From gocvs at genome.Stanford.EDU  Fri Feb  1 21:30:44 2008
From: gocvs at genome.Stanford.EDU (Remote CVS for Gene Ontology)
Date: Fri, 1 Feb 2008 21:30:44 -0800 (PST)
Subject: [go-diff] GO update 02/01/2008
Message-ID: <200802020530.VAA11619@bread.Stanford.EDU>

OBODIFF of gene_ontology_edit.obo version 5.676 by 5.678

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0010521
* Created object of type obo:TERM with id GO:0010522
* Created object of type obo:TERM with id GO:0010523
* Created object of type obo:TERM with id GO:0010524
* Created object of type obo:TERM with id GO:0010525
* Created object of type obo:TERM with id GO:0010526
* Created object of type obo:TERM with id GO:0010527
* Created object of type obo:TERM with id GO:0010528
* Created object of type obo:TERM with id GO:0010529
* Created object of type obo:TERM with id GO:0010530
* Created object of type obo:TERM with id GO:0034230
* Created object of type obo:TERM with id GO:0034231
* Created object of type obo:TERM with id GO:0034232
* Created object of type obo:TERM with id GO:0034233
* Created object of type obo:TERM with id GO:0034234
* Created object of type obo:TERM with id GO:0034235
* Populated new object GO:0010521 (macro)
  * Changed name of GO:0010521 from "<new term>" to "telomerase inhibitor activity"
  * Set definition of GO:0010521 to "Stops, prevents or reduces the activity of a telomerase. Telomerase catalyzes the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1). Catalyzes extension of the 3'- end of a DNA strand by one deoxynucleotide at a time using an internal RNA template that encodes the telomeric repeat sequence."
  * Added definition dbxref GOC:dph to GO:0010521
  * Added definition dbxref GOC:krc to GO:0010521
  * Added definition dbxref GOC:tb to GO:0010521
  * Copied GO:0010521 to GO:0004857 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0010521
* Populated new object GO:0010522 (macro)
  * Changed name of GO:0010522 from "<new term>" to "regulation of calcium ion transport into cytosol"
  * Set definition of GO:0010522 to "Any process that modulates the rate of the directed movement of calcium ions into the cytosol of a cell. The cytosol is that part of the cytoplasm that does not contain membranous or particulate subcellular components."
  * Added definition dbxref GOC:dph to GO:0010522
  * Added definition dbxref GOC:tb to GO:0010522
  * Copied GO:0010522 to GO:0051924 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010522
* Populated new object GO:0010523 (macro)
  * Changed name of GO:0010523 from "<new term>" to "negative regulation of calcium ion transport into cytosol"
  * Set definition of GO:0010523 to "Any process that decreases the rate of the directed movement of calcium ions into the cytosol of a cell. The cytosol is that part of the cytoplasm that does not contain membranous or particulate subcellular components."
  * Added definition dbxref GOC:dph to GO:0010523
  * Added definition dbxref GOC:tb to GO:0010523
  * Copied GO:0010523 to GO:0010522 with type OBO_REL:is_a
  * Copied GO:0010523 to GO:0051926 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010523
* Populated new object GO:0010524 (macro)
  * Changed name of GO:0010524 from "<new term>" to "positive regulation of calcium ion transport into cytosol"
  * Set definition of GO:0010524 to "Any process that decreases the rate of the directed movement of calcium ions into the cytosol of a cell. The cytosol is that part of the cytoplasm that does not contain membranous or particulate subcellular components."
  * Added definition dbxref GOC:dph to GO:0010524
  * Added definition dbxref GOC:tb to GO:0010524
  * Copied GO:0010524 to GO:0051928 with type OBO_REL:is_a
  * Copied GO:0010524 to GO:0010522 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010524
* Populated new object GO:0010525 (macro)
  * Changed name of GO:0010525 from "<new term>" to "regulation of transposition, RNA-mediated"
  * Set definition of GO:0010525 to "Any process that modulates the frequency, rate or extent of RNA-mediated transposition. RNA-mediated transposition is a type of transpositional recombination which occurs via an RNA intermediate."
  * Added definition dbxref GOC:dph to GO:0010525
  * Added definition dbxref GOC:tb to GO:0010525
  * Copied GO:0010525 to GO:0032197 with type part_of
  * Copied GO:0010525 to GO:0010528 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010525
* Populated new object GO:0010526 (macro)
  * Changed name of GO:0010526 from "<new term>" to "negative regulation of transposition, RNA-mediated"
  * Set definition of GO:0010526 to "Any process that decreases the frequency, rate or extent of RNA-mediated transposition. RNA-mediated transposition is a type of transpositional recombination which occurs via an RNA intermediate."
  * Added definition dbxref GOC:dph to GO:0010526
  * Added definition dbxref GOC:tb to GO:0010526
  * Copied GO:0010526 to GO:0010525 with type OBO_REL:is_a
  * Copied GO:0010526 to GO:0010529 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010526
* Populated new object GO:0010527 (macro)
  * Changed name of GO:0010527 from "<new term>" to "positive regulation of transposition, RNA-mediated"
  * Set definition of GO:0010527 to "Any process that increases the frequency, rate or extent of RNA-mediated transposition. RNA-mediated transposition is a type of transpositional recombination which occurs via an RNA intermediate."
  * Added definition dbxref GOC:dph to GO:0010527
  * Added definition dbxref GOC:tb to GO:0010527
  * Copied GO:0010527 to GO:0010525 with type OBO_REL:is_a
  * Copied GO:0010527 to GO:0010530 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010527
* Populated new object GO:0010528 (macro)
  * Changed name of GO:0010528 from "<new term>" to "regulation of transposition"
  * Set definition of GO:0010528 to "Any process that modulates the frequency, rate or extent of transposition. Transposition results in the movement of discrete segments of DNA between nonhomologous sites."
  * Added definition dbxref GOC:dph to GO:0010528
  * Added definition dbxref GOC:tb to GO:0010528
  * Copied GO:0010528 to GO:0000018 with type OBO_REL:is_a
  * Copied GO:0010528 to GO:0032196 with type part_of
  * Assigned namespace "biological_process" to GO:0010528
* Populated new object GO:0010529 (macro)
  * Changed name of GO:0010529 from "<new term>" to "negative regulation of transposition"
  * Set definition of GO:0010529 to "Any process that decreases the frequency, rate or extent of transposition. Transposition results in the movement of discrete segments of DNA between nonhomologous sites."
  * Added definition dbxref GOC:dph to GO:0010529
  * Added definition dbxref GOC:tb to GO:0010529
  * Copied GO:0010529 to GO:0010528 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010529
* Populated new object GO:0010530 (macro)
  * Changed name of GO:0010530 from "<new term>" to "positive regulation of transposition"
  * Set definition of GO:0010530 to "Any process that decreases the frequency, rate or extent of transposition. Transposition results in the movement of discrete segments of DNA between nonhomologous sites."
  * Added definition dbxref GOC:dph to GO:0010530
  * Added definition dbxref GOC:tb to GO:0010530
  * Copied GO:0010530 to GO:0010528 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010530
* Populated new object GO:0034230 (macro)
  * Changed name of GO:0034230 from "<new term>" to "enkephalin processing"
  * Set definition of GO:0034230 to "The formation of mature enkephalin, a pentapeptide hormone involved in regulating pain and nociception in the body by proteolytic processing of enkephalin propeptide."
  * Added definition dbxref GOC:mah to GO:0034230
  * Added definition dbxref GOC:rl to GO:0034230
  * Added definition dbxref PMID:8262946 to GO:0034230
  * Added synonym "enkephalin formation" to GO:0034230
  * Changed synonym scope of GO:0034230 from "Related" to "Exact"
  * Added synonym "peptide enkephalin formation" to GO:0034230
  * Changed synonym scope of GO:0034230 from "Related" to "Exact"
  * Added synonym "peptide enkephalin processing" to GO:0034230
  * Changed synonym scope of GO:0034230 from "Related" to "Exact"
  * Copied GO:0034230 to GO:0016486 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034230
* Populated new object GO:0034231 (macro)
  * Changed name of GO:0034231 from "<new term>" to "islet amyloid polypeptide processing"
  * Set definition of GO:0034231 to "The formation of mature islet amyloid polypeptide (IAPP) by posttranslational processing of pro-islet amyloid polypeptide (pro-IAPP)."
  * Added definition dbxref GOC:rl to GO:0034231
  * Added definition dbxref PMID:15983213 to GO:0034231
  * Added definition dbxref PMID:8262946 to GO:0034231
  * Added synonym "IAPP formation" to GO:0034231
  * Changed synonym scope of GO:0034231 from "Related" to "Exact"
  * Added synonym "IAPP processing" to GO:0034231
  * Changed synonym scope of GO:0034231 from "Related" to "Exact"
  * Added synonym "islet amyloid peptide formation" to GO:0034231
  * Changed synonym scope of GO:0034231 from "Related" to "Exact"
  * Added synonym "islet amyloid peptide processing" to GO:0034231
  * Changed synonym scope of GO:0034231 from "Related" to "Exact"
  * Added synonym "islet amyloid polypeptide formation" to GO:0034231
  * Copied GO:0034231 to GO:0016486 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034231
* Populated new object GO:0034232 (macro)
  * Changed name of GO:0034232 from "<new term>" to "spore wall chitin catabolic process"
  * Set definition of GO:0034232 to "The chemical reactions and pathways resulting in the breakdown of spore wall chitin, a linear polysaccharide consisting of P-1,4-linked N-acetyl-D-glucosamine residues, found in the walls of fungal-type spores."
