[Go-diff] GO update 09/24/2008

Remote CVS for Gene Ontology gocvs at genome.stanford.edu
Wed Sep 24 21:30:47 PDT 2008 

OBODIFF of gene_ontology_write.obo version 1.229 by 1.231

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0060320
* Created object of type obo:TERM with id GO:0060321
* Created object of type obo:TERM with id GO:0070025
* Created object of type obo:TERM with id GO:0070026
* Created object of type obo:TERM with id GO:0070027
* Created object of type obo:TERM with id GO:0070028
* Created object of type obo:TERM with id GO:0070029
* Created object of type obo:TERM with id GO:0070030
* Created object of type obo:TERM with id GO:0070031
* Created object of type obo:TERM with id GO:0070032
* Created object of type obo:TERM with id GO:0070033
* Populated new object GO:0060320 (macro)
  * Changed name of GO:0060320 from "<new term>" to "rejection of self pollen"
  * Set definition of GO:0060320 to "The process, involving the sharing and interaction of the single locus incompatibility haplotypes, involved in the rejection of the self pollen by cells in the stigma."
  * Added definition dbxref GOC:dph to GO:0060320
  * Added definition dbxref GOC:tb to GO:0060320
  * Copied GO:0060320 to GO:0048544 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060320
* Populated new object GO:0060321 (macro)
  * Changed name of GO:0060321 from "<new term>" to "acceptance of pollen"
  * Set definition of GO:0060321 to "The process, involving the sharing and interaction of the single locus incompatibility haplotypes, involved in the acceptance of pollen by cells in the stigma."
  * Added definition dbxref GOC:dph to GO:0060321
  * Added definition dbxref GOC:tb to GO:0060321
  * Added synonym "acceptance of non-self pollen" to GO:0060321
  * Added general dbxref GOC:tb to synonym acceptance of non-self pollen of GO:0060321
  * Added general dbxref GOC:dph to synonym acceptance of non-self pollen of GO:0060321
  * Added synonym "acceptance of self pollen" to GO:0060321
  * Added general dbxref GOC:tb to synonym acceptance of self pollen of GO:0060321
  * Added general dbxref GOC:dph to synonym acceptance of self pollen of GO:0060321
  * Changed synonym scope of GO:0060321 from "Related" to "Narrow"
  * Copied GO:0060321 to GO:0009856 with type part_of
  * Copied GO:0060321 to GO:0048544 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060321
* Populated new object GO:0070025 (macro)
  * Changed name of GO:0070025 from "<new term>" to "carbon monoxide binding"
  * Set definition of GO:0070025 to "Interacting selectively with carbon monoxide (CO)."
  * Added definition dbxref GOC:ecd to GO:0070025
  * Added GO:0070025 to category gosubset_prok
  * Added synonym "CO binding" to GO:0070025
  * Changed synonym scope of GO:0070025 from "Related" to "Exact"
  * Copied GO:0070025 to GO:0005488 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070025
* Populated new object GO:0070026 (macro)
  * Changed name of GO:0070026 from "<new term>" to "nitric oxide binding"
  * Set definition of GO:0070026 to "Interacting selectively with nitric oxide (NO)."
  * Added definition dbxref GOC:ecd to GO:0070026
  * Added GO:0070026 to category gosubset_prok
  * Added synonym "nitrogen monoxide binding" to GO:0070026
  * Changed synonym scope of GO:0070026 from "Related" to "Exact"
  * Added synonym "nitrosyl binding" to GO:0070026
  * Added general dbxref ChEBI:16480 to synonym nitrosyl binding of GO:0070026
  * Changed synonym scope of GO:0070026 from "Related" to "Exact"
  * Added synonym "NO binding" to GO:0070026
  * Changed synonym scope of GO:0070026 from "Related" to "Exact"
  * Copied GO:0070026 to GO:0005488 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070026
* Populated new object GO:0070027 (macro)
  * Changed name of GO:0070027 from "<new term>" to "carbon monoxide sensor activity"
  * Set definition of GO:0070027 to "Interacting selectively with and responding, e.g. by conformational change, to changes in the cellular level of carbon monoxide (CO)."
