[Go-diff] GO update 03/11/2009

Remote CVS for Gene Ontology gocvs at genome.stanford.edu
Wed Mar 11 21:30:51 PDT 2009 

OBODIFF of gene_ontology_write.obo version 1.470 by 1.472

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0010915
* Created object of type obo:TERM with id GO:0010916
* Created object of type obo:TERM with id GO:0010917
* Created object of type obo:TERM with id GO:0010918
* Created object of type obo:TERM with id GO:0010919
* Created object of type obo:TERM with id GO:0010920
* Created object of type obo:TERM with id GO:0010921
* Created object of type obo:TERM with id GO:0010922
* Created object of type obo:TERM with id GO:0010923
* Created object of type obo:TERM with id GO:0010924
* Created object of type obo:TERM with id GO:0010925
* Created object of type obo:TERM with id GO:0070500
* Created object of type obo:TERM with id GO:0070501
* Created object of type obo:TERM with id GO:0070502
* Populated new object GO:0010915 (macro)
  * Changed name of GO:0010915 from "<new term>" to "regulation of very-low-density lipoprotein particle clearance"
  * Set definition of GO:0010915 to "Any process that modulates the rate, frequency or extent of very-low-density lipoprotein particle clearance. Very-low-density lipoprotein particle clearance is the process by which a very-low-density lipoprotein particle is removed from the blood via receptor-mediated endocytosis and its constituent parts degraded."
  * Added definition dbxref GOC:dph to GO:0010915
  * Added definition dbxref GOC:tb to GO:0010915
  * Added synonym "regulation of VLDL clearance" to GO:0010915
  * Added general dbxref GOC:tb to synonym regulation of VLDL clearance of GO:0010915
  * Added general dbxref GOC:dph to synonym regulation of VLDL clearance of GO:0010915
  * Changed synonym scope of GO:0010915 from "Related" to "Exact"
  * Added synonym "regulation of VLDL particle clearance" to GO:0010915
  * Added general dbxref GOC:tb to synonym regulation of VLDL particle clearance of GO:0010915
  * Added general dbxref GOC:dph to synonym regulation of VLDL particle clearance of GO:0010915
  * Changed synonym scope of GO:0010915 from "Related" to "Exact"
  * Copied GO:0010915 to GO:0051128 with type OBO_REL:is_a
  * Copied GO:0010915 to GO:0034447 with type regulates
  * Assigned namespace "biological_process" to GO:0010915
* Populated new object GO:0010916 (macro)
  * Changed name of GO:0010916 from "<new term>" to "negative regulation of very-low-density lipoprotein particle clearance"
  * Set definition of GO:0010916 to "Any process that decreases the rate, frequency or extent of very-low-density lipoprotein particle clearance. Very-low-density lipoprotein particle clearance is the process by which a very-low-density lipoprotein particle is removed from the blood via receptor-mediated endocytosis and its constituent parts degraded."
  * Added definition dbxref GOC:dph to GO:0010916
  * Added definition dbxref GOC:tb to GO:0010916
  * Added synonym "negative regulation of VLDL clearance" to GO:0010916
  * Added general dbxref GOC:tb to synonym negative regulation of VLDL clearance of GO:0010916
  * Added general dbxref GOC:dph to synonym negative regulation of VLDL clearance of GO:0010916
  * Changed synonym scope of GO:0010916 from "Related" to "Exact"
  * Added synonym "negative regulation of VLDL particle clearance" to GO:0010916
  * Added general dbxref GOC:tb to synonym negative regulation of VLDL particle clearance of GO:0010916
  * Added general dbxref GOC:dph to synonym negative regulation of VLDL particle clearance of GO:0010916
  * Changed synonym scope of GO:0010916 from "Related" to "Exact"
  * Copied GO:0010916 to GO:0034447 with type negatively_regulates
  * Copied GO:0010916 to GO:0010915 with type OBO_REL:is_a
  * Copied GO:0010916 to GO:0051129 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010916
* Populated new object GO:0010917 (macro)
  * Changed name of GO:0010917 from "<new term>" to "negative regulation of mitochondrial membrane potential"
  * Set definition of GO:0010917 to "Any process that stops, prevents or reduces the frequency, rate or extent of establishment or extent of a mitochondrial membrane potential, the electric potential existing across any mitochondrial membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane."
