[Go-diff] GO update 02/10/2009

[Remote CVS for Gene Ontology]

OBODIFF of gene_ontology_write.obo version 1.439 by 1.440

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0070314
* Created object of type obo:TERM with id GO:0070315
* Created object of type obo:TERM with id GO:0070316
* Created object of type obo:TERM with id GO:0070317
* Created object of type obo:TERM with id GO:0070318
* Populated new object GO:0070314 (macro)
  * Changed name of GO:0070314 from "<new term>" to "G1 to G0 transition"
  * Set definition of GO:0070314 to "A process by which progression through the cell cycle is halted during G1 phase, whereupon the cell enters a specialized resting state known as G0 or quiescensce."
  * Added definition dbxref GOC:mah to GO:0070314
  * Added definition dbxref ISBN:0815316194 to GO:0070314
  * Added synonym "cell cycle quiescence" to GO:0070314
  * Added general dbxref GOC:mah to synonym cell cycle quiescence of GO:0070314
  * Added synonym "G1/G0 transition" to GO:0070314
  * Added general dbxref GOC:mah to synonym G1/G0 transition of GO:0070314
  * Changed synonym scope of GO:0070314 from "Related" to "Exact"
  * Added synonym "stationary phase" to GO:0070314
  * Added general dbxref GOC:mah to synonym stationary phase of GO:0070314
  * Copied GO:0070314 to GO:0007050 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070314
* Populated new object GO:0070315 (macro)
  * Changed name of GO:0070315 from "<new term>" to "G1 to G0 transition involved in cell differentiation"
  * Set definition of GO:0070315 to "A process by which progression through the cell cycle is halted during G1 phase, whereupon the cell enters G0 phase, in the context of cell differentiation."
  * Added definition dbxref GOC:mah to GO:0070315
  * Added definition dbxref ISBN:0815316194 to GO:0070315
  * Added synonym "G1/G0 transition involved in cell differentiation" to GO:0070315
  * Added general dbxref GOC:mah to synonym G1/G0 transition involved in cell differentiation of GO:0070315
  * Changed synonym scope of GO:0070315 from "Related" to "Exact"
  * Copied GO:0070315 to GO:0070314 with type OBO_REL:is_a
  * Copied GO:0070315 to GO:0030154 with type part_of
  * Assigned namespace "biological_process" to GO:0070315
* Populated new object GO:0070316 (macro)
  * Changed name of GO:0070316 from "<new term>" to "regulation of G0 to G1 transition"
  * Set definition of GO:0070316 to "A cell cycle process that modulates the rate or extent of the transition from the G0 quiescent state to the G1 phase."
  * Added definition dbxref GOC:mah to GO:0070316
  * Copied GO:0070316 to GO:0051726 with type OBO_REL:is_a
  * Copied GO:0070316 to GO:0045023 with type regulates
  * Assigned namespace "biological_process" to GO:0070316
* Populated new object GO:0070317 (macro)
  * Changed name of GO:0070317 from "<new term>" to "negative regulation of G0 to G1 transition"
  * Set definition of GO:0070317 to "A cell cycle process that stops, prevents, or reduces the rate or extent of the transition from the G0 quiescent state to the G1 phase."
  * Added definition dbxref GOC:mah to GO:0070317
  * Added synonym "maintenance of G0 phase" to GO:0070317
  * Added general dbxref GOC:mah to synonym maintenance of G0 phase of GO:0070317
  * Changed synonym scope of GO:0070317 from "Related" to "Exact"
  * Copied GO:0070317 to GO:0045786 with type OBO_REL:is_a
  * Copied GO:0070317 to GO:0070316 with type OBO_REL:is_a
  * Copied GO:0070317 to GO:0045023 with type negatively_regulates
  * Assigned namespace "biological_process" to GO:0070317
* Populated new object GO:0070318 (macro)
  * Changed name of GO:0070318 from "<new term>" to "positive regulation of G0 to G1 transition"
  * Set definition of GO:0070318 to "A cell cycle process that activates or increases the rate or extent of the transition from the G0 quiescent state to the G1 phase."
  * Added definition dbxref GOC:mah to GO:0070318
  * Copied GO:0070318 to GO:0070316 with type OBO_REL:is_a
  * Copied GO:0070318 to GO:0045023 with type positively_regulates
  * Copied GO:0070318 to GO:0045787 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070318
* Set definition of GO:0005242 to "Catalysis of the transmembrane transfer of a potassium ion by an inwardly-rectifying voltage-gated channel. An inwardly rectifying current-voltage relation is one where at any given driving force the inward flow of K+ ions exceeds the outward flow for the opposite driving force. The inward-rectification is due to a voltage-dependent block of the channel pore by a specific ligand or ligands, and as a result the macroscopic conductance depends on the difference between membrane voltage and the K+ equilibrium potential rather than on membrane voltage itself."
