[go-diff] GO update 08/03/2007

[Remote CVS for Gene Ontology]

OBODIFF of gene_ontology_edit.obo version 5.439 by 5.440

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0033575
* Created object of type obo:TERM with id GO:0033576
* Created object of type obo:TERM with id GO:0033577
* Created object of type obo:TERM with id GO:0033578
* Created object of type obo:TERM with id GO:0033579
* Created object of type obo:TERM with id GO:0033580
* Created object of type obo:TERM with id GO:0033581
* Created object of type obo:TERM with id GO:0033582
* Created object of type obo:TERM with id GO:0033583
* Populated new object GO:0033575 (macro)
  * Changed name of GO:0033575 from "<new term>" to "protein amino acid glycosylation at cell surface"
  * Set definition of GO:0033575 to "The addition of a sugar unit to a protein amino acid at the surface of a cell."
  * Added definition dbxref GOC:mah to GO:0033575
  * Added definition dbxref PMID:12042244 to GO:0033575
  * Copied GO:0033575 to GO:0006486 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033575
* Populated new object GO:0033576 (macro)
  * Changed name of GO:0033576 from "<new term>" to "protein amino acid glycosylation in cytosol"
  * Set definition of GO:0033576 to "The addition of a sugar unit to a protein amino acid in the cytosol."
  * Added definition dbxref GOC:mah to GO:0033576
  * Added definition dbxref PMID:12042244 to GO:0033576
  * Copied GO:0033576 to GO:0006486 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033576
* Populated new object GO:0033577 (macro)
  * Changed name of GO:0033577 from "<new term>" to "protein amino acid glycosylation in endoplasmic reticulum"
  * Set definition of GO:0033577 to "The addition of a sugar unit to a protein amino acid in the endoplasmic reticulum."
  * Added definition dbxref GOC:mah to GO:0033577
  * Added definition dbxref PMID:12042244 to GO:0033577
  * Added synonym "protein amino acid glycosylation in ER" to GO:0033577
  * Changed synonym scope of GO:0033577 from "Related" to "Exact"
  * Copied GO:0033577 to GO:0006486 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033577
* Populated new object GO:0033578 (macro)
  * Changed name of GO:0033578 from "<new term>" to "protein amino acid glycosylation in Golgi"
  * Set definition of GO:0033578 to "The addition of a sugar unit to a protein amino acid in any compartment of the Golgi apparatus."
  * Added definition dbxref GOC:mah to GO:0033578
  * Added definition dbxref PMID:12042244 to GO:0033578
  * Copied GO:0033578 to GO:0006486 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033578
* Populated new object GO:0033579 (macro)
  * Changed name of GO:0033579 from "<new term>" to "protein amino acid galactosylation in endoplasmic reticulum"
  * Set definition of GO:0033579 to "The addition of a galactose unit to a protein amino acid in the endoplasmic reticulum."
  * Added definition dbxref GOC:mah to GO:0033579
  * Added synonym "protein amino acid galactosylation in ER" to GO:0033579
  * Changed synonym scope of GO:0033579 from "Related" to "Exact"
  * Copied GO:0033579 to GO:0033577 with type OBO_REL:is_a
  * Copied GO:0033579 to GO:0042125 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033579
* Populated new object GO:0033580 (macro)
  * Changed name of GO:0033580 from "<new term>" to "protein amino acid galactosylation at cell surface"
  * Set definition of GO:0033580 to "The addition of a galactose unit to a protein amino acid at the surface of a cell."
  * Added definition dbxref GOC:mah to GO:0033580
  * Copied GO:0033580 to GO:0042125 with type OBO_REL:is_a
  * Copied GO:0033580 to GO:0033575 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033580
* Populated new object GO:0033581 (macro)
  * Changed name of GO:0033581 from "<new term>" to "protein amino acid galactosylation in Golgi"
  * Set definition of GO:0033581 to "The addition of a galactose unit to a protein amino acid in any compartment of the Golgi apparatus."