  * Added definition dbxref GOC:mah to GO:0034232
  * Added synonym "spore wall chitin breakdown" to GO:0034232
  * Changed synonym scope of GO:0034232 from "Related" to "Exact"
  * Added synonym "spore wall chitin catabolism" to GO:0034232
  * Changed synonym scope of GO:0034232 from "Related" to "Exact"
  * Added synonym "spore wall chitin degradation" to GO:0034232
  * Changed synonym scope of GO:0034232 from "Related" to "Exact"
  * Copied GO:0034232 to GO:0034218 with type OBO_REL:is_a
  * Copied GO:0034232 to GO:0006039 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034232
* Populated new object GO:0034233 (macro)
  * Changed name of GO:0034233 from "<new term>" to "regulation of cell wall chitin catabolic process"
  * Set definition of GO:0034233 to "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of cell wall chitin."
  * Added definition dbxref GOC:mah to GO:0034233
  * Added synonym "regulation of cell wall chitin breakdown" to GO:0034233
  * Changed synonym scope of GO:0034233 from "Related" to "Exact"
  * Added synonym "regulation of cell wall chitin catabolism" to GO:0034233
  * Changed synonym scope of GO:0034233 from "Related" to "Exact"
  * Added synonym "regulation of cell wall chitin formation" to GO:0034233
  * Changed synonym scope of GO:0034233 from "Related" to "Exact"
  * Copied GO:0034233 to GO:0034222 with type OBO_REL:is_a
  * Copied GO:0034233 to GO:0006039 with type part_of
  * Assigned namespace "biological_process" to GO:0034233
* Populated new object GO:0034234 (macro)
  * Changed name of GO:0034234 from "<new term>" to "regulation of spore wall chitin catabolic process"
  * Set definition of GO:0034234 to "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of spore wall chitin."
  * Added definition dbxref GOC:mah to GO:0034234
  * Added synonym "regulation of spore wall chitin breakdown" to GO:0034234
  * Changed synonym scope of GO:0034234 from "Related" to "Exact"
  * Added synonym "regulation of spore wall chitin catabolism" to GO:0034234
  * Changed synonym scope of GO:0034234 from "Related" to "Exact"
  * Added synonym "regulation of spore wall chitin formation" to GO:0034234
  * Changed synonym scope of GO:0034234 from "Related" to "Exact"
  * Copied GO:0034234 to GO:0034233 with type OBO_REL:is_a
  * Copied GO:0034234 to GO:0034232 with type part_of
  * Assigned namespace "biological_process" to GO:0034234
* Populated new object GO:0034235 (macro)
  * Changed name of GO:0034235 from "<new term>" to "GPI anchor binding"
  * Added comment "Note that this term should be used to annotate gene products that interact non-covalently with GPI anchors, and not proteins that have GPI anchors covalently attached."
  * Set definition of GO:0034235 to "Interacting selectively with any glycosylphosphatidylinositol anchor. GPI anchors serve to attach membrane proteins to the lipid bilayer of cell membranes."
  * Added definition dbxref GOC:vw to GO:0034235
  * Added synonym "glycosylphosphatidylinositol binding" to GO:0034235
  * Changed synonym scope of GO:0034235 from "Related" to "Exact"
  * Copied GO:0034235 to GO:0035091 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034235
* Copied GO:0000335 to GO:0010529 with type OBO_REL:is_a
* Copied GO:0000336 to GO:0010530 with type OBO_REL:is_a
* Deleted GO:0000337 --OBO_REL:is_a--> GO:0000018
* Copied GO:0000337 to GO:0010528 with type OBO_REL:is_a
* Changed comment from "See also the cellular component term 'cellular component ; GO:0005575'." to "This term was made obsolete because it was originally intended only as a temporary parent for protein complex terms for which no more specific parents had been found. This term no longer has any children: All protein complex terms are is_a 'protein complex ; GO:0043234' and nearly all have been placed under parents to yield more specific paths traversing a part_of relationship. In other words, the term has been superseded by other terms and relationships in the cellular component ontology, and is no longer needed."
* Changed definition of GO:0005941 from "Used as a holding place for cellular components whose precise localization is, as yet, unknown, or has not been determined by GO (the latter is the major reason for nodes to have this parent); this term should not be used for annotation of gene products." to "OBSOLETE. Used as a holding place for cellular components whose precise localization is, as yet, unknown, or has not been determined by GO (the latter is the major reason for nodes to have this parent); this term should not be used for annotation of gene products."
* Deleted GO:0005941 --OBO_REL:is_a--> GO:0043234
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 13cdabc
* Deleted GO:0006313 --OBO_REL:is_a--> GO:0006310
* Changed definition of GO:0032196 from "Any process involved in mediating the movement of discrete segments of DNA between nonhomolgous sites." to "Any process involved in mediating the movement of discrete segments of DNA between nonhomologous sites."
* Copied GO:0032196 to GO:0006310 with type OBO_REL:is_a
* Added comment "This term was made obsolete because nucleoprotein filament formation does not require ATP hydrolysis, so the term is misleading."
* Changed definition of GO:0033171 from "Catalysis of the reaction: ATP + H2O = ADP + phosphate to drive the assembly of proteins such as Rad51p onto single-stranded (ss) DNA to form a helical nucleoprotein filament." to "OBSOLETE. Catalysis of the reaction: ATP + H2O = ADP + phosphate to drive the assembly of proteins such as Rad51p onto single-stranded (ss) DNA to form a helical nucleoprotein filament."
* Deleted GO:0033171 --OBO_REL:is_a--> GO:0033170
* Deleted GO:0033171 --OBO_REL:is_a--> GO:0003677
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 3ca3a4
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"
* Added synonym "regulation of cell wall chitin metabolism" to GO:0034222
* Changed synonym scope of GO:0034222 from "Related" to "Exact"
* Added comment "This term was made obsolete because low-density lipoprotein is a macromolecular complex, not a single class of molecule; its degradation involves the dissociation of non-covalently attached constituents as well as some breaking and reforming of covalent bonds."
* Changed definition of GO:0045192 from "The chemical reactions and pathways resulting in the breakdown of low-density lipoproteins, also known as beta lipoproteins, one of the classes of lipoproteins found in the bloodstream of animals, acting as a carrier for cholesterol and fats." to "OBSOLETE. The chemical reactions and pathways resulting in the breakdown of low-density lipoproteins, also known as beta lipoproteins, one of the classes of lipoproteins found in the bloodstream of animals, acting as a carrier for cholesterol and fats."
* Deleted GO:0045192 --OBO_REL:is_a--> GO:0042159
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 11b9972
* Added comment "This term was made obsolete because low-density lipoprotein is a macromolecular complex, not a single class of molecule; its degradation involves the dissociation of non-covalently attached constituents as well as some breaking and reforming of covalent bonds."
* Changed definition of GO:0045193 from "The chemical reactions and pathways resulting in the breakdown of acetylated low-density lipoproteins." to "OBSOLETE. The chemical reactions and pathways resulting in the breakdown of acetylated low-density lipoproteins."
* Deleted GO:0045193 --OBO_REL:is_a--> GO:0045192
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at f73f39
* Added comment "This term was made obsolete because low-density lipoprotein is a macromolecular complex, not a single class of molecule; its degradation involves the dissociation of non-covalently attached constituents as well as some breaking and reforming of covalent bonds."
* Changed definition of GO:0045194 from "The chemical reactions and pathways resulting in the breakdown of oxidized low-density lipoproteins." to "OBSOLETE. The chemical reactions and pathways resulting in the breakdown of oxidized low-density lipoproteins."
* Deleted GO:0045194 --OBO_REL:is_a--> GO:0045192
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 57f433
* Added comment "This term was made obsolete because it has been widely, and incorrectly, used to annotate proteins that have GPI anchors covalently attached. A new term has been created that can be used to annotate gene products that interact non-covalently with GPI anchors."
* Changed definition of GO:0048503 from "Interacting selectively with any glycosylphosphatidylinositol anchor. GPI anchors serve to attach membrane proteins to the lipid bilayer of cell membranes." to "OBSOLETE. Interacting selectively with any glycosylphosphatidylinositol anchor. GPI anchors serve to attach membrane proteins to the lipid bilayer of cell membranes."
* Deleted GO:0048503 --OBO_REL:is_a--> GO:0035091
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 6172b5
* Deleted GO:0048548 --OBO_REL:is_a--> GO:0006907
* Copied GO:0048548 to GO:0006907 with type part_of
* Deleted GO:0051037 --part_of--> GO:0007126
* Copied GO:0051205 to GO:0032594 with type OBO_REL:is_a
* Copied GO:0051925 to GO:0032412 with type OBO_REL:is_a
* Deleted synonym "negative regulation of voltage gated calcium channel activity" from GO:0051927
* Added synonym "negative regulation of voltage-gated calcium channel activity" to GO:0051927
* Changed synonym scope of GO:0051927 from "Related" to "Exact"
* Copied GO:0051927 to GO:0032413 with type OBO_REL:is_a
* Deleted synonym "positive regulation of voltage gated calcium channel activity" from GO:0051929
* Added synonym "positive regulation of voltage-gated calcium channel activity" to GO:0051929
* Changed synonym scope of GO:0051929 from "Related" to "Exact"
* Copied GO:0051929 to GO:0032414 with type OBO_REL:is_a