* Added definition dbxref GOC:cb to GO:0005242
* Added definition dbxref GOC:mah to GO:0005242
* Added definition dbxref PMID:14977398 to GO:0005242
* Added synonym "Kir channel activity" to GO:0005242
* Added general dbxref GOC:cb to synonym Kir channel activity of GO:0005242
* Changed synonym scope of GO:0005242 from "Related" to "Exact"
* Copied GO:0005242 to GO:0015276 with type OBO_REL:is_a
* Set definition of GO:0005250 to "Catalysis of the transmembrane transfer of a potassium ion by an outwardly-rectifying voltage-gated channel that produces a transient outward current upon a step change in membrane potential."
* Added definition dbxref GOC:mah to GO:0005250
* Added definition dbxref PMID:5575340 to GO:0005250
* Set definition of GO:0005251 to "Catalysis of the transmembrane transfer of a potassium ion by a delayed rectifying voltage-gated channel. A delayed rectifying current-voltage relation is one where channel activation kinetics are time-dependent, and activation is slow."
* Added definition dbxref GOC:mah to GO:0005251
* Added definition dbxref PMID:11343411 to GO:0005251
* Added definition dbxref PMID:2462513 to GO:0005251
* Set definition of GO:0005252 to "Catalysis of the transmembrane transfer of a potassium ion by an open rectifier voltage-gated channel. An open rectifier current-voltage relationship is one in which the direction of rectification depends on the external potassium ion concentration."
* Added definition dbxref GOC:mah to GO:0005252
* Added definition dbxref PMID:8917578 to GO:0005252
* Changed comment from "This term was obsoleted because it refers to a non-existent molecular function term, 'calmodulin activity'. To update annotations, consider the molecular function term 'calmodulin binding ; GO:0005516'." to "This term was made obsolete because it refers to a non-existent molecular function term, 'calmodulin activity'."
* Changed comment from "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp27 protein activity'. 'To update annotations, use the molecular function term, 'Hsp27 protein binding ; GO:0051008 ' and consider the molecular function terms 'unfolded protein binding; GO:0051082', 'misfolded protein binding ; GO:0051787' and the biological process term 'protein folding ; GO:0006457'." to "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp27 protein activity'."
* Changed comment from "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp27 protein activity'. 'To update annotations, use the molecular function term, 'Hsp27 protein binding ; GO:0051008 ' and consider the molecular function terms 'unfolded protein binding; GO:0051082', 'misfolded protein binding ; GO:0051787' and the biological process term 'protein folding ; GO:0006457'." to "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp27 protein activity'."
* Changed comment from "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp90 protein activity'. 'To update annotations, use the molecular function term, 'Hsp 90 protein binding ; GO:0051879' and consider the molecular function terms 'unfolded protein binding; GO:0051082', 'misfolded protein binding ; GO:0051787' and the biological process term 'protein folding ; GO:0006457'." to "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp90 protein activity'."
* Changed comment from "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp90 protein activity'. 'To update annotations, use the molecular function term, 'Hsp 90 protein binding ; GO:0051879' and consider the molecular function terms 'unfolded protein binding; GO:0051082', 'misfolded protein binding ; GO:0051787' and the biological process term 'protein folding ; GO:0006457'." to "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp90 protein activity'."
* Changed definition of GO:0010896 from "Any process that modulates the frequency, rate, or extent of
the chemical reactions and pathways resulting in the breakdown of
triacylglycerol." to "Any process that modulates the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of triacylglycerol."
* Changed definition of GO:0010897 from "Any process that decreases the frequency, rate, or extent of
the chemical reactions and pathways resulting in the breakdown of
triacylglycerol." to "Any process that decreases the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of triacylglycerol."
* Changed definition of GO:0010898 from "Any process that increases the frequency, rate, or extent of
the chemical reactions and pathways resulting in the breakdown of
triacylglycerol." to "Any process that increases the frequency, rate, or extent of the chemical reactions and pathways resulting in the breakdown of triacylglycerol."
* Set definition of GO:0015271 to "Catalysis of the transmembrane transfer of a potassium ion by an outwardly-rectifying voltage-gated channel. An outwardly rectifying current-voltage relation is one where at any given driving force the outward flow of K+ ions exceeds the inward flow for the opposite driving force."
* Added definition dbxref GOC:mah to GO:0015271
* Set definition of GO:0015272 to "Catalysis of the transmembrane transfer of a potassium ion by an inwardly-rectifying voltage-gated channel, where the inward rectification is due to a voltage-dependent block of the channel pore by ATP. An inwardly rectifying current-voltage relation is one where at any given driving force the inward flow of K+ ions exceeds the outward flow for the opposite driving force."
