular function."

• obsolete base-excision repair, DNA ligation term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete base-excision repair, DNA ligation deprecated true

obsolete cell cycle DNA replication DNA ligation http://purl.obolibrary.org/obo/GO_1902291

Removed

• obsolete cell cycle DNA replication DNA ligation definition "Any DNA ligation that is involved in cell cycle DNA replication."

  • database_cross_reference "GOC:TermGenie"

  • database_cross_reference "GOC:mtg_cell_cycle"

• obsolete cell cycle DNA replication DNA ligation label "cell cycle DNA replication DNA ligation"

• obsolete cell cycle DNA replication DNA ligation EquivalentTo obsolete DNA ligation and (part of some cell cycle DNA replication)

• obsolete cell cycle DNA replication DNA ligation SubClassOf part of some cell cycle DNA replication

• obsolete cell cycle DNA replication DNA ligation SubClassOf obsolete DNA-dependent DNA replication DNA ligation

• obsolete cell cycle DNA replication DNA ligation SubClassOf cell cycle process

Added

• obsolete cell cycle DNA replication DNA ligation comment "The reason for obsoletion is that the term represents a molecular function."

• obsolete cell cycle DNA replication DNA ligation definition "OBSOLETE. Any DNA ligation that is involved in cell cycle DNA replication."

  • database_cross_reference "GOC:TermGenie"

  • database_cross_reference "GOC:mtg_cell_cycle"

• obsolete cell cycle DNA replication DNA ligation deprecated true

• obsolete cell cycle DNA replication DNA ligation term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete cell cycle DNA replication DNA ligation label "obsolete cell cycle DNA replication DNA ligation"

obsolete mitotic DNA replication DNA ligation http://purl.obolibrary.org/obo/GO_1902973

Removed

• obsolete mitotic DNA replication DNA ligation label "mitotic DNA replication DNA ligation"

• obsolete mitotic DNA replication DNA ligation definition "Any DNA ligation involved in mitotic cell cycle DNA replication."

  • database_cross_reference "GO_REF:0000060"

  • database_cross_reference "GOC:TermGenie"

• obsolete mitotic DNA replication DNA ligation EquivalentTo obsolete nuclear DNA replication DNA ligation and (part of some mitotic DNA replication)

• obsolete mitotic DNA replication DNA ligation SubClassOf obsolete nuclear DNA replication DNA ligation

• obsolete mitotic DNA replication DNA ligation SubClassOf mitotic cell cycle process

• obsolete mitotic DNA replication DNA ligation SubClassOf part of some mitotic DNA replication

Added

• obsolete mitotic DNA replication DNA ligation definition "OBSOLETE. Any DNA ligation involved in mitotic cell cycle DNA replication."

  • database_cross_reference "GO_REF:0000060"

  • database_cross_reference "GOC:TermGenie"

• obsolete mitotic DNA replication DNA ligation term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete mitotic DNA replication DNA ligation comment "The reason for obsoletion is that the term represents a molecular function."

• obsolete mitotic DNA replication DNA ligation deprecated true

• obsolete mitotic DNA replication DNA ligation label "obsolete mitotic DNA replication DNA ligation"

obsolete negative regulation of DNA ligation http://purl.obolibrary.org/obo/GO_0051107

Removed

• obsolete negative regulation of DNA ligation definition "Any process that stops, prevents, or reduces the frequency, rate or extent of DNA ligation, the re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase."

  • database_cross_reference "GOC:ai"

• obsolete negative regulation of DNA ligation label "negative regulation of DNA ligation"

• obsolete negative regulation of DNA ligation EquivalentTo biological regulation and (negatively regulates some obsolete DNA ligation)

• obsolete negative regulation of DNA ligation SubClassOf negative regulation of DNA metabolic process

• obsolete negative regulation of DNA ligation SubClassOf negatively regulates some obsolete DNA ligation

• obsolete negative regulation of DNA ligation SubClassOf obsolete regulation of DNA ligation

Added

• obsolete negative regulation of DNA ligation definition "OBSOLETE. Any process that stops, prevents, or reduces the frequency, rate or extent of DNA ligation, the re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase."

  • database_cross_reference "GOC:ai"

• obsolete negative regulation of DNA ligation deprecated true

• obsolete negative regulation of DNA ligation label "obsolete negative regulation of DNA ligation"

• obsolete negative regulation of DNA ligation term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete negative regulation of DNA ligation comment "The reason for obsoletion is that the term represents a molecular function."

obsolete nuclear DNA replication DNA ligation http://purl.obolibrary.org/obo/GO_1902333

Removed

• obsolete nuclear DNA replication DNA ligation definition "Any DNA ligation that is involved in nuclear cell cycle DNA replication."