From gocvs at genome.Stanford.EDU  Mon Feb  4 21:30:45 2008
From: gocvs at genome.Stanford.EDU (Remote CVS for Gene Ontology)
Date: Mon, 4 Feb 2008 21:30:45 -0800 (PST)
Subject: [go-diff] GO update 02/04/2008
Message-ID: <200802050530.VAA24139@bread.Stanford.EDU>

OBODIFF of gene_ontology_edit.obo version 5.678 by 5.679

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0034236
* Created object of type obo:TERM with id GO:0034237
* Created object of type obo:TERM with id GO:0034238
* Created object of type obo:TERM with id GO:0034239
* Created object of type obo:TERM with id GO:0034240
* Created object of type obo:TERM with id GO:0034241
* Created object of type obo:TERM with id GO:0034242
* Created object of type obo:TERM with id GO:0034243
* Created object of type obo:TERM with id GO:0034244
* Populated new object GO:0034236 (macro)
  * Changed name of GO:0034236 from "<new term>" to "protein kinase A catalytic subunit binding"
  * Set definition of GO:0034236 to "Interacting selectively with one or both of the catalytic subunits of protein kinase A."
  * Added definition dbxref GOC:mah to GO:0034236
  * Added synonym "PKA catalytic subunit binding" to GO:0034236
  * Changed synonym scope of GO:0034236 from "Related" to "Exact"
  * Copied GO:0034236 to GO:0051018 with type OBO_REL:is_a
  * Copied GO:0034236 to GO:0019901 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034236
* Populated new object GO:0034237 (macro)
  * Changed name of GO:0034237 from "<new term>" to "protein kinase A regulatory subunit binding"
  * Set definition of GO:0034237 to "Interacting selectively with one or both of the regulatory subunits of protein kinase A."
  * Added definition dbxref GOC:mah to GO:0034237
  * Added synonym "PKA regulatory subunit binding" to GO:0034237
  * Changed synonym scope of GO:0034237 from "Related" to "Exact"
  * Added synonym "protein kinase A anchoring activity" to GO:0034237
  * Copied GO:0034237 to GO:0051018 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034237
* Populated new object GO:0034238 (macro)
  * Changed name of GO:0034238 from "<new term>" to "macrophage fusion"
  * Set definition of GO:0034238 to "The binding and fusion of a macrophage to one or more other cells to form a multinucleated cell."
  * Added definition dbxref GOC:sl to GO:0034238
  * Copied GO:0034238 to GO:0000768 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034238
* Populated new object GO:0034239 (macro)
  * Changed name of GO:0034239 from "<new term>" to "regulation of macrophage fusion"
  * Set definition of GO:0034239 to "Any process that modulates the frequency, rate or extent of macrophage fusion."
  * Added definition dbxref GOC:mah to GO:0034239
  * Copied GO:0034239 to GO:0060142 with type OBO_REL:is_a
  * Copied GO:0034239 to GO:0034238 with type part_of
  * Assigned namespace "biological_process" to GO:0034239
* Populated new object GO:0034240 (macro)
  * Changed name of GO:0034240 from "<new term>" to "negative regulation of macrophage fusion"
  * Set definition of GO:0034240 to "Any process that stops, prevents, or decreases the frequency, rate or extent of macrophage fusion."
  * Added definition dbxref GOC:mah to GO:0034240
  * Copied GO:0034240 to GO:0034242 with type OBO_REL:is_a
  * Copied GO:0034240 to GO:0034239 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034240
* Populated new object GO:0034241 (macro)
  * Changed name of GO:0034241 from "<new term>" to "positive regulation of macrophage fusion"
  * Set definition of GO:0034241 to "Any process that activates or increases the frequency, rate or extent of macrophage fusion."
  * Added definition dbxref GOC:mah to GO:0034241
  * Copied GO:0034241 to GO:0034239 with type OBO_REL:is_a
  * Copied GO:0034241 to GO:0060143 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034241
* Populated new object GO:0034242 (macro)
  * Changed name of GO:0034242 from "<new term>" to "negative regulation of syncytium formation by plasma membrane fusion"
  * Set definition of GO:0034242 to "Any process that decreases the frequency, rate or extent of the formation of a syncytium, a mass of cytoplasm containing several nuclei enclosed within a single plasma membrane, by the fusion of the plasma membranes of two or more individual cells."
  * Added definition dbxref GOC:mah to GO:0034242
  * Copied GO:0034242 to GO:0060142 with type OBO_REL:is_a
  * Copied GO:0034242 to GO:0051130 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034242
* Populated new object GO:0034243 (macro)
  * Changed name of GO:0034243 from "<new term>" to "regulation of RNA elongation from RNA polymerase II promoter"
  * Set definition of GO:0034243 to "Any process that modulates the frequency, rate or extent of RNA elongation, the extension of an RNA molecule after transcription initiation by the addition of ribonucleotides, catalyzed by RNA polymerase II."
  * Added definition dbxref GOC:mah to GO:0034243
  * Added synonym "regulation of transcription elongation from RNA polymerase II promoter" to GO:0034243
  * Changed synonym scope of GO:0034243 from "Related" to "Broad"
  * Copied GO:0034243 to GO:0006368 with type part_of
  * Copied GO:0034243 to GO:0032784 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034243
* Populated new object GO:0034244 (macro)
  * Changed name of GO:0034244 from "<new term>" to "negative regulation of RNA elongation from RNA polymerase II promoter"
  * Set definition of GO:0034244 to "Any process that stops, prevents, or reduces the frequency, rate or extent of RNA elongation, the extension of an RNA molecule after transcription initiation by the addition of ribonucleotides, catalyzed by RNA polymerase II."
  * Added definition dbxref GOC:mah to GO:0034244
  * Added synonym "negative regulation of transcription elongation from RNA polymerase II promoter" to GO:0034244