  * Added definition dbxref GOC:mah to GO:0033581
  * Copied GO:0033581 to GO:0042125 with type OBO_REL:is_a
  * Copied GO:0033581 to GO:0033578 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033581
* Populated new object GO:0033582 (macro)
  * Changed name of GO:0033582 from "<new term>" to "protein amino acid galactosylation in cytosol"
  * Set definition of GO:0033582 to "The addition of a galactose unit to a protein amino acid in the cytosol."
  * Added definition dbxref GOC:mah to GO:0033582
  * Copied GO:0033582 to GO:0033576 with type OBO_REL:is_a
  * Copied GO:0033582 to GO:0042125 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033582
* Populated new object GO:0033583 (macro)
  * Changed name of GO:0033583 from "<new term>" to "rhabdomere membrane"
  * Set definition of GO:0033583 to "The portion of the plasma membrane surrounding the rhabdomere."
  * Added definition dbxref GOC:mah to GO:0033583
  * Copied GO:0033583 to GO:0031253 with type OBO_REL:is_a
  * Copied GO:0033583 to GO:0016028 with type part_of
  * Assigned namespace "cellular_component" to GO:0033583
* Changed comment from "Note that this term should be used for the annotation of gene products whose molecular function is unknown by annotating to this node with the evidence code ND, no data." to "Note that, in addition to forming the root of the molecular function ontology, this term is recommended for use for the annotation of gene products whose molecular function is unknown. Note that when this term is used for annotation, it indicates that no information was available about the molecular function of the gene product annotated as of the date the annotation was made; the evidence code ND, no data, is used to indicate this."
* Changed comment from "Note that this term should be used for the annotation of gene products whose cellular component is unknown by annotating to this node with the evidence code ND, no data." to "Note that, in addition to forming the root of the cellular component ontology, this term is recommended for use for the annotation of gene products whose cellular component is unknown. Note that when this term is used for annotation, it indicates that no information was available about the cellular component of the gene product annotated as of the date the annotation was made; the evidence code ND, no data, is used to indicate this."
* Added synonym "peroxisome membrane" to GO:0005778
* Changed synonym scope of GO:0005778 from "Related" to "Exact"
* Added synonym "metabolic energy generation" to GO:0006091
* Changed comment from "Note that this term should be used for the annotation of gene products whose biological process is unknown by annotating to this node with the evidence code ND, no data." to "Note that, in addition to forming the root of the biological process ontology, this term is recommended for use for the annotation of gene products whose biological process is unknown. Note that when this term is used for annotation, it indicates that no information was available about the biological process of the gene product annotated as of the date the annotation was made; the evidence code ND, no data, is used to indicate this."
* Added synonym "uridine monophosphate kinase activity" to GO:0009041
* Changed synonym scope of GO:0009041 from "Related" to "Exact"
* Changed name of GO:0009380 from "excinuclease ABC complex" to "excinuclease repair complex"
* Deleted GO:0009380 --OBO_REL:is_a--> GO:0005941
* Copied GO:0009380 to GO:0044424 with type OBO_REL:is_a
* Copied GO:0009380 to GO:0043234 with type OBO_REL:is_a
* Deleted GO:0016028 --OBO_REL:is_a--> GO:0043232
* Deleted GO:0016028 --OBO_REL:is_a--> GO:0044459
* Copied GO:0016028 to GO:0042995 with type OBO_REL:is_a
* Changed definition of GO:0031261 from "A multiprotein complex assembled at eukaryotic DNA replication origins immediately prior to the initiation of DNA replication. The preinitiation complex is formed by the assembly of additional proteins onto an existing prereplicative complex. In budding yeast, the additional proteins include Cdc45p, Sld2p, Sld3p, Dbp11p, DNA polymerases, and others." to "A multiprotein complex assembled at eukaryotic DNA replication origins immediately prior to the initiation of DNA replication. The preinitiation complex is formed by the assembly of additional proteins onto an existing prereplicative complex. In budding yeast, the additional proteins include Cdc45p, Sld2p, Sld3p, Dpb11p, DNA polymerases, and others."
* Changed definition of GO:0033560 from "Catalysis of the reaction: 7,8-dihydrofolate + NADP+ = folate + NADPH +
H+." to "Catalysis of the reaction: 7,8-dihydrofolate + NADP+ = folate + NADPH + H+."
