[Go-diff] GO update 05/28/2009

Remote CVS for Gene Ontology gocvs at genome.stanford.edu
Thu May 28 21:30:55 PDT 2009 

OBODIFF of gene_ontology_write.obo version 1.622 by 1.623

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0070651
* Created object of type obo:TERM with id GO:0070652
* Created object of type obo:TERM with id GO:0070653
* Created object of type obo:TERM with id GO:0070654
* Created object of type obo:TERM with id GO:0070655
* Created object of type obo:TERM with id GO:0070656
* Created object of type obo:TERM with id GO:0070657
* Created object of type obo:TERM with id GO:0070658
* Created object of type obo:TERM with id GO:0070659
* Created object of type obo:TERM with id GO:0070660
* Created object of type obo:TERM with id GO:0070661
* Created object of type obo:TERM with id GO:0070662
* Created object of type obo:TERM with id GO:0070663
* Created object of type obo:TERM with id GO:0070664
* Created object of type obo:TERM with id GO:0070665
* Created object of type obo:TERM with id GO:0070666
* Created object of type obo:TERM with id GO:0070667
* Created object of type obo:TERM with id GO:0070668
* Populated new object GO:0070651 (macro)
  * Changed name of GO:0070651 from "<new term>" to "nonfunctional rRNA decay"
  * Set definition of GO:0070651 to "An rRNA catabolic process that results in the targeted detection and degradation of aberrant rRNAs contained within translationally defective ribosomes, thereby acting as a quality-control system."
  * Added definition dbxref GOC:mah to GO:0070651
  * Added definition dbxref GOC:rn to GO:0070651
  * Added definition dbxref PMID:17188037 to GO:0070651
  * Added definition dbxref PMID:19390089 to GO:0070651
  * Added synonym "NRD" to GO:0070651
  * Added general dbxref GOC:rn to synonym NRD of GO:0070651
  * Copied GO:0070651 to GO:0016075 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070651
* Populated new object GO:0070652 (macro)
  * Changed name of GO:0070652 from "<new term>" to "HAUS complex"
  * Set definition of GO:0070652 to "A protein complex that localizes to interphase centrosomes and to mitotic spindle tubules and regulates mitotic spindle assembly and centrosome integrity; in human, the complex consists of eight subunits, some of which are homologous to subunits of the Drosophila Augmin complex."
  * Added definition dbxref PMID:19427217 to GO:0070652
  * Added synonym "HAUS augmin complex" to GO:0070652
  * Added general dbxref GOC:mg3 to synonym HAUS augmin complex of GO:0070652
  * Changed synonym scope of GO:0070652 from "Related" to "Exact"
  * Copied GO:0070652 to GO:0005875 with type OBO_REL:is_a
  * Copied GO:0070652 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070652
* Populated new object GO:0070653 (macro)
  * Changed name of GO:0070653 from "<new term>" to "high-density lipoprotein receptor binding"
  * Set definition of GO:0070653 to "Interacting selectively with a high-density lipoprotein receptor."
  * Added definition dbxref GOC:mah to GO:0070653
  * Added synonym "HDL receptor binding" to GO:0070653
  * Added general dbxref GOC:mah to synonym HDL receptor binding of GO:0070653
  * Changed synonym scope of GO:0070653 from "Related" to "Exact"
  * Copied GO:0070653 to GO:0070325 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070653
* Populated new object GO:0070654 (macro)
  * Changed name of GO:0070654 from "<new term>" to "sensory epithelium regeneration"
  * Set definition of GO:0070654 to "The regrowth of a sensory epithelium following its loss or destruction."
  * Added definition dbxref GOC:dsf to GO:0070654
  * Added definition dbxref PMID:19381250 to GO:0070654
  * Copied GO:0070654 to GO:0042246 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070654
* Populated new object GO:0070655 (macro)
  * Changed name of GO:0070655 from "<new term>" to "mechanosensory epithelium regeneration"
  * Set definition of GO:0070655 to "The regrowth of lost or destroyed mechanosensory epithelia."
