[Go-diff] GO update 09/23/2008

Remote CVS for Gene Ontology gocvs at genome.stanford.edu
Tue Sep 23 21:30:46 PDT 2008 

OBODIFF of gene_ontology_write.obo version 1.226 by 1.229

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0060317
* Created object of type obo:TERM with id GO:0060318
* Created object of type obo:TERM with id GO:0060319
* Created object of type obo:TERM with id GO:0070018
* Created object of type obo:TERM with id GO:0070019
* Created object of type obo:TERM with id GO:0070020
* Created object of type obo:TERM with id GO:0070021
* Created object of type obo:TERM with id GO:0070022
* Created object of type obo:TERM with id GO:0070023
* Created object of type obo:TERM with id GO:0070024
* Populated new object GO:0060317 (macro)
  * Changed name of GO:0060317 from "<new term>" to "cardiac epithelial to mesenchymal transition"
  * Set definition of GO:0060317 to "A transition where a cardiac endothelial cell loses apical/basolateral polarity, severs intercellular adhesive junctions, degrades basement membrane components and becomes a migratory mesenchymal cell."
  * Added definition dbxref GOC:dph to GO:0060317
  * Added definition dbxref PMID:16314491 to GO:0060317
  * Added definition dbxref PMID:1996351 to GO:0060317
  * Added synonym "heart epithelial to mesenchymal transition" to GO:0060317
  * Changed synonym scope of GO:0060317 from "Related" to "Exact"
  * Copied GO:0060317 to GO:0003007 with type part_of
  * Copied GO:0060317 to GO:0001837 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060317
* Populated new object GO:0060318 (macro)
  * Changed name of GO:0060318 from "<new term>" to "definitive erythrocyte differentiation"
  * Set definition of GO:0060318 to "Erythrocyte differentiation which occurs as part of the process of definitive hemopoiesis."
  * Added definition dbxref GOC:adiehl to GO:0060318
  * Added definition dbxref GOC:dph to GO:0060318
  * Added synonym "definitive erythropoiesis" to GO:0060318
  * Changed synonym scope of GO:0060318 from "Related" to "Exact"
  * Copied GO:0060318 to GO:0060216 with type part_of
  * Copied GO:0060318 to GO:0030218 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060318
* Populated new object GO:0060319 (macro)
  * Changed name of GO:0060319 from "<new term>" to "primitive erythrocyte differentiation"
  * Set definition of GO:0060319 to "Erythrocyte differentiation which occurs as part of the process of primitive hemopoiesis."
  * Added definition dbxref GOC:adiehl to GO:0060319
  * Added definition dbxref GOC:dph to GO:0060319
  * Added synonym "primitive erythropoiesis" to GO:0060319
  * Added general dbxref GOC:adiehl to synonym primitive erythropoiesis of GO:0060319
  * Added general dbxref GOC:dph to synonym primitive erythropoiesis of GO:0060319
  * Changed synonym scope of GO:0060319 from "Related" to "Exact"
  * Copied GO:0060319 to GO:0060215 with type part_of
  * Copied GO:0060319 to GO:0030218 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060319
* Populated new object GO:0070018 (macro)
  * Changed name of GO:0070018 from "<new term>" to "transforming growth factor beta type I receptor complex"
  * Set definition of GO:0070018 to "A receptor complex that consists of two transforming growth factor beta (TGF-beta) type I receptor monomers. TGF-beta type I receptor dimers form in the presence or absence of ligand, and can associate with ligand-bound TGF-beta type II receptor dimers."
  * Added definition dbxref Reactome:REACT_7737 to GO:0070018
  * Added synonym "TGF-beta type I receptor complex" to GO:0070018
  * Changed synonym scope of GO:0070018 from "Related" to "Exact"
  * Added synonym "TGF-beta type I receptor dimer" to GO:0070018
  * Added general dbxref Reactome:REACT_7737 to synonym TGF-beta type I receptor dimer of GO:0070018
  * Changed synonym scope of GO:0070018 from "Related" to "Exact"
  * Copied GO:0070018 to GO:0044459 with type OBO_REL:is_a
  * Copied GO:0070018 to GO:0070022 with type OBO_REL:is_a
  * Copied GO:0070018 to GO:0005887 with type part_of
  * Assigned namespace "cellular_component" to GO:0070018
* Populated new object GO:0070019 (macro)
  * Changed name of GO:0070019 from "<new term>" to "transforming growth factor beta type II receptor complex"
  * Set definition of GO:0070019 to "A receptor complex that consists of two transforming growth factor beta (TGF-beta) type II receptor monomers. TGF-beta type II receptor dimers form in the presence or absence of ligand, and upon ligand binding can associate with TGF-beta type I receptor dimers."
