[Go-diff] GO update 03/03/2009

Remote CVS for Gene Ontology gocvs at genome.stanford.edu
Tue Mar 3 21:30:48 PST 2009 

OBODIFF of gene_ontology_write.obo version 1.463 by 1.464

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0070468
* Created object of type obo:TERM with id GO:0070469
* Created object of type obo:TERM with id GO:0070470
* Created object of type obo:TERM with id GO:0070471
* Created object of type obo:TERM with id GO:0070472
* Created object of type obo:TERM with id GO:0070473
* Created object of type obo:TERM with id GO:0070474
* Created object of type obo:TERM with id GO:0070475
* Created object of type obo:TERM with id GO:0070476
* Populated new object GO:0070468 (macro)
  * Changed name of GO:0070468 from "<new term>" to "dentine secretion"
  * Set definition of GO:0070468 to "The regulated release by odontoblasts of the extracellular matrix constituents, including collagen, that form the basis of dentine."
  * Added definition dbxref GOC:mah to GO:0070468
  * Added definition dbxref http:herkules.oulu.fi/isbn9514270355/html/i259726.html to GO:0070468
  * Added definition dbxref PMID:12856968 to GO:0070468
  * Added synonym "dentin secretion" to GO:0070468
  * Added general dbxref GOC:mah to synonym dentin secretion of GO:0070468
  * Changed synonym scope of GO:0070468 from "Related" to "Exact"
  * Added synonym "predentin secretion" to GO:0070468
  * Added general dbxref http:herkules.oulu.fi/isbn9514270355/html/i259726.html to synonym predentin secretion of GO:0070468
  * Changed synonym scope of GO:0070468 from "Related" to "Exact"
  * Copied GO:0070468 to GO:0070278 with type OBO_REL:is_a
  * Copied GO:0070468 to GO:0042475 with type part_of
  * Assigned namespace "biological_process" to GO:0070468
* Populated new object GO:0070469 (macro)
  * Changed name of GO:0070469 from "<new term>" to "respiratory chain"
  * Set definition of GO:0070469 to "The protein complexes that form the electron transport system (the respiratory chain), associated with a cell membrane, usually the plasma membrane (in prokaryotes) or the inner mitochondrial membrane (on eukaryotes).The respiratory chain complexes transfer electrons from an electron donor to an electron acceptor and are associated with a proton pump to create a transmembrane electrochemical gradient."
  * Added definition dbxref GOC:ecd to GO:0070469
  * Added definition dbxref GOC:mah to GO:0070469
  * Added definition dbxref ISBN:0198547684 to GO:0070469
  * Added synonym "membrane electron transport chain" to GO:0070469
  * Added general dbxref GOC:mah to synonym membrane electron transport chain of GO:0070469
  * Changed synonym scope of GO:0070469 from "Related" to "Exact"
  * Copied GO:0070469 to GO:0044425 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070469
* Populated new object GO:0070470 (macro)
  * Changed name of GO:0070470 from "<new term>" to "plasma membrane respiratory chain"
  * Set definition of GO:0070470 to "A respiratory chain located in the plasma membrane of a cell; made up of the protein complexes that form the mitochondrial electron transport system (the respiratory chain), associated with the plasma membrane. The respiratory chain complexes transfer electrons from an electron donor to an electron acceptor and are associated with a proton pump to create a transmembrane electrochemical gradient."
  * Added definition dbxref GOC:curators to GO:0070470
  * Added definition dbxref GOC:mah to GO:0070470
  * Added definition dbxref ISBN:0198547684 to GO:0070470
  * Added synonym "plasma membrane electron transport chain" to GO:0070470
  * Added general dbxref GOC:mah to synonym plasma membrane electron transport chain of GO:0070470
  * Changed synonym scope of GO:0070470 from "Related" to "Exact"
  * Copied GO:0070470 to GO:0044459 with type OBO_REL:is_a
  * Copied GO:0070470 to GO:0070469 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070470
* Populated new object GO:0070471 (macro)
  * Changed name of GO:0070471 from "<new term>" to "uterine smooth muscle contraction"
  * Set definition of GO:0070471 to "A process whereby force is generated within smooth muscle tissue, resulting in a change in muscle geometry. This process occurs in the uterus. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis. The uterus is a muscular organ of the female mammal for containing and usually for nourishing the young during development prior to birth."