  * Added definition dbxref GOC:dsf to GO:0070655
  * Added definition dbxref PMID:19381250 to GO:0070655
  * Copied GO:0070655 to GO:0070654 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070655
* Populated new object GO:0070656 (macro)
  * Changed name of GO:0070656 from "<new term>" to "mechanoreceptor differentiation involved in mechanosensory epithelium regeneration"
  * Set definition of GO:0070656 to "Differentiation of new mechanoreceptors to replace those lost or destroyed by injury."
  * Added definition dbxref GOC:dsf to GO:0070656
  * Added definition dbxref PMID:19381250 to GO:0070656
  * Copied GO:0070656 to GO:0070655 with type part_of
  * Copied GO:0070656 to GO:0042490 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070656
* Populated new object GO:0070657 (macro)
  * Changed name of GO:0070657 from "<new term>" to "neuromast regeneration"
  * Set definition of GO:0070657 to "The regrowth of a neuromast following its loss or destruction."
  * Added definition dbxref GOC:dsf to GO:0070657
  * Added definition dbxref PMID:19381250 to GO:0070657
  * Copied GO:0070657 to GO:0070655 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070657
* Populated new object GO:0070658 (macro)
  * Changed name of GO:0070658 from "<new term>" to "neuromast hair cell differentiation involved in neuromast regeneration"
  * Set definition of GO:0070658 to "Differentiation of new neuromast sensory hair cells to replace those lost or destroyed by injury."
  * Added definition dbxref GOC:dsf to GO:0070658
  * Added definition dbxref PMID:19381250 to GO:0070658
  * Copied GO:0070658 to GO:0070656 with type OBO_REL:is_a
  * Copied GO:0070658 to GO:0048886 with type OBO_REL:is_a
  * Copied GO:0070658 to GO:0070657 with type part_of
  * Assigned namespace "biological_process" to GO:0070658
* Populated new object GO:0070659 (macro)
  * Changed name of GO:0070659 from "<new term>" to "inner ear sensory epithelium regeneration"
  * Set definition of GO:0070659 to "The regrowth of lost or destroyed inner ear sensory epithelia."
  * Added definition dbxref GOC:dsf to GO:0070659
  * Added definition dbxref PMID:19381250 to GO:0070659
  * Copied GO:0070659 to GO:0070655 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070659
* Populated new object GO:0070660 (macro)
  * Changed name of GO:0070660 from "<new term>" to "inner ear receptor cell differentiation involved in inner ear sensory epithelium regeneration"
  * Set definition of GO:0070660 to "Differentiation of new inner ear sensory hair cells to replace those lost or destroyed by injury."
  * Added definition dbxref GOC:dsf to GO:0070660
  * Added definition dbxref PMID:19381250 to GO:0070660
  * Copied GO:0070660 to GO:0060113 with type OBO_REL:is_a
  * Copied GO:0070660 to GO:0070659 with type part_of
  * Copied GO:0070660 to GO:0070656 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070660
* Populated new object GO:0070661 (macro)
  * Changed name of GO:0070661 from "<new term>" to "leukocyte proliferation"
  * Set definition of GO:0070661 to "The expansion of a leukocyte population by cell division."
  * Added definition dbxref GOC:add to GO:0070661
  * Copied GO:0070661 to GO:0008283 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070661
* Populated new object GO:0070662 (macro)
  * Changed name of GO:0070662 from "<new term>" to "mast cell proliferation"
  * Set definition of GO:0070662 to "The expansion of a mast cell population by cell division."
  * Added definition dbxref GOC:add to GO:0070662
  * Copied GO:0070662 to GO:0070661 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070662
* Populated new object GO:0070663 (macro)
  * Changed name of GO:0070663 from "<new term>" to "regulation of leukocyte proliferation"
  * Set definition of GO:0070663 to "Any process that modulates the frequency, rate or extent of leukocyte proliferation."