  * Added definition dbxref Reactome:REACT_7415 to GO:0070019
  * Added synonym "TGF-beta type II receptor complex" to GO:0070019
  * Changed synonym scope of GO:0070019 from "Related" to "Exact"
  * Added synonym "TGF-beta type II receptor dimer" to GO:0070019
  * Added general dbxref Reactome:REACT_7415 to synonym TGF-beta type II receptor dimer of GO:0070019
  * Changed synonym scope of GO:0070019 from "Related" to "Exact"
  * Copied GO:0070019 to GO:0070022 with type OBO_REL:is_a
  * Copied GO:0070019 to GO:0005887 with type part_of
  * Copied GO:0070019 to GO:0044459 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070019
* Populated new object GO:0070020 (macro)
  * Changed name of GO:0070020 from "<new term>" to "transforming growth factor beta1-type II receptor complex"
  * Set definition of GO:0070020 to "A protein complex that consists of a dimeric transforming growth factor beta (TGF-beta) type II receptor bound to a TGF-beta1 dimer."
  * Added definition dbxref Reactome:REACT_7218 to GO:0070020
  * Added GO:0070020 to category goslim_pir
  * Added synonym "TGF-beta receptor II-TGF-beta1 complex" to GO:0070020
  * Changed synonym scope of GO:0070020 from "Related" to "Exact"
  * Added synonym "TGF-beta1-type II receptor complex" to GO:0070020
  * Added general dbxref Reactome:REACT_7218 to synonym TGF-beta1-type II receptor complex of GO:0070020
  * Changed synonym scope of GO:0070020 from "Related" to "Exact"
  * Copied GO:0070020 to GO:0043234 with type OBO_REL:is_a
  * Copied GO:0070020 to GO:0044459 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070020
* Populated new object GO:0070021 (macro)
  * Changed name of GO:0070021 from "<new term>" to "transforming growth factor beta1-type II receptor-type I receptor complex"
  * Set definition of GO:0070021 to "A protein complex that is formed by the association of a ligand-bound TGF-beta type II receptor dimer with a TGF-beta type I receptor dimer."
  * Added definition dbxref Reactome:REACT_7425 to GO:0070021
  * Added GO:0070021 to category goslim_pir
  * Added synonym "TGF-beta 1:type II receptor:type I receptor complex" to GO:0070021
  * Added general dbxref Reactome:REACT_7425 to synonym TGF-beta 1:type II receptor:type I receptor complex of GO:0070021
  * Changed synonym scope of GO:0070021 from "Related" to "Exact"
  * Added synonym "TGF-beta receptor II-TGF-beta receptor I-TGF-beta1 complex" to GO:0070021
  * Changed synonym scope of GO:0070021 from "Related" to "Exact"
  * Added synonym "TGF-beta1-type II receptor-type I receptor complex" to GO:0070021
  * Changed synonym scope of GO:0070021 from "Related" to "Exact"
  * Copied GO:0070021 to GO:0043234 with type OBO_REL:is_a
  * Copied GO:0070021 to GO:0044459 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070021
* Populated new object GO:0070022 (macro)
  * Changed name of GO:0070022 from "<new term>" to "transforming growth factor beta receptor complex"
  * Set definition of GO:0070022 to "A dimeric receptor complex that binds transforming growth factor beta (TGF-beta); consists of two TGF-beta receptor monomers."
