[Go-diff] GO update 03/19/2008

Wed Mar 19 21:30:45 PDT 2008

OBODIFF of gene_ontology_edit.obo version 5.740 by 5.742

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0022900
* Created object of type obo:TERM with id GO:0022904
* Populated new object GO:0022900 (macro)
  * Changed name of GO:0022900 from "<new term>" to "electron transport chain"
  * Set definition of GO:0022900 to "A process whereby a series of electron carriers operate together to transfer electrons from donors to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient."
  * Added definition dbxref GOC:mtg_electron_transport to GO:0022900
  * Copied GO:0022900 to GO:0006091 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0022900
* Populated new object GO:0022904 (macro)
  * Changed name of GO:0022904 from "<new term>" to "respiratory electron transport chain"
  * Set definition of GO:0022904 to "A process whereby a series of electron carriers operate together to transfer electrons from donors such as NADH and FADH2 to any of several different terminal electron acceptors to generate a transmembrane electrochemical gradient."
  * Added definition dbxref GOC:mtg_electron_transport to GO:0022904
  * Added definition dbxref http://cancerweb.ncl.ac.uk/ to GO:0022904
  * Added GO:0022904 to category goslim_candida
  * Added GO:0022904 to category goslim_generic
  * Added GO:0022904 to category goslim_goa
  * Added GO:0022904 to category goslim_pir
  * Added GO:0022904 to category goslim_plant
  * Added GO:0022904 to category goslim_yeast
  * Added GO:0022904 to category gosubset_prok
  * Added synonym "6-phosphofructokinase reduction" to GO:0022904
  * Added synonym "dihydrobiopterin reduction" to GO:0022904
  * Added synonym "dihydrolipoamide reduction" to GO:0022904
  * Added synonym "dihydrolipoylprotein reduction" to GO:0022904
  * Added synonym "dihydropteridine reduction" to GO:0022904
  * Added synonym "electron transfer" to GO:0022904
  * Changed synonym scope of GO:0022904 from "Related" to "Exact"
  * Added synonym "other pathways of electron transport" to GO:0022904
  * Added synonym "oxidized glutathione reduction" to GO:0022904
  * Added synonym "protein-disulfide reduction" to GO:0022904
  * Copied GO:0022904 to GO:0022900 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0022904
* Added comment "This term was made obsolete because it is defined as a function term and is in the process ontology."
* Changed definition of GO:0000044 from "The reduction of the ascorbate free radical to a stable form." to "OBSOLETE. The reduction of the ascorbate free radical to a stable form."
* Added definition dbxref GOC:mtg_electron_transport to GO:0000044
* Deleted GO:0000044 --OBO_REL:is_a--> GO:0006118
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 1b2b0d4
* Deleted GO:0003071 --OBO_REL:is_a--> GO:0003073
* Copied GO:0003071 to GO:0003073 with type part_of
* Added comment "This term was obsoleted because it describes a molecular function."
* Changed definition of GO:0006118 from "The transport of electrons from an electron donor to an electron acceptor." to "OBSOLETE. The transport of electrons from an electron donor to an electron acceptor."
* Deleted GO:0006118 --OBO_REL:is_a--> GO:0006091
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 774add
* Deleted GO:0006120 --OBO_REL:is_a--> GO:0006118
* Copied GO:0006120 to GO:0022904 with type OBO_REL:is_a
* Deleted GO:0006121 --OBO_REL:is_a--> GO:0006118
* Copied GO:0006121 to GO:0022904 with type OBO_REL:is_a
* Deleted GO:0006122 --OBO_REL:is_a--> GO:0006118
* Copied GO:0006122 to GO:0022904 with type OBO_REL:is_a
* Deleted GO:0006123 --OBO_REL:is_a--> GO:0006118
* Copied GO:0006123 to GO:0022904 with type OBO_REL:is_a
* Added comment "This term was made obsolete because it is not clear what it is intended to represent."
* Set definition of GO:0006125 to "OBSOLETE."
* Added definition dbxref GOC:mtg_electron_transport to GO:0006125
* Deleted GO:0006125 --OBO_REL:is_a--> GO:0006118
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 1d40e14
* Added definition dbxref GOC:mtg_electron_transport to GO:0006127
* Deleted GO:0006127 --OBO_REL:is_a--> GO:0006118
* Copied GO:0006127 to GO:0006839 with type OBO_REL:is_a
* Copied GO:0006127 to GO:0022904 with type part_of
* Added comment "This term was made obsolete because it is defined as a function term and is in the process ontology."
* Set definition of GO:0006133 to "OBSOLETE."
* Added definition dbxref GOC:mtg_electron_transport to GO:0006133
* Deleted GO:0006133 --OBO_REL:is_a--> GO:0006118
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at e84502
* Deleted GO:0006136 --OBO_REL:is_a--> GO:0006118
* Destroyed object GO:0006136
* Deleted GO:0006137 --OBO_REL:is_a--> GO:0006118
* Destroyed object GO:0006137
* Deleted GO:0006138 --OBO_REL:is_a--> GO:0006118
* Destroyed object GO:0006138
* Added comment "This term was obsoleted because it represents a process."
* Changed definition of GO:0009502 from "A series of membrane-linked oxidation-reduction reactions in which electrons are transferred from an initial electron donor through a series of intermediates to a final electron acceptor (usually oxygen)." to "OBSOLETE. A series of membrane-linked oxidation-reduction reactions in which electrons are transferred from an initial electron donor through a series of intermediates to a final electron acceptor (usually oxygen)."
* Added definition dbxref GOC:mtg_electron_transport to GO:0009502
* Deleted GO:0009502 --OBO_REL:is_a--> GO:0044436
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 10ab2e1
* Deleted GO:0009512 --part_of--> GO:0009502
