[Go-diff] GO update 01/07/2009

Wed Jan 7 21:30:47 PST 2009

OBODIFF of gene_ontology_write.obo version 1.371 by 1.374

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0002133
* Created object of type obo:TERM with id GO:0010849
* Created object of type obo:TERM with id GO:0070218
* Created object of type obo:TERM with id GO:0070219
* Populated new object GO:0002133 (macro)
  * Changed name of GO:0002133 from "<new term>" to "polycystin complex"
  * Added comment "Different forms of the complex differing in type of N-glycosylation of polycystin-1 can exist (endoglycosidase sensitive and endoglcosidase resistant)."
  * Set definition of GO:0002133 to "A stable heterodimeric complex composed of polycystin-1 and polycystin-2."
  * Added definition dbxref GOC:hjd to GO:0002133
  * Added definition dbxref PMID:11901144 to GO:0002133
  * Copied GO:0002133 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0002133
* Populated new object GO:0010849 (macro)
  * Changed name of GO:0010849 from "<new term>" to "regulation of proton-transporting ATPase activity, rotational mechanism"
  * Set definition of GO:0010849 to "Any process that modulates the rate of ATP hydrolysis by an ATPase. Catalysis of the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: ATP + H2O + H+(in) = ADP + phosphate + H+(out), by a rotational mechanism."
  * Added definition dbxref GOC:dph to GO:0010849
  * Added definition dbxref GOC:tb to GO:0010849
  * Added synonym "regulation of hydrogen ion transporting ATPase activity, rotational mechanism" to GO:0010849
  * Added general dbxref GOC:tb to synonym regulation of hydrogen ion transporting ATPase activity, rotational mechanism of GO:0010849
  * Added general dbxref GOC:dph to synonym regulation of hydrogen ion transporting ATPase activity, rotational mechanism of GO:0010849
  * Changed synonym scope of GO:0010849 from "Related" to "Exact"
  * Added synonym "regulation of V-type ATPase activity" to GO:0010849
  * Added general dbxref GOC:tb to synonym regulation of V-type ATPase activity of GO:0010849
  * Added general dbxref GOC:dph to synonym regulation of V-type ATPase activity of GO:0010849
  * Changed synonym scope of GO:0010849 from "Related" to "Broad"
  * Copied GO:0010849 to GO:0043462 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010849
* Populated new object GO:0070218 (macro)
  * Changed name of GO:0070218 from "<new term>" to "sulfide ion homeostasis"
  * Set definition of GO:0070218 to "Any process involved in the maintenance of an internal equilibrium of sulfide ions within an organism or cell."
  * Added definition dbxref GOC:mah to GO:0070218
  * Added synonym "sulfide generation" to GO:0070218
  * Added general dbxref GOC:mah to synonym sulfide generation of GO:0070218
  * Added synonym "sulfide homeostasis" to GO:0070218
  * Added general dbxref GOC:mah to synonym sulfide homeostasis of GO:0070218
  * Changed synonym scope of GO:0070218 from "Related" to "Exact"
  * Added synonym "sulfide production" to GO:0070218
  * Added general dbxref GOC:mah to synonym sulfide production of GO:0070218
  * Added synonym "sulphide generation" to GO:0070218
  * Added general dbxref GOC:mah to synonym sulphide generation of GO:0070218
  * Added synonym "sulphide homeostasis" to GO:0070218
  * Added general dbxref GOC:mah to synonym sulphide homeostasis of GO:0070218
  * Changed synonym scope of GO:0070218 from "Related" to "Exact"
  * Added synonym "sulphide ion homeostasis" to GO:0070218
  * Added general dbxref GOC:mah to synonym sulphide ion homeostasis of GO:0070218
  * Changed synonym scope of GO:0070218 from "Related" to "Exact"
  * Added synonym "sulphide production" to GO:0070218
  * Added general dbxref GOC:mah to synonym sulphide production of GO:0070218
  * Copied GO:0070218 to GO:0055083 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070218
* Populated new object GO:0070219 (macro)
  * Changed name of GO:0070219 from "<new term>" to "cellular sulfide ion homeostasis"
  * Set definition of GO:0070219 to "Any process involved in the maintenance of an internal equilibrium of sulfide ions at the level of a cell."