  * Added definition dbxref GOC:dph to GO:0010917
  * Added definition dbxref GOC:tb to GO:0010917
  * Copied GO:0010917 to GO:0051881 with type OBO_REL:is_a
  * Copied GO:0010917 to GO:0045837 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010917
* Populated new object GO:0010918 (macro)
  * Changed name of GO:0010918 from "<new term>" to "positive regulation of mitochondrial membrane potential"
  * Set definition of GO:0010918 to "Any process that activates or increases the frequency, rate or extent of establishment or extent of a mitochondrial membrane potential, the electric potential existing across any mitochondrial membrane arising from charges in the membrane itself and from the charges present in the media on either side of the membrane."
  * Added definition dbxref GOC:dph to GO:0010918
  * Added definition dbxref GOC:tb to GO:0010918
  * Copied GO:0010918 to GO:0051881 with type OBO_REL:is_a
  * Copied GO:0010918 to GO:0045838 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010918
* Populated new object GO:0010919 (macro)
  * Changed name of GO:0010919 from "<new term>" to "regulation of inositol phosphate biosynthetic process"
  * Set definition of GO:0010919 to "Any process that modulates the rate, frequency or extent of inositol phosphate biosynthesis. Inositol phosphate biosynthetic processes are the chemical reactions and pathways resulting in the formation of an inositol phosphate, 1,2,3,4,5,6-cyclohexanehexol, with one or more phosphate groups attached."
  * Added definition dbxref GOC:dph to GO:0010919
  * Added definition dbxref GOC:tb to GO:0010919
  * Added synonym "regulation of inositol phosphate biosynthesis" to GO:0010919
  * Added general dbxref GOC:tb to synonym regulation of inositol phosphate biosynthesis of GO:0010919
  * Added general dbxref GOC:dph to synonym regulation of inositol phosphate biosynthesis of GO:0010919
  * Changed synonym scope of GO:0010919 from "Related" to "Exact"
  * Copied GO:0010919 to GO:0032958 with type regulates
  * Copied GO:0010919 to GO:0031326 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010919
* Populated new object GO:0010920 (macro)
  * Changed name of GO:0010920 from "<new term>" to "negative regulation of inositol phosphate biosynthetic process"
  * Set definition of GO:0010920 to "Any process that decreases the rate, frequency or extent of inositol phosphate biosynthesis. Inositol phosphate biosynthetic processes are the chemical reactions and pathways resulting in the formation of an inositol phosphate, 1,2,3,4,5,6-cyclohexanehexol, with one or more phosphate groups attached."
  * Added definition dbxref GOC:dph to GO:0010920
  * Added definition dbxref GOC:tb to GO:0010920
  * Added synonym "negative regulation of inositol phosphate biosynthesis" to GO:0010920
  * Added general dbxref GOC:tb to synonym negative regulation of inositol phosphate biosynthesis of GO:0010920
  * Added general dbxref GOC:dph to synonym negative regulation of inositol phosphate biosynthesis of GO:0010920
  * Changed synonym scope of GO:0010920 from "Related" to "Exact"
  * Copied GO:0010920 to GO:0010919 with type OBO_REL:is_a
  * Copied GO:0010920 to GO:0031327 with type OBO_REL:is_a
  * Copied GO:0010920 to GO:0032958 with type negatively_regulates
  * Assigned namespace "biological_process" to GO:0010920
* Populated new object GO:0010921 (macro)
  * Changed name of GO:0010921 from "<new term>" to "regulation of phosphatase activity"
  * Set definition of GO:0010921 to "Any process that modulates the rate or frequency of phosphatase activity. Phosphatases catalyze the hydrolysis of phosphoric monoesters, releasing inorganic phosphate."
  * Added definition dbxref GOC:dph to GO:0010921
  * Added definition dbxref GOC:tb to GO:0010921
  * Copied GO:0010921 to GO:0016791 with type regulates
  * Copied GO:0010921 to GO:0051336 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010921
* Populated new object GO:0010922 (macro)
  * Changed name of GO:0010922 from "<new term>" to "positive regulation of phosphatase activity"
  * Set definition of GO:0010922 to "Any process that increases the rate or frequency of phosphatase activity. Phosphatases catalyze the hydrolysis of phosphoric monoesters, releasing inorganic phosphate."
