[go-diff] GO update 01/11/2008

Fri Jan 11 21:30:44 PST 2008

OBODIFF of gene_ontology_edit.obo version 5.641 by 5.642

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0034085
* Created object of type obo:TERM with id GO:0034086
* Created object of type obo:TERM with id GO:0034087
* Created object of type obo:TERM with id GO:0034088
* Created object of type obo:TERM with id GO:0034089
* Created object of type obo:TERM with id GO:0034090
* Created object of type obo:TERM with id GO:0034091
* Created object of type obo:TERM with id GO:0034092
* Created object of type obo:TERM with id GO:0034093
* Created object of type obo:TERM with id GO:0034094
* Created object of type obo:TERM with id GO:0034095
* Created object of type obo:TERM with id GO:0034096
* Created object of type obo:TERM with id GO:0034097
* Created object of type obo:TERM with id GO:0034098
* Created object of type obo:TERM with id GO:0034099
* Created object of type obo:TERM with id GO:0034100
* Populated new object GO:0034085 (macro)
  * Changed name of GO:0034085 from "<new term>" to "establishment of sister chromatid cohesion"
  * Set definition of GO:0034085 to "The process by which the sister chromatids of a replicated chromosome become joined along the entire length of the chromosome during S phase."
  * Added definition dbxref GOC:mah to GO:0034085
  * Added definition dbxref PMID:14623866 to GO:0034085
  * Copied GO:0034085 to GO:0022402 with type OBO_REL:is_a
  * Copied GO:0034085 to GO:0007062 with type part_of
  * Assigned namespace "biological_process" to GO:0034085
* Populated new object GO:0034086 (macro)
  * Changed name of GO:0034086 from "<new term>" to "maintenance of sister chromatid cohesion"
  * Set definition of GO:0034086 to "The process by which the association between sister chromatids of a replicated chromosome is maintained as chromosomes condense, attach to the spindle in a bipolar orientation, and congress to the metaphase plate."
  * Added definition dbxref GOC:mah to GO:0034086
  * Added definition dbxref PMID:14623866 to GO:0034086
  * Copied GO:0034086 to GO:0007062 with type part_of
  * Copied GO:0034086 to GO:0022402 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034086
* Populated new object GO:0034087 (macro)
  * Changed name of GO:0034087 from "<new term>" to "establishment of mitotic sister chromatid cohesion"
  * Set definition of GO:0034087 to "The process by which the sister chromatids of a replicated chromosome become joined along the entire length of the chromosome during S phase during a mitotic cell cycle."
  * Added definition dbxref GOC:mah to GO:0034087
  * Copied GO:0034087 to GO:0034085 with type OBO_REL:is_a
  * Copied GO:0034087 to GO:0007064 with type part_of
  * Assigned namespace "biological_process" to GO:0034087
* Populated new object GO:0034088 (macro)
  * Changed name of GO:0034088 from "<new term>" to "maintenance of mitotic sister chromatid cohesion"
  * Set definition of GO:0034088 to "The process by which the association between sister chromatids of a replicated chromosome is maintained as chromosomes condense, attach to the spindle in a bipolar orientation, and congress to the metaphase plate during a mitotic cell cycle."
  * Added definition dbxref GOC:mah to GO:0034088
  * Added synonym "mitotic cohesion stability" to GO:0034088
  * Copied GO:0034088 to GO:0034086 with type OBO_REL:is_a
  * Copied GO:0034088 to GO:0007064 with type part_of
  * Assigned namespace "biological_process" to GO:0034088
* Populated new object GO:0034089 (macro)
  * Changed name of GO:0034089 from "<new term>" to "establishment of meiotic sister chromatid cohesion"
  * Set definition of GO:0034089 to "The process by which the sister chromatids of a replicated chromosome become joined along the entire length of the chromosome during S phase during a meiotic cell cycle."
  * Added definition dbxref GOC:mah to GO:0034089
  * Copied GO:0034089 to GO:0034085 with type OBO_REL:is_a
  * Copied GO:0034089 to GO:0051177 with type part_of
  * Assigned namespace "biological_process" to GO:0034089
* Populated new object GO:0034090 (macro)
  * Changed name of GO:0034090 from "<new term>" to "maintenance of meiotic sister chromatid cohesion"
  * Set definition of GO:0034090 to "The process by which the association between sister chromatids of a replicated chromosome is maintained as chromosomes condense, attach to the spindle in a bipolar orientation, and congress to the metaphase plate during a meiotic cell cycle."