  * Changed synonym scope of GO:0034244 from "Related" to "Broad"
  * Copied GO:0034244 to GO:0032785 with type OBO_REL:is_a
  * Copied GO:0034244 to GO:0034243 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034244
* Set definition of GO:0003078 to "Any process that modulates the frequency, rate, or extent of natriuresis, the process of renal sodium excretion."
* Added definition dbxref GOC:mah to GO:0003078
* Set definition of GO:0003080 to "Any process that stops, prevents, or decreases the frequency, rate, or extent of natriuresis, the process of renal sodium excretion."
* Added definition dbxref GOC:mah to GO:0003080
* Set definition of GO:0003106 to "The process by which angiotensin directly decreases the rate of glomerular filtration in the kidney. Glomerular filtration is the processs whereby blood is filtered by the glomerulus into the renal tubule."
* Added definition dbxref GOC:mah to GO:0003106
* Set definition of GO:0003996 to "Catalysis of the reaction: an acyl + ATP + CoASH = AMP + diphosphate + acyl-CoA."
* Added definition dbxref GOC:mah to GO:0003996
* Deleted GO:0005991 --OBO_REL:is_a--> GO:0006112
* Deleted GO:0031566 --part_of--> GO:0031565
* Copied GO:0032968 to GO:0034243 with type OBO_REL:is_a
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"
* Deleted synonym "regulation of cell wall chitin formation" from GO:0034233
* Added synonym "regulation of cell wall chitin degradation" to GO:0034233
* Changed synonym scope of GO:0034233 from "Related" to "Exact"
* Deleted synonym "regulation of spore wall chitin formation" from GO:0034234
* Added synonym "regulation of spore wall chitin degradation" to GO:0034234
* Changed synonym scope of GO:0034234 from "Related" to "Exact"
* Added comment "Note that this term is a direct child of 'protein binding ; GO:0005515' because it encompasses binding to either the catalytic or regulatory subunit of protein kinase A, and the latter does not have kinase activity."
* Changed definition of GO:0051018 from "Interacting selectively with protein kinase A." to "Interacting selectively with any subunit of protein kinase A."
* Deleted GO:0051018 --OBO_REL:is_a--> GO:0019901
* Copied GO:0051018 to GO:0005515 with type OBO_REL:is_a


From gocvs at genome.Stanford.EDU  Tue Feb  5 21:30:44 2008
From: gocvs at genome.Stanford.EDU (Remote CVS for Gene Ontology)
Date: Tue, 5 Feb 2008 21:30:44 -0800 (PST)
Subject: [go-diff] GO update 02/05/2008
Message-ID: <200802060530.VAA05849@bread.Stanford.EDU>

OBODIFF of gene_ontology_edit.obo version 5.679 by 5.680

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0000835
* Created object of type obo:TERM with id GO:0000836
* Created object of type obo:TERM with id GO:0000837
* Created object of type obo:TERM with id GO:0000838
* Created object of type obo:TERM with id GO:0000839
* Populated new object GO:0000835 (macro)
  * Changed name of GO:0000835 from "<new term>" to "ER ubiquitin ligase complex"
  * Set definition of GO:0000835 to "A ubiquitin ligase complex found in the ER."
  * Added definition dbxref GOC:elh to GO:0000835
  * Copied GO:0000835 to GO:0000151 with type OBO_REL:is_a
  * Copied GO:0000835 to GO:0005789 with type part_of
  * Assigned namespace "cellular_component" to GO:0000835
* Populated new object GO:0000836 (macro)
  * Changed name of GO:0000836 from "<new term>" to "Hrd1p ubiquitin ligase complex"
  * Set definition of GO:0000836 to "A multiprotein complex that recognizes and ubiquitinates proteins with misfolded luminal and membrane domains during ER-associated protein degradation (ERAD). In S. cerevisiae, this complex contains the ubiquitin ligase Hrd1p."
  * Added definition dbxref GOC:elh to GO:0000836
  * Added definition dbxref PMID:16873066 to GO:0000836
  * Copied GO:0000836 to GO:0000835 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0000836
* Populated new object GO:0000837 (macro)
  * Changed name of GO:0000837 from "<new term>" to "Doa10p ubiquitin ligase complex"
  * Set definition of GO:0000837 to "A multiprotein complex that recognizes and ubiquitinates membranes proteins with misfolded cytosolic domains during ER-associated protein degradation (ERAD). In S. cerevisiae, this complex contains the ubiquitin ligase Ssm4p/Doa10p."
  * Added definition dbxref GOC:elh to GO:0000837
  * Added definition dbxref PMID:16873066 to GO:0000837
  * Added synonym "Ssm4p ubiquitin ligase complex" to GO:0000837
  * Changed synonym scope of GO:0000837 from "Related" to "Exact"
  * Copied GO:0000837 to GO:0000835 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0000837
* Populated new object GO:0000838 (macro)
  * Changed name of GO:0000838 from "<new term>" to "Hrd1p ubiquitin ligase ERAD-M complex"
  * Set definition of GO:0000838 to "A multiprotein complex that recognizes and ubiquitinates proteins with misfolded membrane domains during ER-associated protein degradation (ERAD). In S. cerevisiae, this complex contains the ubiquitin ligase Hrd1p."
  * Added definition dbxref GOC:elh to GO:0000838
  * Added definition dbxref PMID:16873066 to GO:0000838
  * Copied GO:0000838 to GO:0000836 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0000838
* Populated new object GO:0000839 (macro)
  * Changed name of GO:0000839 from "<new term>" to "Hrd1p ubiquitin ligase ERAD-L complex"
  * Set definition of GO:0000839 to "A multiprotein complex that recognizes and ubiquitinates proteins with misfolded luminal domains during ER-associated protein degradation (ERAD). In S. cerevisiae, this complex contains the ubiquitin ligase Hrd1p."
  * Added definition dbxref GOC:elh to GO:0000839
  * Added definition dbxref PMID:16873065 to GO:0000839
  * Added definition dbxref PMID:16873066 to GO:0000839
  * Copied GO:0000839 to GO:0000836 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0000839
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"