  * Added definition dbxref GOC:dph to GO:0010922
  * Added definition dbxref GOC:tb to GO:0010922
  * Copied GO:0010922 to GO:0010921 with type OBO_REL:is_a
  * Copied GO:0010922 to GO:0051345 with type OBO_REL:is_a
  * Copied GO:0010922 to GO:0016791 with type positively_regulates
  * Assigned namespace "biological_process" to GO:0010922
* Populated new object GO:0010923 (macro)
  * Changed name of GO:0010923 from "<new term>" to "negative regulation of phosphatase activity"
  * Set definition of GO:0010923 to "Any process that decreases the rate or frequency of phosphatase activity. Phosphatases catalyze the hydrolysis of phosphoric monoesters, releasing inorganic phosphate."
  * Added definition dbxref GOC:dph to GO:0010923
  * Added definition dbxref GOC:tb to GO:0010923
  * Copied GO:0010923 to GO:0010921 with type OBO_REL:is_a
  * Copied GO:0010923 to GO:0051346 with type OBO_REL:is_a
  * Copied GO:0010923 to GO:0016791 with type negatively_regulates
  * Assigned namespace "biological_process" to GO:0010923
* Populated new object GO:0010924 (macro)
  * Changed name of GO:0010924 from "<new term>" to "regulation of inositol-polyphosphate 5-phosphatase activity"
  * Set definition of GO:0010924 to "Any process that modulates the rate or frequency of inositol-polyphosphate 5-phosphatase activity, the catalysis of the reactions: D-myo-inositol 1,4,5-trisphosphate + H2O = myo-inositol 1,4-bisphosphate + phosphate, and 1D-myo-inositol 1,3,4,5-tetrakisphosphate + H2O = 1D-myo-inositol 1,3,4-trisphosphate + phosphate."
  * Added definition dbxref GOC:dph to GO:0010924
  * Added definition dbxref GOC:tb to GO:0010924
  * Copied GO:0010924 to GO:0010921 with type OBO_REL:is_a
  * Copied GO:0010924 to GO:0004445 with type regulates
  * Assigned namespace "biological_process" to GO:0010924
* Populated new object GO:0010925 (macro)
  * Changed name of GO:0010925 from "<new term>" to "positive regulation of inositol-polyphosphate 5-phosphatase activity"
  * Set definition of GO:0010925 to "Any process that increases the rate or frequency of inositol-polyphosphate 5-phosphatase activity, the catalysis of the reactions: D-myo-inositol 1,4,5-trisphosphate + H2O = myo-inositol 1,4-bisphosphate + phosphate, and 1D-myo-inositol 1,3,4,5-tetrakisphosphate + H2O = 1D-myo-inositol 1,3,4-trisphosphate + phosphate."
  * Added definition dbxref GOC:dph to GO:0010925
  * Added definition dbxref GOC:tb to GO:0010925
  * Copied GO:0010925 to GO:0010924 with type OBO_REL:is_a
  * Copied GO:0010925 to GO:0010922 with type OBO_REL:is_a
  * Copied GO:0010925 to GO:0004445 with type positively_regulates
  * Assigned namespace "biological_process" to GO:0010925
* Populated new object GO:0070500 (macro)
  * Changed name of GO:0070500 from "<new term>" to "poly-gamma-glutamate metabolic process"
  * Set definition of GO:0070500 to "The chemical reactions and pathways involving poly-gamma-glutamate, a polymer of D- and/or L-glutamatic acid residues linked by gamma-peptidyl bonds."
  * Added definition dbxref GOC:mah to GO:0070500
  * Added definition dbxref PMID:16689787 to GO:0070500
  * Added synonym "poly-gamma-glutamate metabolism" to GO:0070500
  * Added general dbxref GOC:mah to synonym poly-gamma-glutamate metabolism of GO:0070500
  * Changed synonym scope of GO:0070500 from "Related" to "Exact"
  * Copied GO:0070500 to GO:0034960 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070500
* Populated new object GO:0070501 (macro)
  * Changed name of GO:0070501 from "<new term>" to "poly-gamma-glutamate biosynthetic process"
  * Set definition of GO:0070501 to "The chemical reactions and pathways resulting in the formation of poly-gamma-glutamate, a polymer of D- and/or L-glutamatic acid residues linked by gamma-peptidyl bonds."