  * Added definition dbxref GOC:ecd to GO:0070027
  * Copied GO:0070027 to GO:0070025 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070027
* Populated new object GO:0070028 (macro)
  * Changed name of GO:0070028 from "<new term>" to "regulation of transcription by carbon monoxide"
  * Set definition of GO:0070028 to "Any process involving carbon monoxide that modulates the frequency, rate or extent of transcription."
  * Added definition dbxref GOC:ecd to GO:0070028
  * Added GO:0070028 to category gosubset_prok
  * Added synonym "regulation of transcription by CO" to GO:0070028
  * Changed synonym scope of GO:0070028 from "Related" to "Exact"
  * Copied GO:0070028 to GO:0006355 with type OBO_REL:is_a
  * Copied GO:0070028 to GO:0034465 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070028
* Populated new object GO:0070029 (macro)
  * Changed name of GO:0070029 from "<new term>" to "alphav-beta3 integrin-osteopontin complex"
  * Set definition of GO:0070029 to "A protein complex that consists of an alphav-beta3 integrin complex bound to osteopontin."
  * Added definition dbxref PMID:7532190 to GO:0070029
  * Added synonym "ITGAV-ITGB3-SPP1 complex" to GO:0070029
  * Added general dbxref CORUM:2358 to synonym ITGAV-ITGB3-SPP1 complex of GO:0070029
  * Changed synonym scope of GO:0070029 from "Related" to "Narrow"
  * Copied GO:0070029 to GO:0044459 with type OBO_REL:is_a
  * Copied GO:0070029 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070029
* Populated new object GO:0070030 (macro)
  * Changed name of GO:0070030 from "<new term>" to "alphav-beta1 integrin-osteopontin complex"
  * Set definition of GO:0070030 to "A protein complex that consists of an alphav-beta1 integrin complex bound to osteopontin."
  * Added definition dbxref PMID:7592829 to GO:0070030
  * Added synonym "ITGAV-ITGB1-SPP1 complex" to GO:0070030
  * Added general dbxref CORUM:2885 to synonym ITGAV-ITGB1-SPP1 complex of GO:0070030
  * Changed synonym scope of GO:0070030 from "Related" to "Narrow"
  * Copied GO:0070030 to GO:0043234 with type OBO_REL:is_a
  * Copied GO:0070030 to GO:0044459 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070030
* Populated new object GO:0070031 (macro)
  * Changed name of GO:0070031 from "<new term>" to "alphav-beta5 integrin-osteopontin complex"
  * Set definition of GO:0070031 to "A protein complex that consists of an alphav-beta5 integrin complex bound to osteopontin."
  * Added definition dbxref PMID:7592829 to GO:0070031
  * Added synonym "ITGAV-ITGB5-SPP1 complex" to GO:0070031
  * Added general dbxref CORUM:2347 to synonym ITGAV-ITGB5-SPP1 complex of GO:0070031
  * Changed synonym scope of GO:0070031 from "Related" to "Narrow"
  * Copied GO:0070031 to GO:0044459 with type OBO_REL:is_a
  * Copied GO:0070031 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070031
* Populated new object GO:0070032 (macro)
  * Changed name of GO:0070032 from "<new term>" to "synaptobrevin 2-SNAP-25-syntaxin-1a-complexin I complex"
  * Set definition of GO:0070032 to "A SNARE complex that contains synaptobrevin 2 (VAMP2), SNAP-25, syntaxin 1a, and complexin I (or orthologs thereof)."
  * Added definition dbxref PMID:7553862 to GO:0070032
  * Added synonym "SNARE complex (Vamp2, Snap25, Stx1a, Cplx1)" to GO:0070032
  * Added general dbxref CORUM:795 to synonym SNARE complex (Vamp2, Snap25, Stx1a, Cplx1) of GO:0070032
  * Changed synonym scope of GO:0070032 from "Related" to "Narrow"
  * Copied GO:0070032 to GO:0031201 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070032
* Populated new object GO:0070033 (macro)
  * Changed name of GO:0070033 from "<new term>" to "synaptobrevin 2-SNAP-25-syntaxin-1a-complexin II complex"
  * Set definition of GO:0070033 to "A SNARE complex that contains synaptobrevin 2 (VAMP2), SNAP-25, syntaxin 1a, and complexin II (or orthologs thereof)."