* Added definition dbxref GOC:cb to GO:0015272
* Added definition dbxref GOC:mah to GO:0015272
* Deleted GO:0015273 --OBO_REL:is_a--> GO:0005242
* Destroyed object GO:0015273
* added secondary id GO:0015273 to GO:0015467
* Set definition of GO:0015467 to "Catalysis of the transmembrane transfer of a potassium ion by an inwardly-rectifying voltage-gated channel, where the inward rectification is due to a voltage-dependent block of the channel pore by a G protein. An inwardly rectifying current-voltage relation is one where at any given driving force the inward flow of K+ ions exceeds the outward flow for the opposite driving force."
* Added definition dbxref GOC:cb to GO:0015467
* Added definition dbxref GOC:mah to GO:0015467
* Added synonym "G protein enhanced inward rectifier potassium channel activity" to GO:0015467
* Changed synonym scope of GO:0015467 from "Related" to "Exact"
* Added synonym "G-protein enhanced inward rectifier potassium channel activity" to GO:0015467
* Changed synonym scope of GO:0015467 from "Related" to "Exact"
* Added synonym "G-protein-enhanced inward rectifier potassium channel activity" to GO:0015467
* Changed synonym scope of GO:0015467 from "Related" to "Exact"
* Changed comment from "This term was made obsolete because it refers to a combination of a function and a process. To update annotations, consider the biological process terms 'negative regulation of GTPase activity ; GO:0034260' and 'negative regulation of G-protein coupled receptor protein signaling pathway ; GO:0045744' and the molecular function term 'GTPase inhibitor activity ; GO:0005095'." to "This term was made obsolete because it refers to a combination of a function and a process."
* Changed definition of GO:0016458 from "Any transcriptional or post-transcriptional process carried out at the
cellular level that results in long-term gene inactivation." to "Any transcriptional or post-transcriptional process carried out at the cellular level that results in long-term gene inactivation."
* Changed comment from "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp70 protein activity'. 'To update annotations, use the molecular function term, 'heat shock protein binding ; GO:0031072' and consider the molecular function terms 'unfolded protein binding; GO:0051082', 'misfolded protein binding ; GO:0051787' and the biological process term 'protein folding ; GO:0006457'." to "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp70 protein activity'."
* Changed comment from "This term was made obsolete because it refers to an obsolete molecular function term, 'activin'. To update annotations, consider the molecular function term 'signal transducer activity ; GO:0004871'." to "This term was made obsolete because it refers to an obsolete molecular function term, 'activin'."
* Changed comment from "This term was made obsolete because it refers to a obsolete molecular function term, 'chaperone activity'. 'To update annotations, consider the molecular function terms 'unfolded protein binding; GO:0051082', 'misfolded protein binding ; GO:0051787' and the biological process term 'protein folding ; GO:0006457'." to "This term was made obsolete because it refers to a obsolete molecular function term, 'chaperone activity'."
* Changed comment from "This term was made obsolete because it refers to a obsolete molecular function term, 'chaperone activity'. 'To update annotations, consider the molecular function terms 'unfolded protein binding; GO:0051082', 'misfolded protein binding ; GO:0051787' and the biological process term 'protein folding ; GO:0006457'." to "This term was made obsolete because it refers to a obsolete molecular function term, 'chaperone activity'."
* Changed comment from "This term was made obsolete because it refers to a obsolete molecular function term, 'chaperone activity'. 'To update annotations, consider the molecular function terms 'unfolded protein binding; GO:0051082', 'misfolded protein binding ; GO:0051787' and the biological process term 'protein folding ; GO:0006457'." to "This term was made obsolete because it refers to a obsolete molecular function term, 'chaperone activity'."
* Changed comment from "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp70/Hsc70 protein activity'. 'To update annotations, consider the molecular function terms 'unfolded protein binding; GO:0051082', 'misfolded protein binding ; GO:0051787' and the biological process term 'protein folding ; GO:0006457'." to "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp70/Hsc70 protein activity'."
* Changed comment from "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp70/Hsc70 protein activity'. 'To update annotations, consider the molecular function terms 'unfolded protein binding; GO:0051082', 'misfolded protein binding ; GO:0051787' and the biological process term 'protein folding ; GO:0006457'." to "This term was made obsolete because it refers to a non-existent molecular function term, 'Hsp70/Hsc70 protein activity'."
* Changed definition of GO:0033062 from "A conserved heterodimeric DNA recombinase mediator complex that contains the Rad51 paralogs Rhp55p and Rph57 in Schizosaccharomyces, or orthologs thereof (e.g. Rad55p and Rad57p in Saccharomyces)." to "A conserved heterodimeric DNA recombinase mediator complex that contains the RecA family proteins Rhp55p and Rph57 in Schizosaccharomyces, or orthologs thereof (e.g. Rad55p and Rad57p in Saccharomyces)."