  * Added definition dbxref GOC:mah to GO:0070501
  * Added definition dbxref PMID:16689787 to GO:0070501
  * Added synonym "poly-gamma-glutamate anabolism" to GO:0070501
  * Added general dbxref GOC:mah to synonym poly-gamma-glutamate anabolism of GO:0070501
  * Changed synonym scope of GO:0070501 from "Related" to "Exact"
  * Added synonym "poly-gamma-glutamate biosythesis" to GO:0070501
  * Added general dbxref GOC:mah to synonym poly-gamma-glutamate biosythesis of GO:0070501
  * Changed synonym scope of GO:0070501 from "Related" to "Exact"
  * Added synonym "poly-gamma-glutamate formation" to GO:0070501
  * Added general dbxref GOC:mah to synonym poly-gamma-glutamate formation of GO:0070501
  * Changed synonym scope of GO:0070501 from "Related" to "Exact"
  * Added synonym "poly-gamma-glutamate sythesis" to GO:0070501
  * Added general dbxref GOC:mah to synonym poly-gamma-glutamate sythesis of GO:0070501
  * Changed synonym scope of GO:0070501 from "Related" to "Exact"
  * Copied GO:0070501 to GO:0070500 with type OBO_REL:is_a
  * Copied GO:0070501 to GO:0034961 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070501
* Populated new object GO:0070502 (macro)
  * Changed name of GO:0070502 from "<new term>" to "capsule poly-gamma-glutamate biosynthetic process"
  * Set definition of GO:0070502 to "The chemical reactions and pathways resulting in the formation of poly-gamma-glutamate, a polymer of D- and/or L-glutamatic acid residues linked by gamma-peptidyl bonds, that forms all or part of a bacterial capsule."
  * Added definition dbxref GOC:mah to GO:0070502
  * Added definition dbxref PMID:16689787 to GO:0070502
  * Added synonym "capsular poly-gamma-glutamate biosynthetic process" to GO:0070502
  * Added general dbxref GOC:mah to synonym capsular poly-gamma-glutamate biosynthetic process of GO:0070502
  * Changed synonym scope of GO:0070502 from "Related" to "Exact"
  * Added synonym "capsule poly-gamma-glutamate anabolism" to GO:0070502
  * Added general dbxref GOC:mah to synonym capsule poly-gamma-glutamate anabolism of GO:0070502
  * Changed synonym scope of GO:0070502 from "Related" to "Exact"
  * Added synonym "capsule poly-gamma-glutamate biosythesis" to GO:0070502
  * Added general dbxref GOC:mah to synonym capsule poly-gamma-glutamate biosythesis of GO:0070502
  * Changed synonym scope of GO:0070502 from "Related" to "Exact"
  * Added synonym "capsule poly-gamma-glutamate formation" to GO:0070502
  * Added general dbxref GOC:mah to synonym capsule poly-gamma-glutamate formation of GO:0070502
  * Changed synonym scope of GO:0070502 from "Related" to "Exact"
  * Added synonym "capsule poly-gamma-glutamate sythesis" to GO:0070502
  * Added general dbxref GOC:mah to synonym capsule poly-gamma-glutamate sythesis of GO:0070502
  * Changed synonym scope of GO:0070502 from "Related" to "Exact"
  * Copied GO:0070502 to GO:0045230 with type OBO_REL:is_a
  * Copied GO:0070502 to GO:0070501 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070502
* Deleted definition dbxref ISBM:155581073X from GO:0002127
* Added definition dbxref ISBN:155581073X to GO:0002127
* Deleted definition dbxref tRNA: Structure, Biosynthesis and Function (ISBN:155581073X) from GO:0002128
* Added definition dbxref ISBN:155581073X to GO:0002128
* Deleted definition dbxref tRNA: Structure, Biosynthesis and Function (ISBN:155581073X) from GO:0002129
* Added definition dbxref ISBN:155581073X to GO:0002129
* Deleted definition dbxref tRNA: Structure, Biosynthesis and Function (ISBN:155581073X) from GO:0002130
* Added definition dbxref ISBN:155581073X to GO:0002130
* Deleted definition dbxref tRNA: Structure, Biosynthesis and Function (ISBN:155581073X) from GO:0002131
* Added definition dbxref ISBN:155581073X to GO:0002131
* Deleted definition dbxref tRNA: Structure, Biosynthesis and Function (ISBN:155581073X) from GO:0002132
* Added definition dbxref ISBN:155581073X to GO:0002132
* Deleted GO:0010692 --OBO_REL:is_a--> GO:0051336
* Copied GO:0010692 to GO:0010921 with type OBO_REL:is_a
* Deleted GO:0010693 --OBO_REL:is_a--> GO:0051346
* Copied GO:0010693 to GO:0010923 with type OBO_REL:is_a
* Copied GO:0010694 to GO:0010922 with type OBO_REL:is_a
* Changed name of GO:0016504 from "protease activator activity" to "peptidase activator activity"
* Changed definition of GO:0016504 from "Increases the activity of a protease, any enzyme catalyzes the hydrolysis peptide bonds." to "Increases the activity of a peptidase, any enzyme catalyzes the hydrolysis peptide bonds."