  * Added definition dbxref GOC:mah to GO:0070219
  * Added synonym "cellular sulfide homeostasis" to GO:0070219
  * Added general dbxref GOC:mah to synonym cellular sulfide homeostasis of GO:0070219
  * Changed synonym scope of GO:0070219 from "Related" to "Exact"
  * Added synonym "cellular sulphide homeostasis" to GO:0070219
  * Added general dbxref GOC:mah to synonym cellular sulphide homeostasis of GO:0070219
  * Changed synonym scope of GO:0070219 from "Related" to "Exact"
  * Added synonym "cellular sulphide ion homeostasis" to GO:0070219
  * Added general dbxref GOC:mah to synonym cellular sulphide ion homeostasis of GO:0070219
  * Changed synonym scope of GO:0070219 from "Related" to "Exact"
  * Copied GO:0070219 to GO:0030320 with type OBO_REL:is_a
  * Copied GO:0070219 to GO:0070218 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070219
* Changed definition of GO:0000075 from "A point in the eukaryotic cell cycle where progress through the cycle can be halted until conditions are suitable for the cell to proceed to the next stage." to "The cell cycle regulatory process by which progression through the cycle can be halted until conditions are suitable for the cell to proceed to the next stage."
* Changed definition of GO:0006873 from "The regulation of the levels, transport, and metabolism of ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of ions at the level of a cell."
* Changed definition of GO:0006874 from "The regulation of the levels, transport, and metabolism of calcium ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of calcium ions at the level of a cell."
* Added definition dbxref GOC:mah to GO:0006874
* Changed definition of GO:0006875 from "The regulation of the levels, transport, and metabolism of metal ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of metal ions at the level of a cell."
* Added definition dbxref GOC:mah to GO:0006875
* Changed definition of GO:0006876 from "The regulation of the levels, transport, and metabolism of cadmium ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of cadmium ions at the level of a cell."
* Added definition dbxref GOC:mah to GO:0006876
* Changed definition of GO:0006877 from "The regulation of the levels, transport, and metabolism of cobalt ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of cobalt ions at the level of a cell."
* Added definition dbxref GOC:mah to GO:0006877
* Changed definition of GO:0006878 from "The regulation of the levels, transport, and metabolism of copper ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of copper ions at the level of a cell."
* Added definition dbxref GOC:mah to GO:0006878
* Changed definition of GO:0006879 from "The regulation of the levels, transport, and metabolism of iron ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of iron ions at the level of a cell."
* Added definition dbxref GOC:mah to GO:0006879
* Changed definition of GO:0006882 from "The regulation of the levels, transport, and metabolism of zinc ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of zinc ions at the level of a cell."
* Added definition dbxref GOC:mah to GO:0006882
* Changed definition of GO:0006883 from "The regulation of the levels, transport, and metabolism of sodium ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of sodium ions at the level of a cell."
* Added definition dbxref GOC:mah to GO:0006883
* Changed definition of GO:0006885 from "Any process that modulates the internal pH of an organism, part of an organism or a cell, measured by the concentration of the hydrogen ion." to "Any process involved in the maintenance of an internal equilibrium of hydrogen ions, thereby modulating the internal pH, within an organism or cell."
* Changed definition of GO:0007036 from "The regulation of the levels, transport, and metabolism of calcium ions in the vacuole or between a vacuole and its surroundings." to "Any process involved in the maintenance of an internal equilibrium of calcium ions in the vacuole or between a vacuole and its surroundings."
* Added definition dbxref GOC:mah to GO:0007036
* Changed definition of GO:0010217 from "The regulation of the levels, transport, and metabolism of aluminum ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of aluminum ions at the level of a cell."
* Added definition dbxref GOC:mah to GO:0010217
* Deleted synonym "aluminium ion homeostasis" from GO:0010217
* Added synonym "cellular aluminium ion homeostasis" to GO:0010217
* Added general dbxref GOC:mah to synonym cellular aluminium ion homeostasis of GO:0010217
* Changed synonym scope of GO:0010217 from "Related" to "Exact"
* Set definition of GO:0019419 to "The chemical reactions and pathways resulting in the reduction of sulfate to another sulfur-containing ion or compound such as hydrogen sulfide or thiosulfate."
* Added definition dbxref MetaCyc:DISSULFRED-PWY to GO:0019419
* Added definition dbxref MetaCyc:P224-PWY to GO:0019419
* Added definition dbxref MetaCyc:SO4ASSIM-PWY to GO:0019419
* Added definition dbxref MetaCyc:SULFMETII-PWY to GO:0019419
* Set definition of GO:0019426 to "The chemical reactions and pathways resulting in the reduction of sulfate to thiosulfate via bisulfite."
* Added definition dbxref MetaCyc:P224-PWY to GO:0019426
* Deleted GO:0019426 --OBO_REL:is_a--> GO:0006791
* Copied GO:0019426 to GO:0019419 with type OBO_REL:is_a
* Changed definition of GO:0030002 from "The regulation of the levels, transport, and metabolism of anions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of anions at the level of a cell."
* Added definition dbxref GOC:mah to GO:0030002
* Changed definition of GO:0030003 from "The regulation of the levels, transport, and metabolism of cations within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of cations at the level of a cell."