From gocvs at genome.Stanford.EDU  Thu Feb  7 21:30:44 2008
From: gocvs at genome.Stanford.EDU (Remote CVS for Gene Ontology)
Date: Thu, 7 Feb 2008 21:30:44 -0800 (PST)
Subject: [go-diff] GO update 02/07/2008
Message-ID: <200802080530.VAA26807@bread.Stanford.EDU>

OBODIFF of gene_ontology_edit.obo version 5.680 by 5.681

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0034245
* Created object of type obo:TERM with id GO:0034246
* Created object of type obo:TERM with id GO:0034247
* Populated new object GO:0034245 (macro)
  * Changed name of GO:0034245 from "<new term>" to "mitochondrial DNA-directed RNA polymerase complex"
  * Set definition of GO:0034245 to "A DNA-directed RNA polymerase complex located in the mitochondrion. Mitochondrial RNA polymerase is composed of two subunits, a catalytic core, which resembles the enzymes from bacteriophage T7 and T3, and a
specificity factor required for promoter recognition, which is similar to members of the eubacterial sigma factor family. In S. cerevisiae, these are encoded by the nuclear genes RPO41 and MTF1 and the specificity factor, required for promoter recognition and initiation, is not present in the elongating form."
  * Added definition dbxref GOC:krc to GO:0034245
  * Added definition dbxref GOC:mah to GO:0034245
  * Added definition dbxref PMID:7929382 to GO:0034245
  * Added synonym "itochondrial RNA polymerase holoenzyme complex" to GO:0034245
  * Added synonym "mitochondrial RNA polymerase complex" to GO:0034245
  * Changed synonym scope of GO:0034245 from "Related" to "Broad"
  * Copied GO:0034245 to GO:0044429 with type OBO_REL:is_a
  * Copied GO:0034245 to GO:0000428 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034245
* Populated new object GO:0034246 (macro)
  * Changed name of GO:0034246 from "<new term>" to "mitochondrial transcription initiation factor activity"
  * Set definition of GO:0034246 to "A transcription factor activity that confers promoter specificity upon mitochondrial RNA polymerase, in a manner analogous to eubacterial sigma factors."
  * Added definition dbxref GOC:mah to GO:0034246
  * Added synonym "mitochondrial polymerase transcription factor activity" to GO:0034246
  * Changed synonym scope of GO:0034246 from "Related" to "Exact"
  * Added synonym "mitochondrial transcription factor activity" to GO:0034246
  * Copied GO:0034246 to GO:0016986 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034246
* Populated new object GO:0034247 (macro)
  * Changed name of GO:0034247 from "<new term>" to "snoRNA splicing"
  * Set definition of GO:0034247 to "The process of removing sections of a primary snoRNA transcript to remove sequences not present in the mature form of the snoRNA and joining the remaining sections to form the mature form of the snoRNA."
  * Added definition dbxref GOC:mah to GO:0034247
  * Copied GO:0034247 to GO:0008380 with type OBO_REL:is_a
  * Copied GO:0034247 to GO:0043144 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034247
* Changed synonym scope of GO:0003916 from "Exact" to "Related"
* Deleted GO:0005760 --OBO_REL:is_a--> GO:0043234
* Copied GO:0005760 to GO:0042575 with type OBO_REL:is_a
* Added synonym "sigma transcription factor" to GO:0016987
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"
* Added synonym "isotype switch recombination" to GO:0045190
* Changed synonym scope of GO:0045190 from "Related" to "Exact"
* Added synonym "regulation of isotype switch recombination" to GO:0045191
* Changed synonym scope of GO:0045191 from "Related" to "Exact"
* Added synonym "negative regulation of isotype switch recombination" to GO:0045829
* Changed synonym scope of GO:0045829 from "Related" to "Exact"
* Added synonym "positive regulation of isotype switch recombination" to GO:0045830
* Changed synonym scope of GO:0045830 from "Related" to "Exact"
* Added synonym "isotype switch recombination to IgE isotypes" to GO:0048289
* Changed synonym scope of GO:0048289 from "Related" to "Exact"
* Added synonym "isotype switch recombination to IgA isotypes" to GO:0048290
* Changed synonym scope of GO:0048290 from "Related" to "Exact"
* Added synonym "isotype switch recombination to IgG isotypes" to GO:0048291
* Changed synonym scope of GO:0048291 from "Related" to "Exact"
* Added synonym "isotype switch recombination to IgD isotypes" to GO:0048292
* Changed synonym scope of GO:0048292 from "Related" to "Exact"
* Added synonym "regulation of isotype switch recombination to IgE isotypes" to GO:0048293
* Changed synonym scope of GO:0048293 from "Related" to "Exact"
* Added synonym "negative regulation of isotype switch recombination to IgE isotypes" to GO:0048294
* Changed synonym scope of GO:0048294 from "Related" to "Exact"
* Added synonym "positive regulation of isotype switch recombination to IgE isotypes" to GO:0048295
* Changed synonym scope of GO:0048295 from "Related" to "Exact"
* Added synonym "regulation of isotype switch recombination to IgA isotypes" to GO:0048296
* Changed synonym scope of GO:0048296 from "Related" to "Exact"
* Added synonym "negative regulation of isotype switch recombination to IgA isotypes" to GO:0048297
* Changed synonym scope of GO:0048297 from "Related" to "Exact"
* Added synonym "positive regulation of isotype switch recombination to IgA isotypes" to GO:0048298
* Changed synonym scope of GO:0048298 from "Related" to "Exact"
* Added synonym "regulation of isotype switch recombination to IgD isotypes" to GO:0048299
* Changed synonym scope of GO:0048299 from "Related" to "Exact"
* Added synonym "negative regulation of isotype switch recombination to IgD isotypes" to GO:0048300
* Changed synonym scope of GO:0048300 from "Related" to "Exact"
* Added synonym "positive regulation of isotype switch recombination to IgD isotypes" to GO:0048301
* Changed synonym scope of GO:0048301 from "Related" to "Exact"
* Added synonym "regulation of isotype switch recombination to IgG isotypes" to GO:0048302
* Changed synonym scope of GO:0048302 from "Related" to "Exact"
* Added synonym "negative regulation of isotype switch recombination to IgG isotypes" to GO:0048303
* Changed synonym scope of GO:0048303 from "Related" to "Exact"
* Added synonym "positive regulation of isotype switch recombination to IgG isotypes" to GO:0048304
* Changed synonym scope of GO:0048304 from "Related" to "Exact"