  * Added definition dbxref GOC:mah to GO:0070022
  * Added definition dbxref Reactome:REACT_7415 to GO:0070022
  * Added definition dbxref Reactome:REACT_7737 to GO:0070022
  * Added synonym "TGF-beta receptor complex" to GO:0070022
  * Changed synonym scope of GO:0070022 from "Related" to "Exact"
  * Copied GO:0070022 to GO:0005887 with type part_of
  * Copied GO:0070022 to GO:0044459 with type OBO_REL:is_a
  * Copied GO:0070022 to GO:0043235 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070022
* Populated new object GO:0070023 (macro)
  * Changed name of GO:0070023 from "<new term>" to "interleukin12-interleukin-12 receptor complex"
  * Set definition of GO:0070023 to "A protein complex that is formed by the association of a heterodimeric interleukin-12 receptor complex with an interleukin-12 heterodimer."
  * Added definition dbxref PMID:11900991 to GO:0070023
  * Added GO:0070023 to category goslim_pir
  * Added synonym "IL12-IL12 receptor complex" to GO:0070023
  * Changed synonym scope of GO:0070023 from "Related" to "Exact"
  * Added synonym "IL12B-IL12RB1-IL12RB2 complex" to GO:0070023
  * Added general dbxref CORUM:2020 to synonym IL12B-IL12RB1-IL12RB2 complex of GO:0070023
  * Copied GO:0070023 to GO:0043234 with type OBO_REL:is_a
  * Copied GO:0070023 to GO:0044459 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070023
* Populated new object GO:0070024 (macro)
  * Changed name of GO:0070024 from "<new term>" to "CD19-Vav-PIK3R1 complex"
  * Set definition of GO:0070024 to "A protein complex that contains the cell surface signaling molecule CD19, the Ras guanine nucleotide exchange factor Vav, and the regulatory subunit alpha of phosphatidylinositol 3-kinase (PI3K)."
  * Added definition dbxref PMID:7528218 to GO:0070024
  * Added GO:0070024 to category goslim_pir
  * Added synonym "CD19-Vav-PI 3-kinase (p85 subunit) complex" to GO:0070024
  * Added general dbxref CORUM:2574 to synonym CD19-Vav-PI 3-kinase (p85 subunit) complex of GO:0070024
  * Changed synonym scope of GO:0070024 from "Related" to "Exact"
  * Copied GO:0070024 to GO:0043234 with type OBO_REL:is_a
  * Copied GO:0070024 to GO:0044459 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070024
* Deleted GO:0001692 --OBO_REL:is_a--> GO:0042133
* Deleted GO:0001694 --OBO_REL:is_a--> GO:0042136
* Deleted GO:0001821 --OBO_REL:is_a--> GO:0046879
* Deleted GO:0001821 --OBO_REL:is_a--> GO:0007269
* Deleted GO:0001837 --OBO_REL:is_a--> GO:0014031
* Copied GO:0001837 to GO:0000904 with type OBO_REL:is_a
* Copied GO:0001837 to GO:0014031 with type part_of
* Copied GO:0002441 to GO:0046879 with type OBO_REL:is_a
* Changed definition of GO:0005072 from "Activity of any of the molecules that transmit the signal from a TGFbeta receptor through the cytoplasm to the nucleus." to "Activity of any of the molecules that transmit the signal from a TGF-beta receptor through the cytoplasm to the nucleus."
* Deleted GO:0006837 --OBO_REL:is_a--> GO:0006836
* Copied GO:0006837 to GO:0006810 with type OBO_REL:is_a
* Changed definition of GO:0007181 from "The aggregation, arrangement and bonding together of a type II transforming growth factor beta (TGFbeta) receptor dimer with a type I TGFbeta receptor dimer, following ligand binding, to form a heterotetrameric TGFbeta receptor complex." to "The aggregation, arrangement and bonding together of a ligand-bound type II transforming growth factor beta (TGF-beta) receptor dimer with a type I TGF-beta receptor dimer, following ligand binding, to form a heterotetrameric TGF-beta receptor complex."