* Added definition dbxref GOC:mah to GO:0030003
* Changed definition of GO:0030004 from "The regulation of the levels, transport, and metabolism of monovalent inorganic cations within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of monovalent inorganic cations at the level of a cell."
* Added definition dbxref GOC:mah to GO:0030004
* Changed definition of GO:0030005 from "The regulation of the levels, transport, and metabolism of divalent and trivalent inorganic cations within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of divalent or trivalent cations at the level of a cell."
* Added definition dbxref GOC:mah to GO:0030005
* Changed definition of GO:0030007 from "The regulation of the levels, transport, and metabolism of potassium ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of potassium ions at the level of a cell."
* Changed definition of GO:0030026 from "The regulation of the levels, transport, and metabolism of manganese ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of manganese ions at the level of a cell."
* Changed definition of GO:0030319 from "The regulation of the levels, transport, and metabolism of divalent and trivalent inorganic anions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of divalent or trivalent inorganic anions at the level of a cell."
* Added definition dbxref GOC:mah to GO:0030319
* Changed definition of GO:0030320 from "The regulation of the levels, transport, and metabolism of monovalent inorganic anions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of monovalent inorganic anions at the level of a cell."
* Added definition dbxref GOC:mah to GO:0030320
* Changed definition of GO:0030641 from "The regulation of the levels, transport, and metabolism of hydrogen ions (protons) within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of hydrogen ions (protons) within a cell or between a cell and its external environment."
* Changed definition of GO:0030642 from "The regulation of the levels, transport, and metabolism of sulfate ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of sulfate ions at the level of a cell."
* Changed definition of GO:0030643 from "The regulation of the levels, transport, and metabolism of phosphate ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of phosphate ions at the level of a cell."
* Changed definition of GO:0030644 from "The regulation of the levels, transport, and metabolism of chloride ions within a cell or between a cell and its external environment." to "Any process involved in the maintenance of an internal equilibrium of chloride ions at the level of a cell."
* Changed definition of GO:0032468 from "The regulation of the levels, transport, and metabolism of calcium ions within the Golgi apparatus of a cell or between the Golgi and its surroundings." to "Any process involved in the maintenance of an internal equilibrium of calcium ions within the Golgi apparatus of a cell or between the Golgi and its surroundings."
* Changed definition of GO:0032469 from "The regulation of the levels, transport, and metabolism of calcium ions within the endoplasmic reticulum of a cell or between the endoplasmic reticulum and its surroundings." to "Any process involved in the maintenance of an internal equilibrium of calcium ions within the endoplasmic reticulum of a cell or between the endoplasmic reticulum and its surroundings."
* Copied GO:0033313 to GO:0051445 with type OBO_REL:is_a
* Changed definition of GO:0046916 from "The regulation of the levels, transport, and metabolism of transition metal ions within a cell or between a cell and its external environment. A transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver." to "Any process involved in the maintenance of an internal equilibrium of transition metal ions at the level of a cell. A transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver."
* Added definition dbxref GOC:mah to GO:0046916
* Changed name of GO:0046961 from "hydrogen ion transporting ATPase activity, rotational mechanism" to "proton-transporting ATPase activity, rotational mechanism"
* Deleted synonym "proton-transporting ATPase activity, rotational mechanism" from GO:0046961
* Added synonym "hydrogen ion transporting ATPase activity, rotational mechanism" to GO:0046961
* Changed synonym scope of GO:0046961 from "Related" to "Exact"
* Changed definition of GO:0051480 from "The regulation of the levels, transport, and metabolism of calcium ions within the cytosol of a cell or between the cytosol and its surroundings." to "Any process involved in the maintenance of an internal equilibrium of calcium ions within the cytosol of a cell or between the cytosol and its surroundings."
* Added definition dbxref GOC:mah to GO:0051480
* Changed definition of GO:0051560 from "The regulation of the levels, transport, and metabolism of calcium ions within the cytoplasm of a cell or between mitochondria and their surroundings." to "Any process involved in the maintenance of an internal equilibrium of calcium ions within the cytoplasm of a cell or between mitochondria and their surroundings."
* Added definition dbxref GOC:mah to GO:0051560
* Changed definition of GO:0051563 from "The regulation of the levels, transport, and metabolism of calcium ions within the smooth endoplasmic reticulum of a cell or between the smooth endoplasmic reticulum and its surroundings." to "Any process involved in the maintenance of an internal equilibrium of calcium ions within the smooth endoplasmic reticulum of a cell or between the smooth endoplasmic reticulum and its surroundings."
