[Go-diff] GO update 09/04/2008

Thu Sep 4 21:30:47 PDT 2008

OBODIFF of gene_ontology_write.obo version 1.190 by 1.192

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0034768
* Populated new object GO:0034768 (macro)
  * Changed name of GO:0034768 from "<new term>" to "(E)-beta-ocimene synthase activity"
  * Set definition of GO:0034768 to "Catalysis of the reaction: geranyl diphosphate = (E)-beta-ocimene + diphosphate."
  * Added definition dbxref PMID:12624761 to GO:0034768
  * Added general dbxref EC:4.2.3.15 to GO:0034768
  * Added general dbxref MetaCyc:RXN-5110 to GO:0034768
  * Copied GO:0034768 to GO:0016838 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034768
* Deleted GO:0000040 --OBO_REL:is_a--> GO:0006826
* Deleted GO:0001669 --OBO_REL:is_a--> GO:0005764
* Copied GO:0001669 to GO:0030141 with type OBO_REL:is_a
* Added comment "Note that this term is not a descendant of 'organelle inner membrane ; GO:0019866' because the outer acrosomal membrane is a portion of the acrosomal membrane; the latter is a single lipid bilayer."
* Deleted GO:0002080 --OBO_REL:is_a--> GO:0031090
* Copied GO:0002080 to GO:0030667 with type OBO_REL:is_a
* Added comment "Note that this term is not a descendant of 'organelle outer membrane ; GO:0031968' because the outer acrosomal membrane is a portion of the acrosomal membrane; the latter is a single lipid bilayer."
* Changed definition of GO:0002081 from "The acrosomal region that underlies the plasma membrane of the sperm. This membrane fuses with the sperm plasma membrane as part of the acrosome reaction." to "The acrosomal membrane region that underlies the plasma membrane of the sperm. This membrane fuses with the sperm plasma membrane as part of the acrosome reaction."
* Deleted GO:0006827 --OBO_REL:is_a--> GO:0006826
* Changed name of GO:0007163 from "establishment and/or maintenance of cell polarity" to "establishment or maintenance of cell polarity"
* Changed definition of GO:0007163 from "The specification, formation and maintenance of anisotropic intracellular organization or cell growth patterns." to "Any cellular process that results in the  specification, formation or maintenance of anisotropic intracellular organization or cell growth patterns."
* Changed name of GO:0007611 from "learning and/or memory" to "learning or memory"
* Changed name of GO:0008064 from "regulation of actin polymerization and/or depolymerization" to "regulation of actin polymerization or depolymerization"
* Changed name of GO:0008154 from "actin polymerization and/or depolymerization" to "actin polymerization or depolymerization"
* Deleted GO:0008239 --OBO_REL:is_a--> GO:0016806
* Copied GO:0008239 to GO:0008238 with type OBO_REL:is_a
* Deleted GO:0008240 --OBO_REL:is_a--> GO:0016806
* Copied GO:0008240 to GO:0008238 with type OBO_REL:is_a
* Changed name of GO:0010248 from "establishment and/or maintenance of transmembrane electrochemical gradient" to "establishment or maintenance of transmembrane electrochemical gradient"
* Changed definition of GO:0010248 from "The directed movement of ions to establish and maintain an electrochemical gradient across a membrane." to "The directed movement of ions to establish or maintain an electrochemical gradient across a membrane."
* Added definition dbxref GOC:mah to GO:0010248
* Deleted synonym "plastid NAD(P)H dehydrogenase complex" from GO:0010589
* Changed name of GO:0016332 from "establishment and/or maintenance of polarity of embryonic epithelium" to "establishment or maintenance of polarity of embryonic epithelium"
* Changed definition of GO:0016332 from "The specification, formation and maintenance of anisotropic intracellular organization of epithelial cells in an embryo." to "Any cellular process that results in the specification, formation or maintenance of anisotropic intracellular organization of epithelial cells in an embryo."
* Added definition dbxref GOC:mah to GO:0016332
* Changed name of GO:0016334 from "establishment and/or maintenance of polarity of follicular epithelium" to "establishment or maintenance of polarity of follicular epithelium"
* Changed definition of GO:0016334 from "The specification, formation and maintenance of a polarized follicular epithelial sheet." to "Any cellular process that results in the specification, formation or maintenance of a polarized follicular epithelial sheet."
* Added definition dbxref GOC:mah to GO:0016334
* Changed name of GO:0016336 from "establishment and/or maintenance of polarity of larval imaginal disc epithelium" to "establishment or maintenance of polarity of larval imaginal disc epithelium"
* Changed definition of GO:0016336 from "The specification, formation and maintenance of a polarized larval imaginal disc epithelium." to "Any cellular process that results in the specification, formation or maintenance of a polarized larval imaginal disc epithelium."
* Added definition dbxref GOC:mah to GO:0016336
* Added comment "This term was made obsolete because it represents two activities."
* Changed definition of GO:0016806 from "Catalysis of the hydrolysis of N-terminal di- or tripeptides from a polypeptide chain." to "OBSOLETE. Catalysis of the hydrolysis of N-terminal di- or tripeptides from a polypeptide chain."
* Deleted GO:0016806 --OBO_REL:is_a--> GO:0008238
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 1784d10
* Added comment "Note that this term does not have a relationship to 'vacuole ; GO:0005773' because it does not fit the definition of a vacuole; the parasitophorous vacuole was so named because it resembles a vacuole in the microscope."
* Deleted GO:0020003 --OBO_REL:is_a--> GO:0005773
* Deleted GO:0020004 --OBO_REL:is_a--> GO:0005775
* Deleted GO:0020006 --OBO_REL:is_a--> GO:0005774
* Deleted GO:0020008 --OBO_REL:is_a--> GO:0065010
* Changed name of GO:0030950 from "establishment and/or maintenance of actin cytoskeleton polarity" to "establishment or maintenance of actin cytoskeleton polarity"