  * Added definition dbxref GOC:add to GO:0070663
  * Added definition dbxref GOC:mah to GO:0070663
  * Copied GO:0070663 to GO:0070661 with type regulates
  * Copied GO:0070663 to GO:0042127 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070663
* Populated new object GO:0070664 (macro)
  * Changed name of GO:0070664 from "<new term>" to "negative regulation of leukocyte proliferation"
  * Set definition of GO:0070664 to "Any process that stops, prevents or reduces the frequency, rate or extent of leukocyte proliferation."
  * Added definition dbxref GOC:add to GO:0070664
  * Added definition dbxref GOC:mah to GO:0070664
  * Added synonym "down regulation of leukocyte proliferation" to GO:0070664
  * Added general dbxref GOC:mah to synonym down regulation of leukocyte proliferation of GO:0070664
  * Changed synonym scope of GO:0070664 from "Related" to "Exact"
  * Added synonym "down-regulation of leukocyte proliferation" to GO:0070664
  * Added general dbxref GOC:mah to synonym down-regulation of leukocyte proliferation of GO:0070664
  * Changed synonym scope of GO:0070664 from "Related" to "Exact"
  * Added synonym "downregulation of leukocyte proliferation" to GO:0070664
  * Added general dbxref GOC:mah to synonym downregulation of leukocyte proliferation of GO:0070664
  * Changed synonym scope of GO:0070664 from "Related" to "Exact"
  * Added synonym "inhibition of leukocyte proliferation" to GO:0070664
  * Added general dbxref GOC:mah to synonym inhibition of leukocyte proliferation of GO:0070664
  * Changed synonym scope of GO:0070664 from "Related" to "Narrow"
  * Copied GO:0070664 to GO:0070663 with type OBO_REL:is_a
  * Copied GO:0070664 to GO:0070661 with type negatively_regulates
  * Copied GO:0070664 to GO:0008285 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070664
* Populated new object GO:0070665 (macro)
  * Changed name of GO:0070665 from "<new term>" to "positive regulation of leukocyte proliferation"
  * Set definition of GO:0070665 to "Any process that activates or increases the frequency, rate or extent of leukocyte proliferation."
  * Added definition dbxref GOC:add to GO:0070665
  * Added definition dbxref GOC:mah to GO:0070665
  * Added synonym "activation of leukocyte proliferation" to GO:0070665
  * Added general dbxref GOC:mah to synonym activation of leukocyte proliferation of GO:0070665
  * Changed synonym scope of GO:0070665 from "Related" to "Narrow"
  * Added synonym "stimulation of leukocyte proliferation" to GO:0070665
  * Added general dbxref GOC:mah to synonym stimulation of leukocyte proliferation of GO:0070665
  * Changed synonym scope of GO:0070665 from "Related" to "Narrow"
  * Added synonym "up regulation of leukocyte proliferation" to GO:0070665
  * Added general dbxref GOC:mah to synonym up regulation of leukocyte proliferation of GO:0070665
  * Changed synonym scope of GO:0070665 from "Related" to "Exact"
  * Added synonym "up-regulation of leukocyte proliferation" to GO:0070665
  * Added general dbxref GOC:mah to synonym up-regulation of leukocyte proliferation of GO:0070665
  * Changed synonym scope of GO:0070665 from "Related" to "Exact"
  * Added synonym "upregulation of leukocyte proliferation" to GO:0070665
  * Added general dbxref GOC:mah to synonym upregulation of leukocyte proliferation of GO:0070665
  * Changed synonym scope of GO:0070665 from "Related" to "Exact"
  * Copied GO:0070665 to GO:0008284 with type OBO_REL:is_a
  * Copied GO:0070665 to GO:0070663 with type OBO_REL:is_a
  * Copied GO:0070665 to GO:0070661 with type positively_regulates
  * Assigned namespace "biological_process" to GO:0070665
* Populated new object GO:0070666 (macro)
  * Changed name of GO:0070666 from "<new term>" to "regulation of mast cell proliferation"
  * Set definition of GO:0070666 to "Any process that modulates the frequency, rate or extent of mast cell proliferation."