  * Added definition dbxref PMID:7553862 to GO:0070033
  * Added synonym "SNARE complex (Vamp2, Snap25, Stx1a, Cplx2)" to GO:0070033
  * Added general dbxref CORUM:796 to synonym SNARE complex (Vamp2, Snap25, Stx1a, Cplx2) of GO:0070033
  * Changed synonym scope of GO:0070033 from "Related" to "Narrow"
  * Copied GO:0070033 to GO:0031201 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070033
* Changed comment from "Note that a separate term covers proteolysis by the proteasome complex (proteosomal proteolysis associated with antigen processing and presentation ; GO:0002497)." to "Note that a separate term covers proteolysis by the proteasome complex (proteasomal proteolysis associated with antigen processing and presentation ; GO:0002497)."
* Added synonym "haematopoietic progenitor cell differentiation" to GO:0002244
* Changed synonym scope of GO:0002244 from "Related" to "Exact"
* Added synonym "haemopoietic progenitor cell differentiation" to GO:0002244
* Changed synonym scope of GO:0002244 from "Related" to "Exact"
* Added synonym "hematopoietic progenitor cell differentiation" to GO:0002244
* Changed name of GO:0002497 from "proteosomal proteolysis associated with antigen processing and presentation" to "proteasomal proteolysis associated with antigen processing and presentation"
* Changed definition of GO:0002497 from "The hydrolysis of a peptide bond or bonds within a protein by the proteosome complex contributing to antigen processing and presentation." to "The hydrolysis of a peptide bond or bonds within a protein by the proteasome complex contributing to antigen processing and presentation."
* Deleted GO:0005637 --part_of--> GO:0005635
* Deleted GO:0005640 --part_of--> GO:0005635
* Deleted GO:0006412 --OBO_REL:is_a--> GO:0044249
* Changed definition of GO:0010162 from "The process by which a dormant state is induced and maintained in a seed. Dormancy is characterized by a suspension of physiological activity that can be reactivated once dormancy is broken." to "The process by which a dormant state is induced, maintained and broken in a seed. Dormancy is characterized by a suspension of physiological activity that can be reactivated."
* Changed definition of GO:0019826 from "Interacting selectively with and responding, e.g. by conformational change, to changes in the cellular level of, oxygen (O2)." to "Interacting selectively with and responding, e.g. by conformational change, to changes in the cellular level of oxygen (O2)."
* Deleted GO:0031015 --part_of--> GO:0005635
* Deleted GO:0031080 --part_of--> GO:0005635
* Deleted GO:0031096 --OBO_REL:is_a--> GO:0044446
* Changed definition of GO:0032935 from "Interacting selectively with and responding, e.g. by conformational change, to changes in the cellular level of, a sterol." to "Interacting selectively with and responding, e.g. by conformational change, to changes in the cellular level of a sterol."