  * Added definition dbxref GOC:sl to GO:0070471
  * Added synonym "myometrial contraction" to GO:0070471
  * Added general dbxref GOC:sl to synonym myometrial contraction of GO:0070471
  * Changed synonym scope of GO:0070471 from "Related" to "Exact"
  * Added synonym "myometrial smooth muscle contraction" to GO:0070471
  * Added general dbxref GOC:sl to synonym myometrial smooth muscle contraction of GO:0070471
  * Changed synonym scope of GO:0070471 from "Related" to "Exact"
  * Added synonym "myometrium contraction" to GO:0070471
  * Added general dbxref GOC:sl to synonym myometrium contraction of GO:0070471
  * Changed synonym scope of GO:0070471 from "Related" to "Exact"
  * Copied GO:0070471 to GO:0006939 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070471
* Populated new object GO:0070472 (macro)
  * Changed name of GO:0070472 from "<new term>" to "regulation of uterine smooth muscle contraction"
  * Set definition of GO:0070472 to "Any process that modulates the frequency, rate or extent of uterine smooth muscle contraction."
  * Added definition dbxref GOC:go_curators to GO:0070472
  * Added synonym "regulation of myometrial contraction" to GO:0070472
  * Added general dbxref GOC:sl to synonym regulation of myometrial contraction of GO:0070472
  * Changed synonym scope of GO:0070472 from "Related" to "Exact"
  * Added synonym "regulation of myometrial smooth muscle contraction" to GO:0070472
  * Added general dbxref GOC:sl to synonym regulation of myometrial smooth muscle contraction of GO:0070472
  * Changed synonym scope of GO:0070472 from "Related" to "Exact"
  * Added synonym "regulation of myometrium contraction" to GO:0070472
  * Added general dbxref GOC:sl to synonym regulation of myometrium contraction of GO:0070472
  * Changed synonym scope of GO:0070472 from "Related" to "Exact"
  * Copied GO:0070472 to GO:0070471 with type regulates
  * Copied GO:0070472 to GO:0006940 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070472
* Populated new object GO:0070473 (macro)
  * Changed name of GO:0070473 from "<new term>" to "negative regulation of uterine smooth muscle contraction"
  * Set definition of GO:0070473 to "Any process that modulates the frequency, rate or extent of uterine smooth muscle contraction."
  * Added definition dbxref GOC:go_curators to GO:0070473
  * Added synonym "down regulation of uterine smooth muscle contraction" to GO:0070473
  * Added general dbxref GOC:mah to synonym down regulation of uterine smooth muscle contraction of GO:0070473
  * Changed synonym scope of GO:0070473 from "Related" to "Exact"
  * Added synonym "down-regulation of uterine smooth muscle contraction" to GO:0070473
  * Added general dbxref GOC:mah to synonym down-regulation of uterine smooth muscle contraction of GO:0070473
  * Changed synonym scope of GO:0070473 from "Related" to "Exact"
  * Added synonym "downregulation of uterine smooth muscle contraction" to GO:0070473
  * Added general dbxref GOC:mah to synonym downregulation of uterine smooth muscle contraction of GO:0070473
  * Changed synonym scope of GO:0070473 from "Related" to "Exact"
  * Added synonym "inhibition of uterine smooth muscle contraction" to GO:0070473
  * Added general dbxref GOC:mah to synonym inhibition of uterine smooth muscle contraction of GO:0070473
  * Changed synonym scope of GO:0070473 from "Related" to "Narrow"
  * Added synonym "negative regulation of myometrial contraction" to GO:0070473
  * Added general dbxref GOC:sl to synonym negative regulation of myometrial contraction of GO:0070473
  * Changed synonym scope of GO:0070473 from "Related" to "Exact"
  * Added synonym "negative regulation of myometrial smooth muscle contraction" to GO:0070473
  * Added general dbxref GOC:sl to synonym negative regulation of myometrial smooth muscle contraction of GO:0070473
  * Changed synonym scope of GO:0070473 from "Related" to "Exact"
  * Added synonym "negative regulation of myometrium contraction" to GO:0070473
  * Added general dbxref GOC:sl to synonym negative regulation of myometrium contraction of GO:0070473
  * Changed synonym scope of GO:0070473 from "Related" to "Exact"
  * Added synonym "uterine smooth muscle relaxation" to GO:0070473
  * Added general dbxref GOC:mah to synonym uterine smooth muscle relaxation of GO:0070473
  * Copied GO:0070473 to GO:0070471 with type negatively_regulates
  * Copied GO:0070473 to GO:0070472 with type OBO_REL:is_a
  * Copied GO:0070473 to GO:0045986 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070473
* Populated new object GO:0070474 (macro)
  * Changed name of GO:0070474 from "<new term>" to "positive regulation of uterine smooth muscle contraction"
  * Set definition of GO:0070474 to "Any process that modulates the frequency, rate or extent of uterine smooth muscle contraction."