  * Added definition dbxref GOC:mah to GO:0034090
  * Copied GO:0034090 to GO:0051177 with type part_of
  * Copied GO:0034090 to GO:0034086 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034090
* Populated new object GO:0034091 (macro)
  * Changed name of GO:0034091 from "<new term>" to "regulation of maintenance of sister chromatid cohesion"
  * Set definition of GO:0034091 to "Any process that modulates the extent to which the association between sister chromatids of a replicated chromosome is maintained."
  * Added definition dbxref GOC:mah to GO:0034091
  * Added definition dbxref GOC:vw to GO:0034091
  * Copied GO:0034091 to GO:0034086 with type part_of
  * Copied GO:0034091 to GO:0007063 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034091
* Populated new object GO:0034092 (macro)
  * Changed name of GO:0034092 from "<new term>" to "negative regulation of maintenance of sister chromatid cohesion"
  * Set definition of GO:0034092 to "Any process that decreases the extent to which the association between sister chromatids of a replicated chromosome is maintained."
  * Added definition dbxref GOC:mah to GO:0034092
  * Added definition dbxref GOC:vw to GO:0034092
  * Copied GO:0034092 to GO:0034091 with type OBO_REL:is_a
  * Copied GO:0034092 to GO:0045875 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034092
* Populated new object GO:0034093 (macro)
  * Changed name of GO:0034093 from "<new term>" to "positive regulation of maintenance of sister chromatid cohesion"
  * Set definition of GO:0034093 to "Any process that increases the extent to which the association between sister chromatids of a replicated chromosome is maintained."
  * Added definition dbxref GOC:mah to GO:0034093
  * Added definition dbxref GOC:vw to GO:0034093
  * Copied GO:0034093 to GO:0045876 with type OBO_REL:is_a
  * Copied GO:0034093 to GO:0034091 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034093
* Populated new object GO:0034094 (macro)
  * Changed name of GO:0034094 from "<new term>" to "regulation of maintenance of meiotic sister chromatid cohesion"
  * Set definition of GO:0034094 to "Any process that modulates the extent to which the association between sister chromatids of a replicated chromosome is maintained during a meiotic cell cycle."
  * Added definition dbxref GOC:mah to GO:0034094
  * Added definition dbxref GOC:vw to GO:0034094
  * Copied GO:0034094 to GO:0034091 with type OBO_REL:is_a
  * Copied GO:0034094 to GO:0034090 with type part_of
  * Assigned namespace "biological_process" to GO:0034094
* Populated new object GO:0034095 (macro)
  * Changed name of GO:0034095 from "<new term>" to "negative regulation of maintenance of meiotic sister chromatid cohesion"
  * Set definition of GO:0034095 to "Any process that decreases the extent to which the association between sister chromatids of a replicated chromosome is maintained during a meiotic cell cycle."
  * Added definition dbxref GOC:mah to GO:0034095
  * Added definition dbxref GOC:vw to GO:0034095
  * Copied GO:0034095 to GO:0034094 with type OBO_REL:is_a
  * Copied GO:0034095 to GO:0034092 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034095
* Populated new object GO:0034096 (macro)
  * Changed name of GO:0034096 from "<new term>" to "positive regulation of maintenance of meiotic sister chromatid cohesion"
  * Set definition of GO:0034096 to "Any process that increases the extent to which the association between sister chromatids of a replicated chromosome is maintained during a meiotic cell cycle."
  * Added definition dbxref GOC:mah to GO:0034096
  * Added definition dbxref GOC:vw to GO:0034096
  * Copied GO:0034096 to GO:0034093 with type OBO_REL:is_a
  * Copied GO:0034096 to GO:0034094 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034096
* Populated new object GO:0034097 (macro)
  * Changed name of GO:0034097 from "<new term>" to "response to cytokine stimulus"
  * Set definition of GO:0034097 to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cytokine stimulus."
  * Added definition dbxref GOC:sl to GO:0034097
  * Copied GO:0034097 to GO:0042221 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034097
* Populated new object GO:0034098 (macro)
  * Changed name of GO:0034098 from "<new term>" to "Cdc48p-Npl4p-Ufd1p AAA ATPase complex"
  * Set definition of GO:0034098 to "A multiprotein ATPase complex required for the efficient dislocation of ER-lumenal degradation substrates, and their subsequent proteolysis by the proteasome. In budding yeast, this complex includes Cdc48p, Npl4p and Ufd1p proteins."
