[Go-diff] GO update 07/24/2008

Thu Jul 24 21:30:46 PDT 2008

OBODIFF of gene_ontology_write.obo version 1.140 by 1.142

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0034614
* Created object of type obo:TERM with id GO:0034615
* Created object of type obo:TERM with id GO:0034616
* Populated new object GO:0034614 (macro)
  * Changed name of GO:0034614 from "<new term>" to "cellular response to reactive oxygen species"
  * Set definition of GO:0034614 to "A change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a reactive oxygen species stimulus. Reactive oxygen species include singlet oxygen, superoxide, and oxygen free radicals."
  * Added definition dbxref GOC:mah to GO:0034614
  * Added GO:0034614 to category gosubset_prok
  * Added synonym "cellular response to active oxygen species" to GO:0034614
  * Changed synonym scope of GO:0034614 from "Related" to "Exact"
  * Added synonym "cellular response to AOS" to GO:0034614
  * Changed synonym scope of GO:0034614 from "Related" to "Exact"
  * Added synonym "cellular response to reactive oxidative species" to GO:0034614
  * Changed synonym scope of GO:0034614 from "Related" to "Exact"
  * Added synonym "cellular response to reactive oxygen intermediate" to GO:0034614
  * Changed synonym scope of GO:0034614 from "Related" to "Exact"
  * Added synonym "cellular response to ROI" to GO:0034614
  * Changed synonym scope of GO:0034614 from "Related" to "Exact"
  * Added synonym "cellular response to ROS" to GO:0034614
  * Changed synonym scope of GO:0034614 from "Related" to "Exact"
  * Copied GO:0034614 to GO:0000302 with type OBO_REL:is_a
  * Copied GO:0034614 to GO:0034599 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034614
* Populated new object GO:0034615 (macro)
  * Changed name of GO:0034615 from "<new term>" to "GCH1 complex"
  * Set definition of GO:0034615 to "A protein complex that possesses GTP cyclohydrolase I activity. In E. coli and human, the complex is a homodecamer, and monomers are catalytically inactive."
  * Added definition dbxref PMID:16696853 to GO:0034615
  * Added synonym "GTP cyclohydrolase I complex" to GO:0034615
  * Changed synonym scope of GO:0034615 from "Related" to "Exact"
  * Copied GO:0034615 to GO:0043234 with type OBO_REL:is_a
  * Copied GO:0034615 to GO:0044424 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034615
* Populated new object GO:0034616 (macro)
  * Changed name of GO:0034616 from "<new term>" to "response to laminar fluid shear stress"
  * Set definition of GO:0034616 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 laminar fluid shear stress stimulus. Laminar fluid flow is the force acting on an object in a system where the fluid is moving across a solid surface in parallel layers. As an example, laminar shear stress can be seen where blood flows against the luminal side of blood vessel walls."
  * Added definition dbxref GOC:ecd to GO:0034616
  * Copied GO:0034616 to GO:0034405 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034616
* Changed definition of GO:0000053 from "The chemical reactions and pathways involving argininosuccinate, 2-(Nw-arginino)succinate, an intermediate in the ornithine-urea cycle, where it is synthesized from citrulline and aspartate." to "The chemical reactions and pathways involving argininosuccinate, 2-(N(omega)-arginino)succinate, an intermediate in the ornithine-urea cycle, where it is synthesized from citrulline and aspartate."
* Changed definition of GO:0000902 from "Any process that modulates the size or shape of a cell." to "The developmental process by which the size or shape of a cell is generated and organized. Morphogenesis pertains to the creation of form."
* Deleted synonym "negative regulation of cell shape and cell size" from GO:0000902
* Deleted synonym "positive regulation of cell shape and cell size" from GO:0000902
* Deleted synonym "regulation of cell shape and cell size" from GO:0000902
* Changed definition of GO:0004055 from "Catalysis of the reaction: ATP + L-citrulline + L-aspartate = AMP + diphosphate + (Nw-L-arginino)succinate." to "Catalysis of the reaction: ATP + L-citrulline + L-aspartate = AMP + diphosphate + (N(omega)-L-arginino)succinate."
* Deleted GO:0005624 --OBO_REL:is_a--> GO:0000267
* Copied GO:0005624 to GO:0005626 with type OBO_REL:is_a