  * Added definition dbxref GOC:go_curators to GO:0070474
  * Added synonym "activation of uterine smooth muscle contraction" to GO:0070474
  * Added general dbxref GOC:mah to synonym activation of uterine smooth muscle contraction of GO:0070474
  * Changed synonym scope of GO:0070474 from "Related" to "Narrow"
  * Added synonym "positive regulation of myometrial contraction" to GO:0070474
  * Added general dbxref GOC:sl to synonym positive regulation of myometrial contraction of GO:0070474
  * Changed synonym scope of GO:0070474 from "Related" to "Exact"
  * Added synonym "positive regulation of myometrial smooth muscle contraction" to GO:0070474
  * Added general dbxref GOC:sl to synonym positive regulation of myometrial smooth muscle contraction of GO:0070474
  * Changed synonym scope of GO:0070474 from "Related" to "Exact"
  * Added synonym "positive regulation of myometrium contraction" to GO:0070474
  * Added general dbxref GOC:sl to synonym positive regulation of myometrium contraction of GO:0070474
  * Changed synonym scope of GO:0070474 from "Related" to "Exact"
  * Added synonym "stimulation of uterine smooth muscle contraction" to GO:0070474
  * Added general dbxref GOC:mah to synonym stimulation of uterine smooth muscle contraction of GO:0070474
  * Changed synonym scope of GO:0070474 from "Related" to "Narrow"
  * Added synonym "up regulation of uterine smooth muscle contraction" to GO:0070474
  * Added general dbxref GOC:mah to synonym up regulation of uterine smooth muscle contraction of GO:0070474
  * Changed synonym scope of GO:0070474 from "Related" to "Exact"
  * Added synonym "up-regulation of uterine smooth muscle contraction" to GO:0070474
  * Added general dbxref GOC:mah to synonym up-regulation of uterine smooth muscle contraction of GO:0070474
  * Changed synonym scope of GO:0070474 from "Related" to "Exact"
  * Added synonym "upregulation of uterine smooth muscle contraction" to GO:0070474
  * Added general dbxref GOC:mah to synonym upregulation of uterine smooth muscle contraction of GO:0070474
  * Changed synonym scope of GO:0070474 from "Related" to "Exact"
  * Copied GO:0070474 to GO:0070471 with type positively_regulates
  * Copied GO:0070474 to GO:0070472 with type OBO_REL:is_a
  * Copied GO:0070474 to GO:0045987 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070474
* Populated new object GO:0070475 (macro)
  * Changed name of GO:0070475 from "<new term>" to "rRNA base methylation"
  * Set definition of GO:0070475 to "The addition of a methyl group to an atom in the nucleoside base portion of a nucleotide residue in an rRNA molecule."
  * Added definition dbxref GOC:mah to GO:0070475
  * Copied GO:0070475 to GO:0031167 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070475
* Populated new object GO:0070476 (macro)
  * Changed name of GO:0070476 from "<new term>" to "rRNA (guanine-N7)-methylation"
  * Set definition of GO:0070476 to "The addition of a methyl group to the N7 atom in the base portion of a guanine nucleotide residue in an rRNA molecule."
  * Added definition dbxref GOC:mah to GO:0070476
  * Copied GO:0070476 to GO:0070475 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070476
* Changed definition of GO:0005746 from "The protein complexes that form the mitochondrial electron transport system (the respiratory chain), associated with the inner mitochondrial membrane. Complexes I, III and IV can transport protons if embedded in an oriented membrane, such as an intact mitochondrial inner membrane." to "The protein complexes that form the mitochondrial electron transport system (the respiratory chain), associated with the inner mitochondrial membrane. The respiratory chain complexes transfer electrons from an electron donor to an electron acceptor and are associated with a proton pump to create a transmembrane electrochemical gradient."
* Added definition dbxref GOC:ecd to GO:0005746
* Copied GO:0005746 to GO:0070469 with type OBO_REL:is_a
* Changed definition of GO:0006407 from "The directed movement of rRNA from the nucleus to the cytoplasm." to "The directed movement of rRNA, in the form of ribonucleoproteins, from the nucleus to the cytoplasm."