* Added definition dbxref GOC:mah to GO:0051563
* Changed definition of GO:0055061 from "The regulation of the levels, transport, and metabolism of divalent and trivalent inorganic anions." to "Any process involved in the maintenance of an internal equilibrium of divalent or trivalent inorganic anions within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055061
* Changed definition of GO:0055062 from "The regulation of the levels, transport, and metabolism of phosphate ions." to "Any process involved in the maintenance of an internal equilibrium of phosphate ions within an organism or cell."
* Changed definition of GO:0055063 from "The regulation of the levels, transport, and metabolism of sulfate ions." to "Any process involved in the maintenance of an internal equilibrium of sulfate ions within an organism or cell."
* Changed definition of GO:0055064 from "The regulation of the levels, transport, and metabolism of chloride ions." to "Any process involved in the maintenance of an internal equilibrium of chloride ions within an organism or cell."
* Changed definition of GO:0055065 from "The regulation of the levels, transport, and metabolism of metal ions." to "Any process involved in the maintenance of an internal equilibrium of metal ions within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055065
* Changed definition of GO:0055066 from "The regulation of the levels, transport, and metabolism of divalent and trivalent inorganic cations." to "Any process involved in the maintenance of an internal equilibrium of divalent or trivalent cations within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055066
* Changed definition of GO:0055067 from "The regulation of the levels, transport, and metabolism of monovalent inorganic cations." to "Any process involved in the maintenance of an internal equilibrium of monovalent inorganic cations within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055067
* Changed definition of GO:0055068 from "The regulation of the levels, transport, and metabolism of cobalt ions." to "Any process involved in the maintenance of an internal equilibrium of cobalt ions within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055068
* Changed definition of GO:0055069 from "The regulation of the levels, transport, and metabolism of zinc ions." to "Any process involved in the maintenance of an internal equilibrium of zinc ions within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055069
* Changed definition of GO:0055070 from "The regulation of the levels, transport, and metabolism of copper ions." to "Any process involved in the maintenance of an internal equilibrium of copper ions within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055070
* Changed definition of GO:0055071 from "The regulation of the levels, transport, and metabolism of manganese ions." to "Any process involved in the maintenance of an internal equilibrium of manganese ions within an organism or cell."
* Changed definition of GO:0055072 from "The regulation of the levels, transport, and metabolism of iron ions." to "Any process involved in the maintenance of an internal equilibrium of iron ions within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055072
* Changed definition of GO:0055073 from "The regulation of the levels, transport, and metabolism of cadmium ions." to "Any process involved in the maintenance of an internal equilibrium of cadmium ions within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055073
* Changed definition of GO:0055074 from "The regulation of the levels, transport, and metabolism of calcium ions." to "Any process involved in the maintenance of an internal equilibrium of calcium ions within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055074
* Changed definition of GO:0055075 from "The regulation of the levels, transport, and metabolism of potassium ions." to "Any process involved in the maintenance of an internal equilibrium of potassium ions within an organism or cell."
* Changed definition of GO:0055076 from "The regulation of the levels, transport, and metabolism of transition metal ions. A transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver." to "Any process involved in the maintenance of an internal equilibrium of transition metal ions within an organism or cell. A transition metal is an element whose atom has an incomplete d-subshell of extranuclear electrons, or which gives rise to a cation or cations with an incomplete d-subshell. Transition metals often have more than one valency state. Biologically relevant transition metals include vanadium, manganese, iron, copper, cobalt, nickel, molybdenum and silver."
* Added definition dbxref GOC:mah to GO:0055076
* Changed definition of GO:0055078 from "The regulation of the levels, transport, and metabolism of sodium ions." to "Any process involved in the maintenance of an internal equilibrium of sodium ions within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055078
* Changed definition of GO:0055079 from "The regulation of the levels, transport, and metabolism of aluminum ions." to "Any process involved in the maintenance of an internal equilibrium of aluminum ions within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055079
* Added synonym "aluminium ion homeostasis" to GO:0055079
* Added general dbxref GOC:mah to synonym aluminium ion homeostasis of GO:0055079
* Changed synonym scope of GO:0055079 from "Related" to "Exact"
* Changed definition of GO:0055080 from "The regulation of the levels, transport, and metabolism of cations." to "Any process involved in the maintenance of an internal equilibrium of cations within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055080
* Changed definition of GO:0055081 from "The regulation of the levels, transport, and metabolism of anions." to "Any process involved in the maintenance of an internal equilibrium of anions within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055081
* Changed definition of GO:0055083 from "The regulation of the levels, transport, and metabolism of monovalent inorganic anions." to "Any process involved in the maintenance of an internal equilibrium of monovalent inorganic anions within an organism or cell."
* Added definition dbxref GOC:mah to GO:0055083