* Added definition dbxref Reactome:REACT_7425 to GO:0007181
* Added synonym "TGF-beta:type II receptor:type I receptor complex assembly" to GO:0007181
* Changed synonym scope of GO:0007181 from "Related" to "Exact"
* Changed definition of GO:0008328 from "A multimeric assembly of four or five subunits which form a structure with an extracellular N-terminus and a large loop that together form the ligand binding domain. The C-terminus is intracellular. The ionotropic glutamate receptor complex itself acts as a ligand gated ion channel; on binding glutamate, charged ions pass through a channel in the center of the receptor complex." to "A multimeric assembly of four or five subunits which form a structure with an extracellular N-terminus and a large loop that together form the ligand binding domain. The C-terminus is intracellular. The ionotropic glutamate receptor complex itself acts as a ligand-gated ion channel; on binding glutamate, charged ions pass through a channel in the center of the receptor complex."
* Deleted GO:0010585 --OBO_REL:is_a--> GO:0046903
* Copied GO:0010585 to GO:0032940 with type OBO_REL:is_a
* Deleted GO:0014047 --OBO_REL:is_a--> GO:0007269
* Copied GO:0014047 to GO:0032940 with type OBO_REL:is_a
* Copied GO:0014047 to GO:0003001 with type OBO_REL:is_a
* Deleted GO:0014048 --OBO_REL:is_a--> GO:0046928
* Copied GO:0014048 to GO:0051046 with type OBO_REL:is_a
* Deleted GO:0014049 --OBO_REL:is_a--> GO:0001956
* Copied GO:0014049 to GO:0051047 with type OBO_REL:is_a
* Deleted GO:0014050 --OBO_REL:is_a--> GO:0046929
* Copied GO:0014050 to GO:0051048 with type OBO_REL:is_a
* Deleted GO:0014051 --OBO_REL:is_a--> GO:0007269
* Copied GO:0014051 to GO:0003001 with type OBO_REL:is_a
* Deleted GO:0014052 --OBO_REL:is_a--> GO:0046928
* Copied GO:0014052 to GO:0051046 with type OBO_REL:is_a
* Deleted GO:0014053 --OBO_REL:is_a--> GO:0046929
* Copied GO:0014053 to GO:0051048 with type OBO_REL:is_a
* Deleted GO:0014054 --OBO_REL:is_a--> GO:0001956
* Copied GO:0014054 to GO:0051047 with type OBO_REL:is_a
* Changed definition of GO:0017015 from "Any process that modulates the frequency, rate or extent of activity of any TGFbeta receptor signaling pathway." to "Any process that modulates the frequency, rate or extent of activity of any TGF-beta receptor signaling pathway."
* Added synonym "erythropoiesis" to GO:0030218
* Added general dbxref GOC:adiehl to synonym erythropoiesis of GO:0030218
* Added general dbxref GOC:dph to synonym erythropoiesis of GO:0030218
* Changed synonym scope of GO:0030218 from "Related" to "Exact"
* Changed definition of GO:0030511 from "Any process that activates or increases the frequency, rate or extent of TGFbeta receptor signaling pathway activity." to "Any process that activates or increases the frequency, rate or extent of TGF-beta receptor signaling pathway activity."
* Changed definition of GO:0030512 from "Any process that stops, prevents or reduces the frequency, rate or extent of any TGFbeta receptor signaling pathway." to "Any process that stops, prevents or reduces the frequency, rate or extent of any TGF-beta receptor signaling pathway."
* Changed definition of GO:0030616 from "A TGFbeta cytoplasmic mediator that forms a complex with a phosphorylated pathway-specific mediator. The heterocomplex translocates to the nucleus to regulate transcription." to "A TGF-beta cytoplasmic mediator that forms a complex with a phosphorylated pathway-specific mediator. The heterocomplex translocates to the nucleus to regulate transcription."
* Changed definition of GO:0030617 from "A TGFbeta cytoplasmic mediator that inhibits the signaling function of common-partner and pathway-specific mediators." to "A TGF-beta cytoplasmic mediator that inhibits the signaling function of common-partner and pathway-specific mediators."
* Changed definition of GO:0030618 from "A TGFbeta cytoplasmic mediator that is phosphorylated by a TGFbeta receptor and complexes with a common-partner mediator. The heterocomplex translocates to the nucleus to regulate transcription." to "A TGF-beta cytoplasmic mediator that is phosphorylated by a TGFbeta receptor and complexes with a common-partner mediator. The- heterocomplex translocates to the nucleus to regulate transcription."