* Changed definition of GO:0030950 from "The specification, formation and maintenance of polarized actin-based cytoskeletal structures." to "Any cellular process that results in the specification, formation or maintenance of polarized actin-based cytoskeletal structures."
* Changed name of GO:0030951 from "establishment and/or maintenance of microtubule cytoskeleton polarity" to "establishment or maintenance of microtubule cytoskeleton polarity"
* Changed definition of GO:0030951 from "The specification, formation and maintenance of polarized microtubule-based cytoskeletal structures." to "Any cellular process that results in the  specification, formation or maintenance of polarized microtubule-based cytoskeletal structures."
* Changed name of GO:0030952 from "establishment and/or maintenance of cytoskeleton polarity" to "establishment or maintenance of cytoskeleton polarity"
* Changed definition of GO:0030952 from "The specification, formation and maintenance of polarized cytoskeletal structures." to "Any cellular process that results in the specification, formation or maintenance of polarized cytoskeletal structures."
* Deleted GO:0031970 --OBO_REL:is_a--> GO:0043233
* Copied GO:0031970 to GO:0031974 with type OBO_REL:is_a
* Changed definition of GO:0031974 from "The enclosed volume within a sealed membrane or between two sealed membranes." to "The enclosed volume within a sealed membrane or between two sealed membranes. Encompasses the volume enclosed by the membranes of a particular organelle, e.g. endoplasmic reticulum lumen, or the space between the two lipid bilayers of a double membrane surrounding an organelle, e.g. nuclear envelope lumen."
* Added definition dbxref GOC:mah to GO:0031974
* Changed name of GO:0032878 from "regulation of establishment and/or maintenance of cell polarity" to "regulation of establishment or maintenance of cell polarity"
* Changed definition of GO:0032878 from "Any process that modulates the frequency, rate or extent of the specification, formation and maintenance of anisotropic intracellular organization or cell growth patterns." to "Any process that modulates the frequency, rate or extent of the specification, formation or maintenance of anisotropic intracellular organization or cell growth patterns."
* Changed name of GO:0034401 from "establishment and/or maintenance of chromatin architecture during transcription" to "establishment or maintenance of chromatin architecture during transcription"
* Changed definition of GO:0034401 from "The specification, formation and maintenance of the physical structure of eukaryotic chromatin during transcription." to "Any cellular process that results in the  specification, formation or maintenance of of the physical structure of eukaryotic chromatin during transcription."
* Deleted synonym "positive regulation of transmembrane transport" from GO:0034767
* Added synonym "positive regulation of transmembrane ion transport" to GO:0034767
* Changed synonym scope of GO:0034767 from "Related" to "Exact"
* Deleted GO:0034767 --positively_regulates--> GO:0034755
* Copied GO:0034767 to GO:0034220 with type positively_regulates
* Changed name of GO:0035088 from "establishment and/or maintenance of apical/basal cell polarity" to "establishment or maintenance of apical/basal cell polarity"
* Changed definition of GO:0035088 from "Polarization of a cells architecture along its apical/basal axis so that the apical and basal regions of the cell have different membrane, extracellular matrix and sub-membrane cellular components." to "Any cellular process that results in the specification, formation or maintenance polarization of a cell's architecture along its apical/basal axis so that the apical and basal regions of the cell have different membrane, extracellular matrix and sub-membrane cellular components."
* Added definition dbxref GOC:mah to GO:0035088
* Changed definition of GO:0043233 from "The volume enclosed by the membranes of a particular organelle, e.g. endoplasmic reticulum lumen, or the space between the two lipid bilayers of a double membrane surrounding an organelle, e.g. nuclear membrane lumen." to "The internal volume enclosed by the membranes of a particular organelle; includes the volume enclosed by a single organelle membrane, e.g. endoplasmic reticulum lumen, or the volume enclosed by the innermost of the two lipid bilayers of an organelle envelope, e.g. nuclear lumen."
* Added definition dbxref GOC:mah to GO:0043233
* Changed name of GO:0045105 from "intermediate filament polymerization and/or depolymerization" to "intermediate filament polymerization or depolymerization"
* Changed name of GO:0045108 from "regulation of intermediate filament polymerization and/or depolymerization" to "regulation of intermediate filament polymerization or depolymerization"
* Changed name of GO:0045196 from "establishment and/or maintenance of neuroblast polarity" to "establishment or maintenance of neuroblast polarity"
* Changed definition of GO:0045196 from "The specification, formation and maintenance of the apicobasal polarity of a neuroblast cell, a progenitor of the central nervous system." to "Any cellular process that results in the specification, formation or maintenance of the apicobasal polarity of a neuroblast cell, a progenitor of the central nervous system."
* Added definition dbxref GOC:mah to GO:0045196
* Changed name of GO:0045197 from "establishment and/or maintenance of epithelial cell apical/basal polarity" to "establishment or maintenance of epithelial cell apical/basal polarity"
* Changed definition of GO:0045197 from "The specification, formation and maintenance of the apicobasal polarity of an epithelial cell." to "Any cellular process that results in the  specification, formation or maintenance of the apicobasal polarity of an epithelial cell."
* Added definition dbxref GOC:mah to GO:0045197