From gocvs at genome.Stanford.EDU  Fri Feb  8 21:30:44 2008
From: gocvs at genome.Stanford.EDU (Remote CVS for Gene Ontology)
Date: Fri, 8 Feb 2008 21:30:44 -0800 (PST)
Subject: [go-diff] GO update 02/08/2008
Message-ID: <200802090530.VAA05250@bread.Stanford.EDU>

OBODIFF of gene_ontology_edit.obo version 5.681 by 5.684

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0010531
* Created object of type obo:TERM with id GO:0010532
* Created object of type obo:TERM with id GO:0010533
* Created object of type obo:TERM with id GO:0010534
* Created object of type obo:TERM with id GO:0010535
* Created object of type obo:TERM with id GO:0010536
* Created object of type obo:TERM with id GO:0010537
* Created object of type obo:TERM with id GO:0010538
* Created object of type obo:TERM with id GO:0010539
* Populated new object GO:0010531 (macro)
  * Changed name of GO:0010531 from "<new term>" to "activation of JAK1 protein"
  * Set definition of GO:0010531 to "The process of introducing a phosphate group to a tyrosine residue of a JAK1 (Janus Activated Kinase 1) protein, thereby activating it."
  * Added definition dbxref GOC:dph to GO:0010531
  * Added definition dbxref GOC:tb to GO:0010531
  * Added definition dbxref PMID:9135582 to GO:0010531
  * Added synonym "tyrosine phosphorylation of JAK1 protein" to GO:0010531
  * Added general dbxref GOC:tb to synonym tyrosine phosphorylation of JAK1 protein of GO:0010531
  * Added general dbxref GOC:dph to synonym tyrosine phosphorylation of JAK1 protein of GO:0010531
  * Copied GO:0010531 to GO:0042976 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010531
* Populated new object GO:0010532 (macro)
  * Changed name of GO:0010532 from "<new term>" to "regulation of activation of JAK1 protein"
  * Set definition of GO:0010532 to "Any process that modulates the frequency or rate of activation of JAK1 protein. The activation of JAK1 protein is the process of introducing a phosphate group to a tyrosine residue of a JAK1 (Janus Activated Kinase 1) protein, thereby activating it."
  * Added definition dbxref GOC:dph to GO:0010532
  * Added definition dbxref GOC:tb to GO:0010532
  * Added definition dbxref PMID:9135582 to GO:0010532
  * Added synonym "regulation of tyrosine phosphorylation of JAK1 protein" to GO:0010532
  * Added general dbxref GOC:tb to synonym regulation of tyrosine phosphorylation of JAK1 protein of GO:0010532
  * Added general dbxref GOC:dph to synonym regulation of tyrosine phosphorylation of JAK1 protein of GO:0010532
  * Copied GO:0010532 to GO:0010531 with type part_of
  * Copied GO:0010532 to GO:0010533 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010532
* Populated new object GO:0010533 (macro)
  * Changed name of GO:0010533 from "<new term>" to "regulation of activation of JAK protein"
  * Set definition of GO:0010533 to "Any process that modulates the frequency or rate of activation of JAK protein. The activation of JAK protein is the process of introducing a phosphate group to a tyrosine residue of a JAK (Janus Activated Kinase) protein, thereby activating it."
  * Added definition dbxref GOC:dph to GO:0010533
  * Added definition dbxref GOC:tb to GO:0010533
  * Added definition dbxref PMID:9135582 to GO:0010533
  * Added general dbxref PMID:17190829 to GO:0010533
  * Added synonym "regulation of tyrosine phosphorylation of JAK protein" to GO:0010533
  * Added general dbxref GOC:tb to synonym regulation of tyrosine phosphorylation of JAK protein of GO:0010533
  * Added general dbxref GOC:dph to synonym regulation of tyrosine phosphorylation of JAK protein of GO:0010533
  * Copied GO:0010533 to GO:0050730 with type OBO_REL:is_a
  * Copied GO:0010533 to GO:0042976 with type part_of
  * Assigned namespace "biological_process" to GO:0010533
* Populated new object GO:0010534 (macro)
  * Changed name of GO:0010534 from "<new term>" to "regulation of activation of JAK2 protein"
  * Set definition of GO:0010534 to "Any process that modulates the frequency or rate of activation of JAK2 protein. The activation of JAK2 protein is the process of introducing a phosphate group to a tyrosine residue of a JAK2 (Janus Activated Kinase 2) protein, thereby activating it."
  * Added definition dbxref GOC:dph to GO:0010534
  * Added definition dbxref GOC:tb to GO:0010534
  * Added definition dbxref PMID:9135582 to GO:0010534
  * Added synonym "regulation of tyrosine phosphorylation of JAK2 protein" to GO:0010534
  * Added general dbxref GOC:tb to synonym regulation of tyrosine phosphorylation of JAK2 protein of GO:0010534
  * Added general dbxref GOC:dph to synonym regulation of tyrosine phosphorylation of JAK2 protein of GO:0010534
  * Copied GO:0010534 to GO:0010533 with type OBO_REL:is_a
  * Copied GO:0010534 to GO:0042977 with type part_of
  * Assigned namespace "biological_process" to GO:0010534
* Populated new object GO:0010535 (macro)
  * Changed name of GO:0010535 from "<new term>" to "positive regulation of activation of JAK2 protein"
  * Set definition of GO:0010535 to "Any process that increase the frequency or rate of activation of JAK2 protein. The activation of JAK2 protein is the process of introducing a phosphate group to a tyrosine residue of a JAK2 (Janus Activated Kinase 2) protein, thereby activating it."
  * Added definition dbxref GOC:dph to GO:0010535
  * Added definition dbxref GOC:tb to GO:0010535
  * Added definition dbxref PMID:9135582 to GO:0010535
  * Added synonym "positive regulation of tyrosine phosphorylation of JAK2 protein" to GO:0010535
  * Added general dbxref GOC:tb to synonym positive regulation of tyrosine phosphorylation of JAK2 protein of GO:0010535
  * Added general dbxref GOC:dph to synonym positive regulation of tyrosine phosphorylation of JAK2 protein of GO:0010535
  * Copied GO:0010535 to GO:0050731 with type OBO_REL:is_a
  * Copied GO:0010535 to GO:0010536 with type OBO_REL:is_a
  * Copied GO:0010535 to GO:0010534 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010535
* Populated new object GO:0010536 (macro)
  * Changed name of GO:0010536 from "<new term>" to "positive regulation of activation of JAK protein"
  * Set definition of GO:0010536 to "Any process that increases the frequency or rate of activation of JAK protein. The activation of JAK protein is the process of introducing a phosphate group to a tyrosine residue of a JAK (Janus Activated Kinase) protein, thereby activating it."
  * Added definition dbxref GOC:dph to GO:0010536
  * Added definition dbxref GOC:tb to GO:0010536
  * Added definition dbxref PMID:9135582 to GO:0010536
  * Added synonym "positive regulation of tyrosine phosphorylation of JAK protein" to GO:0010536
  * Added general dbxref GOC:tb to synonym positive regulation of tyrosine phosphorylation of JAK protein of GO:0010536
  * Added general dbxref GOC:dph to synonym positive regulation of tyrosine phosphorylation of JAK protein of GO:0010536
  * Copied GO:0010536 to GO:0010533 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010536
* Populated new object GO:0010537 (macro)
  * Changed name of GO:0010537 from "<new term>" to "positive regulation of activation of JAK1 protein"
  * Set definition of GO:0010537 to "Any process that increases the frequency or rate of activation of JAK1 protein. The activation of JAK1 protein is the process of introducing a phosphate group to a tyrosine residue of a JAK1 (Janus Activated Kinase 1) protein, thereby activating it."
  * Added definition dbxref GOC:dph to GO:0010537
  * Added definition dbxref GOC:tb to GO:0010537
  * Added definition dbxref PMID:9135582 to GO:0010537
  * Added synonym "positive regulation of tyrosine phosphorylation of JAK1 protein" to GO:0010537
  * Added general dbxref GOC:tb to synonym positive regulation of tyrosine phosphorylation of JAK1 protein of GO:0010537
  * Added general dbxref GOC:dph to synonym positive regulation of tyrosine phosphorylation of JAK1 protein of GO:0010537
  * Copied GO:0010537 to GO:0010532 with type OBO_REL:is_a
  * Copied GO:0010537 to GO:0010536 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010537
* Populated new object GO:0010538 (macro)
  * Changed name of GO:0010538 from "<new term>" to "Hsp27 protein regulator activity"
  * Set definition of GO:0010538 to "Modulates the activity of the Hsp27 molecular chaperone."
  * Added definition dbxref GOC:dph to GO:0010538
  * Added definition dbxref GOC:tb to GO:0010538
  * Added definition dbxref PMID:11546764 to GO:0010538
  * Copied GO:0010538 to GO:0030188 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0010538
* Populated new object GO:0010539 (macro)
  * Changed name of GO:0010539 from "<new term>" to "Hsp27 protein inhibitor activity"
  * Set definition of GO:0010539 to "Stops, prevents or reduces the activity of the Hsp27 molecular chaperone."
  * Added definition dbxref GOC:dph to GO:0010539
  * Added definition dbxref GOC:tb to GO:0010539