* Added synonym "flagellum axoneme" to GO:0035086
* Changed synonym scope of GO:0035086 from "Related" to "Exact"
* Deleted GO:0042125 --part_of--> GO:0009101
* Deleted GO:0042125 --OBO_REL:is_a--> GO:0006464
* Copied GO:0042125 to GO:0006486 with type OBO_REL:is_a
* Changed definition of GO:0043874 from "Catalysis of the reactions: 5-(methylthio)-2,3-dioxopentyl phosphate + H2O = 1,2-dihydroxy-5-(methylthio)pent-1-en-3-one + phosphate
(1a) 5-(methylthio)-2,3-dioxopentyl phosphate = 2-hydroxy-5-(methylthio)-3-oxopent-1-enyl phosphate
(1b) 2-hydroxy-5-(methylthio)-3-oxopent-1-enyl phosphate + H2O = 1,2-dihydroxy-5-(methylthio)pent-1-en-3-one + phosphate." to "Catalysis of the reactions: 5-(methylthio)-2,3-dioxopentyl phosphate + H2O = 1,2-dihydroxy-5-(methylthio)pent-1-en-3-one + phosphate (1a) 5-(methylthio)-2,3-dioxopentyl phosphate = 2-hydroxy-5-(methylthio)-3-oxopent-1-enyl phosphate (1b) 2-hydroxy-5-(methylthio)-3-oxopent-1-enyl phosphate + H2O = 1,2-dihydroxy-5-(methylthio)pent-1-en-3-one + phosphate."
* Changed definition of GO:0060164 from "The process controlling the timing and/or rate at which a relatively
unspecialized cell acquires features of a neuron." to "The process controlling the timing and/or rate at which a relatively unspecialized cell acquires features of a neuron."
* Changed definition of GO:0060165 from "The process controlling the timing and/or rate at which a relatively
unspecialized cell in the subpallium acquires features of a neuron. The
subpallium is the base region of the telencephalon." to "The process controlling the timing and/or rate at which a relatively unspecialized cell in the subpallium acquires features of a neuron. The subpallium is the base region of the telencephalon."
* Changed definition of GO:0060166 from "The biological process whose specific outcome is the progression of
the olfactory pit from an initial condition to its mature state. This
process begins with the formation of the olfactory pit, which is an indentation of the olfactory placode, and ends when the pits hollows out to
form the nasopharynx." to "The biological process whose specific outcome is the progression of the olfactory pit from an initial condition to its mature state. This process begins with the formation of the olfactory pit, which is an indentation of the olfactory placode, and ends when the pits hollows out to form the nasopharynx."
* Changed definition of GO:0060167 from "Any process that modulates the frequency, rate or extent of the
adenosine receptor signaling pathway. The adenosine receptor pathway is
the series of molecular signals generated as a consequence of an adenosine
receptor binding to one of its physiological ligands." to "Any process that modulates the frequency, rate or extent of the adenosine receptor signaling pathway. The adenosine receptor pathway is the series of molecular signals generated as a consequence of an adenosine receptor binding to one of its physiological ligands."
* Changed definition of GO:0060168 from "Any process that activates or increases the frequency, rate or extent
of the adenosine receptor signaling pathway. The adenosine receptor pathway
is the series of molecular signals generated as a consequence of an
adenosine receptor binding to one of its physiological ligands." to "Any process that activates or increases the frequency, rate or extent of the adenosine receptor signaling pathway. The adenosine receptor pathway is the series of molecular signals generated as a consequence of an adenosine receptor binding to one of its physiological ligands."
* Changed definition of GO:0060169 from "Any process that stops, prevents or reduces the frequency, rate or
extent of the adenosine receptor signaling pathway. The adenosine receptor pathway is the series of molecular signals generated as a consequence of an adenosine receptor binding to one of its physiological ligands." to "Any process that stops, prevents or reduces the frequency, rate or extent of the adenosine receptor signaling pathway. The adenosine receptor pathway is the series of molecular signals generated as a consequence of an adenosine receptor binding to one of its physiological ligands."