  * Added definition dbxref PMID:11813000 to GO:0034098
  * Added definition dbxref PMID:16179952 to GO:0034098
  * Copied GO:0034098 to GO:0005789 with type part_of
  * Copied GO:0034098 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034098
* Populated new object GO:0034099 (macro)
  * Changed name of GO:0034099 from "<new term>" to "luminal surveillance complex"
  * Set definition of GO:0034099 to "A multiprotein complex that recognizes ERAD-luminal misfolded substrates and brings them to the ubiquitination/extraction machinery. In yeast, this complex consists of Yos9p, Kar2p and Hrd3p proteins."
  * Added definition dbxref PMID:16873065 to GO:0034099
  * Copied GO:0034099 to GO:0005788 with type part_of
  * Copied GO:0034099 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034099
* Populated new object GO:0034100 (macro)
  * Changed name of GO:0034100 from "<new term>" to "L-vinylglycine deaminase activity"
  * Added comment "Note that this function was formerly EC:4.1.99.4."
  * Set definition of GO:0034100 to "Catalysis of the reaction: L-vinylglutamate + H2O = alpha-ketobutryrate + NH3."
  * Added definition dbxref GOC:ecd to GO:0034100
  * Added definition dbxref PMID:11470512 to GO:0034100
  * Added general dbxref EC:3.5.99.7 to GO:0034100
  * Added general dbxref MetaCyc:4.1.99.4-RXN to GO:0034100
  * Added general dbxref UM-BBD_enzymeID:e0274 to GO:0034100
  * Added GO:0034100 to category gosubset_prok
  * Added synonym "L-VG deaminase activity" to GO:0034100
  * Added general dbxref EC:3.5.99.7 to synonym L-VG deaminase activity of GO:0034100
  * Changed synonym scope of GO:0034100 from "Related" to "Exact"
  * Copied GO:0034100 to GO:0016810 with type OBO_REL:is_a
  * Copied GO:0034100 to GO:0019239 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034100
* Changed definition of GO:0002237 from "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the detection of molecules of bacterial origin such as peptides derived from bacterial flagellin." to "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus by molecules of bacterial origin such as peptides derived from bacterial flagellin."
* Changed definition of GO:0002238 from "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the detection of molecules of fungal origin such as chito-octomer oligosaccharide." to "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus by molecules of fungal origin such as chito-octomer oligosaccharide."
* Changed definition of GO:0002240 from "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the detection of molecules of oomycetes origin." to "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus by molecules of oomycetes origin."
* Changed definition of GO:0007062 from "The joining of the sister chromatids of a replicated chromosome along the entire length of the chromosome." to "The cell cycle process by which the sister chromatids of a replicated chromosome are joined along the entire length of the chromosome."
* Changed definition of GO:0007064 from "The cell cycle process whereby the sister chromatids of a replicated chromosome are joined along the entire length of the chromosome during mitosis. This cohesion cycle is critical for high fidelity chromosome transmission." to "The cell cycle process whereby the sister chromatids of a replicated chromosome are joined along the entire length of the chromosome, from their formation in S phase through metaphase during a mitotic cell cycle. This cohesion cycle is critical for high fidelity chromosome transmission."
* Added definition dbxref PMID:14623866 to GO:0007064
* Changed definition of GO:0032493 from "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the detection of bacterial lipoprotein." to "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a bacterial lipoprotein stimulus."
* Changed definition of GO:0032494 from "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the detection of peptidoglycan. Peptidoglycan is a bacterial cell wall macromolecule." to "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a peptidoglycan stimulus. Peptidoglycan is a bacterial cell wall macromolecule."
* Changed definition of GO:0032495 from "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the detection of muramyl dipeptide. Muramyl dipeptide is derived from peptidoglycan." to "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a muramyl dipeptide stimulus. Muramyl dipeptide is derived from peptidoglycan."
* Changed definition of GO:0032496 from "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of the detection of lipopolysaccharide, a major component of the cell wall of gram-negative bacteria." to "A change in state or activity of an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a of lipopolysaccharide stimulus; lipopolysaccharide is a major component of the cell wall of gram-negative bacteria."
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"
* Deleted synonym "3-phosphonopyruvate carboxy-lyase  (2-phosphonoacetaldehyde-forming) activity" from GO:0033980
* Added synonym "3-phosphonopyruvate carboxy-lyase (2-phosphonoacetaldehyde-forming) activity" to GO:0033980
* Added general dbxref EC:4.1.1.82 to synonym 3-phosphonopyruvate carboxy-lyase (2-phosphonoacetaldehyde-forming) activity of GO:0033980
* Changed synonym scope of GO:0033980 from "Related" to "Exact"