* Deleted GO:0034229 --OBO_REL:is_a--> GO:0006836
* Copied GO:0034229 to GO:0006810 with type OBO_REL:is_a
* Deleted GO:0035240 --OBO_REL:is_a--> GO:0042165
* Copied GO:0035240 to GO:0043176 with type OBO_REL:is_a
* Deleted GO:0042414 --OBO_REL:is_a--> GO:0042445
* Deleted GO:0042414 --OBO_REL:is_a--> GO:0042133
* Deleted GO:0042415 --OBO_REL:is_a--> GO:0042445
* Deleted GO:0042415 --OBO_REL:is_a--> GO:0042133
* Deleted GO:0042416 --OBO_REL:is_a--> GO:0042136
* Deleted GO:0042417 --OBO_REL:is_a--> GO:0042133
* Deleted GO:0042418 --OBO_REL:is_a--> GO:0042136
* Deleted GO:0042418 --OBO_REL:is_a--> GO:0042446
* Deleted GO:0042419 --OBO_REL:is_a--> GO:0042447
* Deleted GO:0042419 --OBO_REL:is_a--> GO:0042135
* Deleted GO:0042420 --OBO_REL:is_a--> GO:0042135
* Deleted GO:0042421 --OBO_REL:is_a--> GO:0042446
* Deleted GO:0042421 --OBO_REL:is_a--> GO:0042136
* Deleted GO:0042422 --OBO_REL:is_a--> GO:0042447
* Deleted GO:0042422 --OBO_REL:is_a--> GO:0042135
* Deleted GO:0042427 --OBO_REL:is_a--> GO:0042446
* Deleted GO:0042427 --OBO_REL:is_a--> GO:0042136
* Deleted GO:0042429 --OBO_REL:is_a--> GO:0042447
* Deleted GO:0042429 --OBO_REL:is_a--> GO:0042135
* Deleted GO:0042923 --OBO_REL:is_a--> GO:0042165
* Changed definition of GO:0043514 from "Secreted heterodimeric cytokine complex composed of an interleukin-12 alpha and an interleukin-12 beta subunit." to "A protein complex that is composed of an interleukin-12 alpha and an interleukin-12 beta subunit and is secreted into the extracellular space."
* Added definition dbxref GOC:mah to GO:0043514
* Changed definition of GO:0045189 from "The chemical reactions and pathways resulting in the formation of CTGF, produced by human umbilical vein endothelial cells and by skin fibroblasts after activation with TGFbeta." to "The chemical reactions and pathways resulting in the formation of CTGF, produced by human umbilical vein endothelial cells and by skin fibroblasts after activation with TGF-beta."
* Changed definition of GO:0050431 from "Interacting selectively with TGFbeta, transforming growth factor beta, a multifunctional peptide that controls proliferation, differentiation and other functions in many cell types." to "Interacting selectively with TGF-beta, transforming growth factor beta, a multifunctional peptide that controls proliferation, differentiation and other functions in many cell types."
* Deleted GO:0050432 --OBO_REL:is_a--> GO:0046903
* Copied GO:0050432 to GO:0032940 with type OBO_REL:is_a
* Deleted GO:0051378 --OBO_REL:is_a--> GO:0042165
* Deleted GO:0051378 --OBO_REL:is_a--> GO:0042562
* Deleted GO:0051379 --OBO_REL:is_a--> GO:0042562
* Deleted GO:0051379 --OBO_REL:is_a--> GO:0042165
* Deleted GO:0051380 --OBO_REL:is_a--> GO:0042562
* Deleted GO:0051380 --OBO_REL:is_a--> GO:0042165
* Deleted GO:0051381 --OBO_REL:is_a--> GO:0042165
* Deleted GO:0051608 --OBO_REL:is_a--> GO:0006836
* Deleted GO:0060231 --OBO_REL:is_a--> GO:0002064
* Copied GO:0060231 to GO:0000904 with type OBO_REL:is_a
* Copied GO:0060231 to GO:0002064 with type part_of

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