  * Copied GO:0010539 to GO:0010538 with type OBO_REL:is_a
  * Copied GO:0010539 to GO:0030190 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0010539
* Changed definition of GO:0001865 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a NK T cell." to "The process whereby a precursor cell type acquires the specialized features of a NK T cell."
* Changed definition of GO:0002244 from "The process whereby a unspecialized hemopoietic stem cell acquires the specialized features of a hemopoietic progenitor cell, a class of cell types including myeloid progenitor cells and lymphoid progenitor cells." to "The process whereby precursor cell type acquires the specialized features of a hemopoietic progenitor cell, a class of cell types including myeloid progenitor cells and lymphoid progenitor cells."
* Changed definition of GO:0002299 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of an alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." to "The process whereby a precursor cell type acquires the specialized features of an alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways."
* Changed definition of GO:0002300 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD8-positive, alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." to "The process whereby a precursor cell type acquires the specialized features of a CD8-positive, alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways."
* Changed definition of GO:0002301 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD4-positive, alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." to "The process whereby a precursor cell type acquires the specialized features of a CD4-positive, alpha-beta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways."
* Changed definition of GO:0002304 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of an gamma-delta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." to "The process whereby a precursor cell type acquires the specialized features of an gamma-delta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways."
* Changed definition of GO:0002305 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD8-positive, gamma-delta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." to "The process whereby a precursor cell type acquires the specialized features of a CD8-positive, gamma-delta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways."
* Changed definition of GO:0002306 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD4-positive, gamma-delta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways." to "The process whereby a precursor cell type acquires the specialized features of a CD4-positive, gamma-delta intraepithelial T cell. Intraepithelial T cells are found among epithelial cells in mucosal areas and have distinct phenotypes and developmental pathways."
* Changed definition of GO:0002307 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD8-positive, alpha-beta regulatory T cell." to "The process whereby a precursor cell type acquires the specialized features of a CD8-positive, alpha-beta regulatory T cell."
* Changed definition of GO:0002308 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD8-positive, alpha-beta cytotoxic T cell." to "The process whereby a precursor cell type acquires the specialized features of a CD8-positive, alpha-beta cytotoxic T cell."
* Changed definition of GO:0002318 from "The process whereby an unspecialized hemopoietic stem cell acquires the specialized features of a myeloid progenitor cell. Myeloid progenitor cells include progenitor cells for any of the myeloid lineages." to "The process whereby a precursor cell type acquires the specialized features of a myeloid progenitor cell. Myeloid progenitor cells include progenitor cells for any of the myeloid lineages."
* Changed definition of GO:0002320 from "The process whereby an unspecialized hemopoietic stem cell acquires the specialized features of a lymphoid progenitor cell. Lymphoid progenitor cells include progenitor cells for any of the lymphoid lineages." to "The process whereby a precursor cell type acquires the specialized features of a lymphoid progenitor cell. Lymphoid progenitor cells include progenitor cells for any of the lymphoid lineages."
* Changed definition of GO:0002321 from "The process whereby an unspecialized hemopoietic stem cell acquires the specialized features of a natural killer cell progenitor." to "The process whereby a precursor cell type acquires the specialized features of a natural killer cell progenitor."
* Changed definition of GO:0002327 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of an immature B cell." to "The process whereby a precursor cell type acquires the specialized features of an immature B cell."
* Changed definition of GO:0002328 from "The process whereby an unspecialized hemopoietic stem cell acquires the specialized features of a pro-B cell. Pro-B cells are the earliest stage of the B cell lineage and undergo heavy chain D and J gene rearrangements, although they are not fully committed." to "The process whereby a precursor cell type acquires the specialized features of a pro-B cell. Pro-B cells are the earliest stage of the B cell lineage and undergo heavy chain D and J gene rearrangements, although they are not fully committed."
* Changed definition of GO:0002329 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a pre-B cell. Pre-B cells follow the pro-B cell stage of immature B cell differentiation and undergo rearrangement of heavy chain V, D, and J gene segments." to "The process whereby a precursor cell type acquires the specialized features of a pre-B cell. Pre-B cells follow the pro-B cell stage of immature B cell differentiation and undergo rearrangement of heavy chain V, D, and J gene segments."
* Changed definition of GO:0002361 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a CD4-positive, CD25-positive, alpha-beta regulatory T cell." to "The process whereby a precursor cell type acquires the specialized features of a CD4-positive, CD25-positive, alpha-beta regulatory T cell."
* Changed definition of GO:0002572 from "The process whereby an unspecialized hemopoietic stem cell acquires the specialized features of a pro-T cell. Pro-T cells are the earliest stage of the T cell lineage but are not fully committed." to "The process whereby a precursor cell type acquires the specialized features of a pro-T cell. Pro-T cells are the earliest stage of the T cell lineage but are not fully committed."
* Changed name of GO:0007205 from "protein kinase C activation" to "activation of protein kinase C"
* Added synonym "protein kinase C activation" to GO:0007205
* Added general dbxref GOC:tb to synonym protein kinase C activation of GO:0007205
* Added general dbxref GOC:dph to synonym protein kinase C activation of GO:0007205
* Changed synonym scope of GO:0007205 from "Related" to "Exact"
* Changed definition of GO:0030183 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a B cell." to "The process whereby a precursor cell type acquires the specialized features of a B cell."
* Changed definition of GO:0030217 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a T cell." to "The process by which a precursor cell type acquires characteristics of a more mature T-cell. A T cell is a type of lymphocyte whose definin characteristic is the expression of a T cell receptor complex."
* Changed definition of GO:0033077 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a T cell via a differentiation pathway dependent upon transit through the thymus." to "The process whereby a precursor cell type acquires the specialized features of a T cell via a differentiation pathway dependent upon transit through the thymus."
* Changed definition of GO:0033078 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of a T cell via a differentiation pathway independent of the thymus." to "The process whereby a precursor cell type acquires the specialized features of a T cell via a differentiation pathway independent of the thymus."
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"
* Changed synonym scope of GO:0042976 from "Narrow" to "Exact"
* Changed synonym scope of GO:0042976 from "Exact" to "Broad"
* Changed synonym scope of GO:0042976 from "Narrow" to "Related"
* Copied GO:0042976 to GO:0018108 with type OBO_REL:is_a
* Changed name of GO:0042977 from "tyrosine phosphorylation of JAK2 protein" to "activation of JAK2 protein"
* Deleted synonym "activation of JAK2 protein" from GO:0042977
* Added synonym "tyrosine phosphorylation of JAK2 protein" to GO:0042977
* Changed definition of GO:0046632 from "The process whereby a relatively unspecialized hemopoietic stem cell acquires the specialized features of an alpha-beta T cell." to "The process whereby a precursor cell type acquires the specialized features of an alpha-beta T cell."