  * Added definition dbxref GOC:add to GO:0070666
  * Added definition dbxref GOC:mah to GO:0070666
  * Copied GO:0070666 to GO:0070663 with type OBO_REL:is_a
  * Copied GO:0070666 to GO:0070662 with type regulates
  * Assigned namespace "biological_process" to GO:0070666
* Populated new object GO:0070667 (macro)
  * Changed name of GO:0070667 from "<new term>" to "negative regulation of mast cell proliferation"
  * Set definition of GO:0070667 to "Any process that stops, prevents or reduces the rate or extent of mast cell proliferation."
  * Added definition dbxref GOC:add to GO:0070667
  * Added definition dbxref GOC:mah to GO:0070667
  * Added synonym "down regulation of mast cell proliferation" to GO:0070667
  * Added general dbxref GOC:mah to synonym down regulation of mast cell proliferation of GO:0070667
  * Changed synonym scope of GO:0070667 from "Related" to "Exact"
  * Added synonym "down-regulation of mast cell proliferation" to GO:0070667
  * Added general dbxref GOC:mah to synonym down-regulation of mast cell proliferation of GO:0070667
  * Changed synonym scope of GO:0070667 from "Related" to "Exact"
  * Added synonym "downregulation of mast cell proliferation" to GO:0070667
  * Added general dbxref GOC:mah to synonym downregulation of mast cell proliferation of GO:0070667
  * Changed synonym scope of GO:0070667 from "Related" to "Exact"
  * Added synonym "inhibition of mast cell proliferation" to GO:0070667
  * Added general dbxref GOC:mah to synonym inhibition of mast cell proliferation of GO:0070667
  * Changed synonym scope of GO:0070667 from "Related" to "Narrow"
  * Copied GO:0070667 to GO:0070664 with type OBO_REL:is_a
  * Copied GO:0070667 to GO:0070662 with type negatively_regulates
  * Copied GO:0070667 to GO:0070666 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070667
* Populated new object GO:0070668 (macro)
  * Changed name of GO:0070668 from "<new term>" to "positive regulation of mast cell proliferation"
  * Set definition of GO:0070668 to "Any process that activates or increases the rate or extent of mast cell proliferation."
  * Added definition dbxref GOC:add to GO:0070668
  * Added definition dbxref GOC:mah to GO:0070668
  * Added synonym "activation of mast cell proliferation" to GO:0070668
  * Added general dbxref GOC:mah to synonym activation of mast cell proliferation of GO:0070668
  * Changed synonym scope of GO:0070668 from "Related" to "Narrow"
  * Added synonym "stimulation of mast cell proliferation" to GO:0070668
  * Added general dbxref GOC:mah to synonym stimulation of mast cell proliferation of GO:0070668
  * Changed synonym scope of GO:0070668 from "Related" to "Narrow"
  * Added synonym "up regulation of mast cell proliferation" to GO:0070668
  * Added general dbxref GOC:mah to synonym up regulation of mast cell proliferation of GO:0070668
  * Changed synonym scope of GO:0070668 from "Related" to "Exact"
  * Added synonym "up-regulation of mast cell proliferation" to GO:0070668
  * Added general dbxref GOC:mah to synonym up-regulation of mast cell proliferation of GO:0070668
  * Changed synonym scope of GO:0070668 from "Related" to "Exact"
  * Added synonym "upregulation of mast cell proliferation" to GO:0070668
  * Added general dbxref GOC:mah to synonym upregulation of mast cell proliferation of GO:0070668
  * Changed synonym scope of GO:0070668 from "Related" to "Exact"
  * Copied GO:0070668 to GO:0070662 with type positively_regulates
  * Copied GO:0070668 to GO:0070666 with type OBO_REL:is_a
  * Copied GO:0070668 to GO:0070665 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070668
* Deleted synonym "slayed Y-form DNA binding" from GO:0000403
* Added synonym "splayed Y-form DNA binding" to GO:0000403
* Changed synonym scope of GO:0000403 from "Related" to "Exact"
* Added comment "This term was made obsolete because tRNA thionucleotide formation is a multistep process; there is no single reaction in which cysteine reacts with an activated tRNA directly"
* Changed definition of GO:0016227 from "Catalysis of the reaction: L-cysteine + 'activated' tRNA = L-serine + tRNA containing a thionucleotide." to "OBSOLETE. Catalysis of the reaction: L-cysteine + 'activated' tRNA = L-serine + tRNA containing a thionucleotide."