* Added synonym "protease activator activity" to GO:0016504
* Added general dbxref GOC:mah to synonym protease activator activity of GO:0016504
* Changed synonym scope of GO:0016504 from "Related" to "Exact"
* Changed name of GO:0030414 from "protease inhibitor activity" to "peptidase inhibitor activity"
* Changed definition of GO:0030414 from "Stops, prevents or reduces the activity of a protease, any enzyme catalyzes the hydrolysis peptide bonds." to "Stops, prevents or reduces the activity of a peptidase, any enzyme catalyzes the hydrolysis peptide bonds."
* Deleted synonym "peptidase inhibitor" from GO:0030414
* Added synonym "" to GO:0030414
* Added synonym "protease inhibitor activity" to GO:0030414
* Added general dbxref GOC:mah to synonym protease inhibitor activity of GO:0030414
* Changed synonym scope of GO:0030414 from "Related" to "Exact"
* Deleted GO:0032113 --OBO_REL:is_a--> GO:0051336
* Copied GO:0032113 to GO:0010921 with type OBO_REL:is_a
* Deleted GO:0032515 --OBO_REL:is_a--> GO:0051346
* Copied GO:0032515 to GO:0010923 with type OBO_REL:is_a
* Deleted GO:0032516 --OBO_REL:is_a--> GO:0051345
* Copied GO:0032516 to GO:0010922 with type OBO_REL:is_a
* Changed name of GO:0034773 from "histone H3-K20 trimethylation" to "histone H4-K20 trimethylation"
* Changed definition of GO:0034773 from "The modification of histone H3 by addition of three methyl groups to lysine at position 20 of the histone." to "The modification of histone H4 by addition of three methyl groups to lysine at position 20 of the histone."
* Deleted synonym "histone H3 K20 trimethylation" from GO:0034773
* Deleted synonym "histone lysine H3 K20 trimethylation" from GO:0034773
* Added synonym "histone H4 K20 trimethylation" to GO:0034773
* Changed synonym scope of GO:0034773 from "Related" to "Exact"
* Added synonym "histone lysine H4 K20 trimethylation" to GO:0034773
* Changed synonym scope of GO:0034773 from "Related" to "Exact"
* Deleted GO:0043666 --OBO_REL:is_a--> GO:0051336
* Copied GO:0043666 to GO:0010921 with type OBO_REL:is_a
* Deleted general dbxref GOC:sl<new dbxref> from synonym negative regulation of white adipocyte proliferation of GO:0070351
* Added general dbxref GOC:sl to synonym negative regulation of white adipocyte proliferation of GO:0070351
* Deleted general dbxref GOC:sl<new dbxref> from synonym negative regulation of white adipose cell proliferation of GO:0070351
* Added general dbxref GOC:sl to synonym negative regulation of white adipose cell proliferation of GO:0070351
* Deleted general dbxref GOC:sl<new dbxref> from synonym negative regulation of liver cell differentiation of GO:0070367
* Added general dbxref GOC:sl to synonym negative regulation of liver cell differentiation of GO:0070367
* Deleted general dbxref GOC:add<new dbxref> from synonym interleukin-1 alpha-mediated signaling pathway of GO:0070498
* Added general dbxref GOC:add to synonym interleukin-1 alpha-mediated signaling pathway of GO:0070498

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