* Added definition dbxref GOC:mah to GO:0006407
* Added synonym "apoptotic cell death" to GO:0006915
* Added general dbxref GOC:sl to synonym apoptotic cell death of GO:0006915
* Changed synonym scope of GO:0006915 from "Related" to "Exact"
* Deleted definition dbxref http://www.copewithcytokines.de/cope.cgi?001252 from GO:0008009
* Added definition dbxref http://www.copewithcytokines.de/cope.cgi?key=Cytokines to GO:0008009
* Deleted synonym "type II programmed cell death" from GO:0012501
* Added synonym "modification-dependent proteolysis" to GO:0019941
* Added general dbxref GOC:rl to synonym modification-dependent proteolysis of GO:0019941
* Changed synonym scope of GO:0019941 from "Related" to "Exact"
* Added synonym "modification-initiated protein catabolic process" to GO:0019941
* Added general dbxref GOC:rl to synonym modification-initiated protein catabolic process of GO:0019941
* Changed synonym scope of GO:0019941 from "Related" to "Exact"
* Added synonym "modification-initiated protein catabolism" to GO:0019941
* Added general dbxref GOC:rl to synonym modification-initiated protein catabolism of GO:0019941
* Changed synonym scope of GO:0019941 from "Related" to "Exact"
* Added synonym "modification-initiated proteolysis" to GO:0019941
* Added general dbxref GOC:rl to synonym modification-initiated proteolysis of GO:0019941
* Changed synonym scope of GO:0019941 from "Related" to "Exact"
* Changed definition of GO:0032427 from "Interacting selectively with the GBD (GTPase protein binding domain) domain of small GTPases." to "Interacting selectively with the GTPase protein binding domain (GDB) domain of a protein. The GBD is a short motif, inculding a minimum region of 16 amino acids, identified in proteins that bind to small GTPases such as Cdc42 and Rac."
* Added definition dbxref GOC:mah to GO:0032427
* Added definition dbxref PMID:9119069 to GO:0032427
* Added general dbxref PMID:9119069 to synonym CRIB motif binding of GO:0032427
* Added synonym "Cdc42/Rac interactive binding motif binding" to GO:0032427
* Added general dbxref PMID:9119069 to synonym Cdc42/Rac interactive binding motif binding of GO:0032427
* Changed synonym scope of GO:0032427 from "Related" to "Exact"
* Added synonym "P21-Rho-binding domain binding" to GO:0032427
* Added general dbxref GOC:rl to synonym P21-Rho-binding domain binding of GO:0032427
* Changed synonym scope of GO:0032427 from "Related" to "Exact"
* Added synonym "PMD binding" to GO:0032427
* Added general dbxref GOC:rl to synonym PMD binding of GO:0032427
* Changed synonym scope of GO:0032427 from "Related" to "Exact"
* Added synonym "odontogenesis of dentin-containing tooth" to GO:0042475
* Added general dbxref GOC:mah to synonym odontogenesis of dentin-containing tooth of GO:0042475
* Changed synonym scope of GO:0042475 from "Related" to "Exact"
* Added synonym "regulation of odontogenesis of dentin-containing tooth" to GO:0042487
* Added general dbxref GOC:mah to synonym regulation of odontogenesis of dentin-containing tooth of GO:0042487
* Changed synonym scope of GO:0042487 from "Related" to "Exact"
* Added synonym "positive regulation of odontogenesis of dentin-containing tooth" to GO:0042488
* Added general dbxref GOC:mah to synonym positive regulation of odontogenesis of dentin-containing tooth of GO:0042488
* Changed synonym scope of GO:0042488 from "Related" to "Exact"
* Added synonym "negative regulation of odontogenesis of dentin-containing tooth" to GO:0042489
* Added general dbxref GOC:mah to synonym negative regulation of odontogenesis of dentin-containing tooth of GO:0042489
* Changed synonym scope of GO:0042489 from "Related" to "Exact"
* Copied GO:0045271 to GO:0070469 with type part_of
* Copied GO:0045272 to GO:0070470 with type part_of
* Copied GO:0045273 to GO:0070469 with type part_of
* Copied GO:0045274 to GO:0070470 with type part_of
* Copied GO:0045275 to GO:0070469 with type part_of
* Copied GO:0045276 to GO:0070470 with type part_of
* Copied GO:0045277 to GO:0070469 with type part_of
* Copied GO:0045278 to GO:0070470 with type part_of
* Added synonym "type II programmed cell death" to GO:0048102
* Added general dbxref GOC:sl to synonym type II programmed cell death of GO:0048102

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