  • database_cross_reference "GOC:TermGenie"

  • database_cross_reference "GOC:mtg_cell_cycle"

• obsolete nuclear DNA replication DNA ligation label "nuclear DNA replication DNA ligation"

• obsolete nuclear DNA replication DNA ligation EquivalentTo obsolete DNA ligation and (part of some nuclear DNA replication)

• obsolete nuclear DNA replication DNA ligation SubClassOf part of some nuclear DNA replication

• obsolete nuclear DNA replication DNA ligation SubClassOf obsolete cell cycle DNA replication DNA ligation

Added

• obsolete nuclear DNA replication DNA ligation term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete nuclear DNA replication DNA ligation deprecated true

• obsolete nuclear DNA replication DNA ligation comment "The reason for obsoletion is that the term represents a molecular function."

• obsolete nuclear DNA replication DNA ligation definition "OBSOLETE. Any DNA ligation that is involved in nuclear cell cycle DNA replication."

  • database_cross_reference "GOC:TermGenie"

  • database_cross_reference "GOC:mtg_cell_cycle"

• obsolete nuclear DNA replication DNA ligation label "obsolete nuclear DNA replication DNA ligation"

obsolete positive regulation of DNA ligase activity http://purl.obolibrary.org/obo/GO_1904877

Removed

• obsolete positive regulation of DNA ligase activity label "positive regulation of DNA ligase activity"

• obsolete positive regulation of DNA ligase activity definition "Any process that activates or increases the frequency, rate or extent of DNA ligase activity."

  • database_cross_reference "GOC:BHF_telomere"

  • database_cross_reference "PMID:17389648"

  • database_cross_reference "GOC:TermGenie"

  • database_cross_reference "GOC:rl"

  • database_cross_reference "GOC:BHF"

  • database_cross_reference "GO_REF:0000059"

• obsolete positive regulation of DNA ligase activity in_subset gocheck_obsoletion_candidate

• obsolete positive regulation of DNA ligase activity EquivalentTo biological regulation and (positively regulates some DNA ligase activity)

• obsolete positive regulation of DNA ligase activity SubClassOf positive regulation of ligase activity

• obsolete positive regulation of DNA ligase activity SubClassOf positively regulates some DNA ligase activity

• obsolete positive regulation of DNA ligase activity SubClassOf obsolete positive regulation of DNA ligation

• obsolete positive regulation of DNA ligase activity SubClassOf obsolete regulation of DNA ligase activity

Added

• obsolete positive regulation of DNA ligase activity comment "The reason for obsoletion is that the term represents a molecular function."

• obsolete positive regulation of DNA ligase activity term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete positive regulation of DNA ligase activity definition "OBSOLETE. Any process that activates or increases the frequency, rate or extent of DNA ligase activity."

  • database_cross_reference "GOC:BHF_telomere"

  • database_cross_reference "PMID:17389648"

  • database_cross_reference "GOC:TermGenie"

  • database_cross_reference "GOC:rl"

  • database_cross_reference "GOC:BHF"

  • database_cross_reference "GO_REF:0000059"

• obsolete positive regulation of DNA ligase activity label "obsolete positive regulation of DNA ligase activity"

• obsolete positive regulation of DNA ligase activity deprecated true

obsolete positive regulation of DNA ligation http://purl.obolibrary.org/obo/GO_0051106

Removed

• obsolete positive regulation of DNA ligation label "positive regulation of DNA ligation"

• obsolete positive regulation of DNA ligation definition "Any process that activates or increases the frequency, rate or extent of DNA ligation, the re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase."

  • database_cross_reference "GOC:ai"

• obsolete positive regulation of DNA ligation EquivalentTo biological regulation and (positively regulates some obsolete DNA ligation)

• obsolete positive regulation of DNA ligation SubClassOf positive regulation of DNA metabolic process

• obsolete positive regulation of DNA ligation SubClassOf positively regulates some obsolete DNA ligation

• obsolete positive regulation of DNA ligation SubClassOf obsolete regulation of DNA ligation

Added

• obsolete positive regulation of DNA ligation term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete positive regulation of DNA ligation definition "OBSOLETE. Any process that activates or increases the frequency, rate or extent of DNA ligation, the re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase."

  • database_cross_reference "GOC:ai"

• obsolete positive regulation of DNA ligation deprecated true

• obsolete positive regulation of DNA ligation label "obsolete positive regulation of DNA ligation"

• obsolete positive regulation of DNA ligation comment "The reason for obsoletion is that the term represents a molecular function."

obsolete premeiotic DNA replication DNA ligation http://purl.obolibrary.org/obo/GO_1902972

Removed

• obsolete premeiotic DNA replication DNA ligation label "premeiotic DNA replication DNA ligation"

• obsolete premeiotic DNA replication DNA ligation definition "Any DNA ligation involved in meiotic cell cycle DNA replication."