* Deleted GO:0009766 --OBO_REL:is_a--> GO:0006118
* Copied GO:0009766 to GO:0022904 with type OBO_REL:is_a
* Changed name of GO:0009767 from "photosynthetic electron transport" to "photosynthetic electron transport chain"
* Changed definition of GO:0009767 from "The process by which pairs of electrons are transported from water to NADP+ in the light phase of photosynthesis during noncyclic photophosphorylation." to "A process, occuring as part of photosynthesis, whereby light provides the energy for a series of electron carriers to operate together to transfer electrons and generate a transmembrane electrochemical gradient."
* Added definition dbxref GOC:mtg_electron_transport to GO:0009767
* Deleted GO:0009767 --OBO_REL:is_a--> GO:0006118
* Copied GO:0009767 to GO:0022900 with type OBO_REL:is_a
* Added definition dbxref GOC:mtg_electron_transport to GO:0010205
* Copied GO:0010205 to GO:0009767 with type part_of
* Added definition dbxref GOC:mtg_electron_transport to GO:0010478
* Deleted GO:0010478 --OBO_REL:is_a--> GO:0006118
* Copied GO:0010478 to GO:0022904 with type OBO_REL:is_a
* Changed name of GO:0019645 from "anaerobic electron transport" to "anaerobic electron transport chain"
* Changed definition of GO:0019645 from "The transport of electrons from an electron donor to an electron acceptor which takes place in the absence of oxygen." to "A process whereby a series of electron carriers operate together to transfer electrons from donors such as NADH and FADH2 to any of several different terminal electron acceptors other than oxygen to generate a transmembrane electrochemical gradient."
* Added definition dbxref GOC:mtg_electron_transport to GO:0019645
* Deleted GO:0019645 --OBO_REL:is_a--> GO:0006118
* Copied GO:0019645 to GO:0022904 with type OBO_REL:is_a
* Changed name of GO:0019646 from "aerobic electron transport" to "aerobic electron transport chain"
* added secondary id GO:0006136 to GO:0019646
* added secondary id GO:0006137 to GO:0019646
* added secondary id GO:0006138 to GO:0019646
* Changed definition of GO:0019646 from "The transport of electrons from an electron donor to an electron acceptor which takes place in the presence of oxygen." to "A process whereby a series of electron carriers operate together to transfer electrons from donors such as NADH and FADH2 to oxygen to generate a transmembrane electrochemical gradient."
* Added definition dbxref GOC:mtg_electron_transport to GO:0019646
* Added synonym "NADH-O2 electron transport" to GO:0019646
* Changed synonym scope of GO:0019646 from "Related" to "Narrow"
* Added synonym "succinate-O2 electron transport" to GO:0019646
* Changed synonym scope of GO:0019646 from "Related" to "Narrow"
* Added synonym "ubiquinone-8-O2 electron transport" to GO:0019646
* Changed synonym scope of GO:0019646 from "Related" to "Narrow"
* Deleted GO:0019646 --OBO_REL:is_a--> GO:0006118
* Copied GO:0019646 to GO:0022904 with type OBO_REL:is_a
* Deleted GO:0030965 --OBO_REL:is_a--> GO:0006118
* Copied GO:0030965 to GO:0022904 with type OBO_REL:is_a
* Changed definition of GO:0032479 from "Any process that modulates the frequency, rate, or extent of interferon type I production. Type I interferons include the interferon-alpha, beta, delta, episilon, zeta, kappa, tau, and omega gene families" to "Any process that modulates the frequency, rate, or extent of interferon type I production. Type I interferons include the interferon-alpha, beta, delta, episilon, zeta, kappa, tau, and omega gene families."
* Changed definition of GO:0032649 from "Any process that modulates the frequency, rate, or extent of interferon-gamma production. Interferon-gamma is also known as type II interferon" to "Any process that modulates the frequency, rate, or extent of interferon-gamma production. Interferon-gamma is also known as type II interferon."
* Changed definition of GO:0032689 from "Any process that stops, prevents, or reduces the frequency, rate, or extent of interferon-gamma production. Interferon-gamma is also known as type II interferon" to "Any process that stops, prevents, or reduces the frequency, rate, or extent of interferon-gamma production. Interferon-gamma is also known as type II interferon."
* Changed definition of GO:0032729 from "Any process that activates or increases the frequency, rate, or extent of interferon-gamma production. Interferon-gamma is also known as type II interferon" to "Any process that activates or increases the frequency, rate, or extent of interferon-gamma production. Interferon-gamma is also known as type II interferon."
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"
* Changed definition of GO:0034300 from "The process by which sporangiospores, a type of asexual spore found in fungi, are formed. Sporangiospores are formed within sac-like structure, the sporangium, following the division of the cytoplasm" to "The process by which sporangiospores, a type of asexual spore found in fungi, are formed. Sporangiospores are formed within sac-like structure, the sporangium, following the division of the cytoplasm."
* Deleted synonym ""programmed cell death of glia by apoptosis" from GO:0034349
* Added synonym "programmed cell death of glia by apoptosis" to GO:0034349
* Changed synonym scope of GO:0034349 from "Related" to "Exact"
* Deleted GO:0042773 --OBO_REL:is_a--> GO:0006118
* Copied GO:0042773 to GO:0022904 with type OBO_REL:is_a
* Added definition dbxref GOC:mtg_electron_transport to GO:0043490
* Deleted GO:0043490 --OBO_REL:is_a--> GO:0006118
* Copied GO:0043490 to GO:0022904 with type part_of
* Copied GO:0043490 to GO:0006839 with type OBO_REL:is_a