* Deleted GO:0034229 --OBO_REL:is_a--> GO:0006810
* Deleted GO:0034621 --OBO_REL:is_a--> GO:0009987
* Added general dbxref CORUM:3117 to synonym ITGAV-ITGB5-VTN complex of GO:0034997
* Added synonym "embryonic haematopoiesis" to GO:0035162
* Changed synonym scope of GO:0035162 from "Related" to "Exact"
* Added synonym "embryonic hematopoiesis" to GO:0035162
* Changed synonym scope of GO:0035162 from "Related" to "Exact"
* Added synonym "larval lymph gland haematopoiesis" to GO:0035167
* Changed synonym scope of GO:0035167 from "Related" to "Exact"
* Added synonym "larval lymph gland haemopoiesis" to GO:0035167
* Changed synonym scope of GO:0035167 from "Related" to "Exact"
* Added synonym "larval lymph gland hematopoiesis" to GO:0035167
* Changed synonym scope of GO:0035167 from "Related" to "Exact"
* Changed name of GO:0043041 from "nonribosomal amino acid activation" to "amino acid activation for nonribosomal peptide biosynthetic process"
* Added synonym "nonribosomal amino acid activation" to GO:0043041
* Deleted GO:0043482 --OBO_REL:is_a--> GO:0009987
* Deleted GO:0043933 --OBO_REL:is_a--> GO:0008150
* Deleted GO:0048235 --part_of--> GO:0009856
* Deleted GO:0048268 --OBO_REL:is_a--> GO:0022607
* Added synonym "haematopoietic or lymphoid organ development" to GO:0048534
* Changed synonym scope of GO:0048534 from "Related" to "Exact"
* Added synonym "haemopoietic or lymphoid organ development" to GO:0048534
* Changed synonym scope of GO:0048534 from "Related" to "Exact"
* Added synonym "hematopoietic or lymphoid organ development" to GO:0048534
* Changed synonym scope of GO:0048534 from "Related" to "Exact"
* Added synonym "haematopoietic organ development (sensu Arthropoda)" to GO:0048542
* Changed synonym scope of GO:0048542 from "Related" to "Exact"
* Added synonym "haemopoietic organ development (sensu Arthropoda)" to GO:0048542
* Changed synonym scope of GO:0048542 from "Related" to "Exact"
* Added synonym "hemopoietic organ development (sensu Arthropoda)" to GO:0048542
* Changed synonym scope of GO:0048542 from "Related" to "Exact"
* Changed name of GO:0048544 from "recognition or rejection of self pollen" to "recognition of pollen"
* Added definition dbxref GOC:dph to GO:0048544
* Added definition dbxref GOC:tb to GO:0048544
* Changed synonym scope of GO:0048544 from "Related" to "Exact"
* Added synonym "recognition or rejection of self pollen" to GO:0048544
* Added general dbxref GOC:tb to synonym recognition or rejection of self pollen of GO:0048544
* Added general dbxref GOC:dph to synonym recognition or rejection of self pollen of GO:0048544
* Changed definition of GO:0048838 from "Any process by which the dormant state comes to an end in a seed." to "The process by which the dormant state is broken in a seed. Dormancy is characterized by a suspension of physiological activity that can be reactivated upon release."
* Added definition dbxref GOC:dph to GO:0048838
* Added definition dbxref GOC:tb to GO:0048838
* Deleted GO:0048838 --part_of--> GO:0048623
* Added synonym "primitive haematopoiesis" to GO:0060215
* Changed synonym scope of GO:0060215 from "Related" to "Exact"
* Added synonym "primitive haemopoiesis" to GO:0060215
* Changed synonym scope of GO:0060215 from "Related" to "Exact"
* Added synonym "primitive hematopoiesis" to GO:0060215
* Added synonym "definitive haematopoiesis" to GO:0060216
* Added synonym "definitive haemopoiesis" to GO:0060216
* Changed synonym scope of GO:0060216 from "Related" to "Exact"
* Added synonym "definitive hematopoiesis" to GO:0060216
* Changed synonym scope of GO:0060216 from "Related" to "Exact"
* Added synonym "haematopoietic stem cell differentiation" to GO:0060218
* Changed synonym scope of GO:0060218 from "Related" to "Exact"
* Added synonym "haemopoietic stem cell differentiation" to GO:0060218
* Changed synonym scope of GO:0060218 from "Related" to "Exact"
* Added synonym "hematopoietic stem cell differentiation" to GO:0060218
* Changed synonym scope of GO:0060218 from "Related" to "Exact"
* Changed definition of GO:0070017 from "A protein complex that consistis of an alphav-beta3 integrin complex bound to thrombospondin." to "A protein complex that consists of an alphav-beta3 integrin complex bound to thrombospondin."
* Added general dbxref CORUM:2846 to synonym ITGAV-ITGB3-THBS1 complex of GO:0070017
* Deleted GO:0070018 --OBO_REL:is_a--> GO:0044459
* Deleted GO:0070018 --part_of--> GO:0005887
* Deleted GO:0070019 --part_of--> GO:0005887
* Deleted GO:0070019 --OBO_REL:is_a--> GO:0044459

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