  • database_cross_reference "GO_REF:0000060"

  • database_cross_reference "GOC:TermGenie"

• obsolete premeiotic DNA replication DNA ligation EquivalentTo obsolete nuclear DNA replication DNA ligation and (part of some premeiotic DNA replication)

• obsolete premeiotic DNA replication DNA ligation SubClassOf part of some premeiotic DNA replication

• obsolete premeiotic DNA replication DNA ligation SubClassOf obsolete nuclear DNA replication DNA ligation

• obsolete premeiotic DNA replication DNA ligation SubClassOf meiotic cell cycle process

Added

• obsolete premeiotic DNA replication DNA ligation deprecated true

• obsolete premeiotic DNA replication DNA ligation definition "OBSOLETE. Any DNA ligation involved in meiotic cell cycle DNA replication."

  • database_cross_reference "GO_REF:0000060"

  • database_cross_reference "GOC:TermGenie"

• obsolete premeiotic DNA replication DNA ligation label "obsolete premeiotic DNA replication DNA ligation"

• obsolete premeiotic DNA replication DNA ligation comment "The reason for obsoletion is that the term represents a molecular function."

• obsolete premeiotic DNA replication DNA ligation term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

obsolete regulation of DNA ligase activity http://purl.obolibrary.org/obo/GO_1904875

Removed

• obsolete regulation of DNA ligase activity label "regulation of DNA ligase activity"

• obsolete regulation of DNA ligase activity in_subset gocheck_obsoletion_candidate

• obsolete regulation of DNA ligase activity definition "Any process that modulates the frequency, rate or extent of DNA ligase activity."

  • database_cross_reference "GOC:BHF_telomere"

  • database_cross_reference "PMID:17389648"

  • database_cross_reference "GOC:TermGenie"

  • database_cross_reference "GOC:rl"

  • database_cross_reference "GOC:BHF"

  • database_cross_reference "GO_REF:0000059"

• obsolete regulation of DNA ligase activity EquivalentTo biological regulation and (regulates some DNA ligase activity)

• obsolete regulation of DNA ligase activity SubClassOf obsolete regulation of DNA ligation

• obsolete regulation of DNA ligase activity SubClassOf regulates some DNA ligase activity

• obsolete regulation of DNA ligase activity SubClassOf regulation of ligase activity

Added

• obsolete regulation of DNA ligase activity definition "OBSOLETE. Any process that modulates the frequency, rate or extent of DNA ligase activity."

  • database_cross_reference "GOC:BHF_telomere"

  • database_cross_reference "PMID:17389648"

  • database_cross_reference "GOC:TermGenie"

  • database_cross_reference "GOC:rl"

  • database_cross_reference "GOC:BHF"

  • database_cross_reference "GO_REF:0000059"

• obsolete regulation of DNA ligase activity comment "The reason for obsoletion is that the term represents a molecular function."

• obsolete regulation of DNA ligase activity deprecated true

• obsolete regulation of DNA ligase activity label "obsolete regulation of DNA ligase activity"

• obsolete regulation of DNA ligase activity term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

obsolete regulation of DNA ligation http://purl.obolibrary.org/obo/GO_0051105

Removed

• obsolete regulation of DNA ligation label "regulation of DNA ligation"

• obsolete regulation of DNA ligation definition "Any process that modulates the frequency, rate or extent of DNA ligation, the re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase."

  • database_cross_reference "GOC:ai"

• obsolete regulation of DNA ligation EquivalentTo biological regulation and (regulates some obsolete DNA ligation)

• obsolete regulation of DNA ligation SubClassOf regulation of DNA metabolic process

• obsolete regulation of DNA ligation SubClassOf regulates some obsolete DNA ligation

Added

• obsolete regulation of DNA ligation definition "OBSOLETE. Any process that modulates the frequency, rate or extent of DNA ligation, the re-formation of a broken phosphodiester bond in the DNA backbone, carried out by DNA ligase."

  • database_cross_reference "GOC:ai"

• obsolete regulation of DNA ligation label "obsolete regulation of DNA ligation"

• obsolete regulation of DNA ligation term tracker item "https://github.com/geneontology/go-ontology/issues/29219"^^[anyURI](http://www.w3.org/2001/XMLSchema#anyURI)

• obsolete regulation of DNA ligation deprecated true

• obsolete regulation of DNA ligation comment "The reason for obsoletion is that the term represents a molecular function."