* Deleted GO:0016227 --OBO_REL:is_a--> GO:0016783
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 1289cb
* Copied GO:0030889 to GO:0070667 with type OBO_REL:is_a
* Copied GO:0030890 to GO:0070668 with type OBO_REL:is_a
* Copied GO:0032818 to GO:0070667 with type OBO_REL:is_a
* Copied GO:0032819 to GO:0070668 with type OBO_REL:is_a
* Deleted GO:0032943 --OBO_REL:is_a--> GO:0008283
* Copied GO:0032943 to GO:0070661 with type OBO_REL:is_a
* Added comment "This term was made obsolete because it was derived from a UM-BBD enzyme entry that has been deleted, and no other information can be found to suggest that it is a naturally occurring activity."
* Changed definition of GO:0034883 from "Catalysis of the reaction: isonicotinate + 2 H+ + 2 e- = 1,4-dihydroisonicotinate." to "OBSOLETE. Catalysis of the reaction: isonicotinate + 2 H+ + 2 e- = 1,4-dihydroisonicotinate."
* Deleted GO:0034883 --OBO_REL:is_a--> GO:0016627
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 1149fb3
* Added comment "This term was made obsolete because it was derived from a UM-BBD enzyme entry that has been deleted, and no other information can be found to suggest that it is a naturally occurring activity."
* Changed definition of GO:0034884 from "Catalysis of the reaction: gamma-N-formylaminovinylacetaldehyde + H2O = gamma-N-formylaminovinylacetate + 2 H+ + 2 e-." to "OBSOLETE. Catalysis of the reaction: gamma-N-formylaminovinylacetaldehyde + H2O = gamma-N-formylaminovinylacetate + 2 H+ + 2 e-."
* Deleted GO:0034884 --OBO_REL:is_a--> GO:0016903
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 100d290
* Added comment "This term was made obsolete because it was derived from a UM-BBD enzyme entry that has been deleted, and no other information can be found to suggest that it is a naturally occurring activity."
* Changed definition of GO:0034887 from "Catalysis of the reaction: 1,4-dihydroisonicotinate + O2 = gamma-N-formylaminovinylacetaldehyde + CO2." to "OBSOLETE. Catalysis of the reaction: 1,4-dihydroisonicotinate + O2 = gamma-N-formylaminovinylacetaldehyde + CO2."
* Deleted GO:0034887 --OBO_REL:is_a--> GO:0016702
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at fff4a8
* Copied GO:0042102 to GO:0070668 with type OBO_REL:is_a
* Copied GO:0042130 to GO:0070667 with type OBO_REL:is_a
* Added general dbxref Wikipedia:Estrous_cycle to GO:0060206
* Deleted general dbxref Wikipedia:Estrous_cycle from GO:0060209
* Copied GO:0060603 to GO:0009653 with type OBO_REL:is_a
* Added synonym "D-ribosylnicotinate hydrolase activity" to GO:0070636
* Added general dbxref GOC:mah to synonym D-ribosylnicotinate hydrolase activity of GO:0070636
* Changed synonym scope of GO:0070636 from "Related" to "Exact"
* Added synonym "nicotinate ribonucleoside hydrolase activity" to GO:0070636
* Added general dbxref GOC:mah to synonym nicotinate ribonucleoside hydrolase activity of GO:0070636
* Changed synonym scope of GO:0070636 from "Related" to "Exact"
* Added synonym "nicotinate riboside hydrolase activity" to GO:0070636
* Added general dbxref GOC:mah to synonym nicotinate riboside hydrolase activity of GO:0070636
* Changed synonym scope of GO:0070636 from "Related" to "Exact"

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