* Changed definition of GO:0007269 from "The regulated release of neurotransmitter into the synaptic cleft. A neurotransmitter is any of a group of substances that are released on excitation from the axon terminal of a presynaptic neuron of the central or peripheral nervous system and travel across the synaptic cleft to either excite or inhibit the target cell. Among the many substances that have the properties of a neurotransmitter are acetylcholine, noradrenaline, adrenaline, dopamine, glycine, y aminobutyrate, glutamic acid, substance P, enkephalins, endorphins and serotonin." to "The regulated release of neurotransmitter into the synaptic cleft. A neurotransmitter is any of a group of substances that are released on excitation from the axon terminal of a presynaptic neuron of the central or peripheral nervous system and travel across the synaptic cleft to either excite or inhibit the target cell. Among the many substances that have the properties of a neurotransmitter are acetylcholine, noradrenaline, adrenaline, dopamine, glycine, gamma-aminobutyrate, glutamic acid, substance P, enkephalins, endorphins and serotonin."
* Changed definition of GO:0010640 from "Any process that modulates the frequency, rate or extent of the
platelet-derived growth factor receptor signaling pathway." to "Any process that modulates the frequency, rate or extent of the platelet-derived growth factor receptor signaling pathway."
* Changed definition of GO:0010641 from "Any process that increases the frequency, rate or extent of the
platelet-derived growth factor receptor signaling pathway." to "Any process that increases the frequency, rate or extent of the platelet-derived growth factor receptor signaling pathway."
* Changed definition of GO:0010642 from "Any process that stops, prevents or reduces the frequency, rate or
extent of the platelet-derived growth factor receptor signaling pathway." to "Any process that stops, prevents or reduces the frequency, rate or extent of the platelet-derived growth factor receptor signaling pathway."
* Copied GO:0016188 to GO:0021700 with type OBO_REL:is_a
* Changed definition of GO:0022604 from "Any process that modulates the frequency, rate or extent of cell morphogenesis. Cell morphogenesis is any process that modulates the size or shape of a cell." to "Any process that modulates the frequency, rate or extent of cell morphogenesis. Cell morphogenesis is the developmental process by which the size or shape of a cell is generated and organized."
* Added synonym "negative regulation of cell shape and cell size" to GO:0022604
* Added general dbxref GOC:tb to synonym negative regulation of cell shape and cell size of GO:0022604
* Added general dbxref GOC:dph to synonym negative regulation of cell shape and cell size of GO:0022604
* Added synonym "positive regulation of cell shape and cell size" to GO:0022604
* Added general dbxref GOC:tb to synonym positive regulation of cell shape and cell size of GO:0022604
* Added general dbxref GOC:dph to synonym positive regulation of cell shape and cell size of GO:0022604
* Added synonym "regulation of cell shape and cell size" to GO:0022604
* Added general dbxref GOC:tb to synonym regulation of cell shape and cell size of GO:0022604
* Added general dbxref GOC:dph to synonym regulation of cell shape and cell size of GO:0022604
* Deleted GO:0032984 --OBO_REL:is_a--> GO:0034600
* Copied GO:0032984 to GO:0043933 with type OBO_REL:is_a
* Deleted GO:0034367 --OBO_REL:is_a--> GO:0034600
* Copied GO:0034367 to GO:0043933 with type OBO_REL:is_a
* Deleted GO:0034600 --OBO_REL:is_a--> GO:0008150
* Deleted GO:0034367 --OBO_REL:is_a--> GO:0034600
* Deleted GO:0032984 --OBO_REL:is_a--> GO:0034600
* Deleted GO:0065003 --OBO_REL:is_a--> GO:0034600
* Destroyed object GO:0034600
* Added synonym "cellular response to heat stress" to GO:0034605
* Changed synonym scope of GO:0034605 from "Related" to "Exact"
* Changed definition of GO:0034608 from "Location, by the male, of his partner's vulva when backing along the ventral side of the hermaphrodite during mating. The male stops at
the vulva, coordinates his movements to the hermaphrodite's, and
positions his tail precisely over the vulva so that he may insert his spicules and ejaculate." to "Location, by the male, of his partner's vulva when backing along the ventral side of the hermaphrodite during mating. The male stops at the vulva, coordinates his movements to the hermaphrodite's, and positions his tail precisely over the vulva so that he may insert his spicules and ejaculate."
* added secondary id GO:0034600 to GO:0043933
* Added synonym "macromolecular complex organization" to GO:0043933
* Changed synonym scope of GO:0043933 from "Related" to "Exact"
* Copied GO:0046797 to GO:0021700 with type OBO_REL:is_a
* Copied GO:0051426 to GO:0021700 with type OBO_REL:is_a
* Copied GO:0060074 to GO:0021700 with type OBO_REL:is_a
* Deleted GO:0065003 --OBO_REL:is_a--> GO:0034600
* Copied GO:0065003 to GO:0043933 with type OBO_REL:is_a