From gocvs at genome.Stanford.EDU  Sun Feb 10 21:30:44 2008
From: gocvs at genome.Stanford.EDU (Remote CVS for Gene Ontology)
Date: Sun, 10 Feb 2008 21:30:44 -0800 (PST)
Subject: [go-diff] GO update 02/10/2008
Message-ID: <200802110530.VAA06372@bread.Stanford.EDU>

OBODIFF of gene_ontology_edit.obo version 5.684 by 5.685

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"
* Added synonym "class switch recombination" to GO:0045190
* Changed synonym scope of GO:0045190 from "Related" to "Exact"
* Added synonym "regulation of class switch recombination" to GO:0045191
* Changed synonym scope of GO:0045191 from "Related" to "Exact"
* Added synonym "negative regulation of class switch recombination" to GO:0045829
* Changed synonym scope of GO:0045829 from "Related" to "Exact"
* Added synonym "positive regulation of class switch recombination" to GO:0045830
* Changed synonym scope of GO:0045830 from "Related" to "Exact"
* Added synonym "class switch recombination to IgE isotypes" to GO:0048289
* Changed synonym scope of GO:0048289 from "Related" to "Exact"
* Added synonym "regulation of class switch recombination to IgE isotypes" to GO:0048293
* Changed synonym scope of GO:0048293 from "Related" to "Exact"
* Added synonym "negative regulation of class switch recombination to IgE isotypes" to GO:0048294
* Changed synonym scope of GO:0048294 from "Related" to "Exact"
* Added synonym "positive regulation of class switch recombination to IgE isotypes" to GO:0048295
* Changed synonym scope of GO:0048295 from "Related" to "Exact"
* Added synonym "regulation of class switch recombination to IgA isotypes" to GO:0048296
* Changed synonym scope of GO:0048296 from "Related" to "Exact"
* Added synonym "negative regulation of class switch recombination to IgA isotypes" to GO:0048297
* Changed synonym scope of GO:0048297 from "Related" to "Exact"
* Added synonym "positive regulation of class switch recombination to IgA isotypes" to GO:0048298
* Changed synonym scope of GO:0048298 from "Related" to "Exact"
* Added synonym "regulation of class switch recombination to IgD isotypes" to GO:0048299
* Changed synonym scope of GO:0048299 from "Related" to "Exact"
* Added synonym "negative regulation of class switch recombination to IgD isotypes" to GO:0048300
* Changed synonym scope of GO:0048300 from "Related" to "Exact"
* Added synonym "positive regulation of class switch recombination to IgD isotypes" to GO:0048301
* Changed synonym scope of GO:0048301 from "Related" to "Exact"
* Added synonym "regulation of class switch recombination to IgG isotypes" to GO:0048302
* Changed synonym scope of GO:0048302 from "Related" to "Exact"
* Added synonym "negative regulation of class switch recombination to IgG isotypes" to GO:0048303
* Changed synonym scope of GO:0048303 from "Related" to "Exact"
* Added synonym "positive regulation of class switch recombination to IgG isotypes" to GO:0048304
* Changed synonym scope of GO:0048304 from "Related" to "Exact"


From gocvs at genome.Stanford.EDU  Mon Feb 11 21:30:44 2008
From: gocvs at genome.Stanford.EDU (Remote CVS for Gene Ontology)
Date: Mon, 11 Feb 2008 21:30:44 -0800 (PST)
Subject: [go-diff] GO update 02/11/2008
Message-ID: <200802120530.VAA19983@bread.Stanford.EDU>

OBODIFF of gene_ontology_edit.obo version 5.685 by 5.687

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0010540
* Created object of type obo:TERM with id GO:0010541
* Populated new object GO:0010540 (macro)
  * Changed name of GO:0010540 from "<new term>" to "basipetal auxin transport"
  * Set definition of GO:0010540 to "The unidirectional movement of auxin from the apex to base of an organ, including the shoot, leaf, primary root, or lateral root."
  * Added definition dbxref PMID:10677441 to GO:0010540
  * Copied GO:0010540 to GO:0009926 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010540
* Populated new object GO:0010541 (macro)
  * Changed name of GO:0010541 from "<new term>" to "acropetal auxin transport"
  * Set definition of GO:0010541 to "The unidirectional movement of auxin from the base towards the apex of an organ, including the shoot, leaf, primary root, or lateral root."
  * Added definition dbxref PMID:10677441 to GO:0010541
  * Copied GO:0010541 to GO:0009926 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010541
* Deleted GO:0000158 --OBO_REL:is_a--> GO:0004722
* Destroyed object GO:0000158
* Deleted GO:0000163 --OBO_REL:is_a--> GO:0004722
* Deleted GO:0017018 --OBO_REL:is_a--> GO:0000163
* Destroyed object GO:0000163
* Set definition of GO:0001609 to "Combining with adenosine and transmitting the signal to a heterotrimeric G-protein complex to initiate a change in cell activity."
* Added definition dbxref GOC:mah to GO:0001609
* Added definition dbxref PMID:9755289 to GO:0001609
* Set definition of GO:0001614 to "Combining with a purine nucleotide to initiate a change in cell activity."
* Added definition dbxref GOC:mah to GO:0001614
* Changed synonym scope of GO:0001614 from "Exact" to "Broad"
* Added synonym "purinoreceptor" to GO:0001614
* Changed synonym scope of GO:0001614 from "Related" to "Broad"
* Changed definition of GO:0003916 from "Catalysis of a topological transformation in double-stranded DNA by a covalent or non-covalent mechanism." to "Catalysis of the transient cleavage and passage of individual DNA strands or double helices through one another, resulting a topological transformation in double-stranded DNA."
* Added definition dbxref PMID:8811192 to GO:0003916
* added secondary id GO:0000158 to GO:0004722
* added secondary id GO:0000163 to GO:0004722
* added secondary id GO:0008598 to GO:0004722
* added secondary id GO:0008600 to GO:0004722
* added secondary id GO:0015071 to GO:0004722
* added secondary id GO:0030357 to GO:0004722
* added secondary id GO:0030358 to GO:0004722
* added secondary id GO:0030360 to GO:0004722
* added secondary id GO:0030361 to GO:0004722
* Added general dbxref Reactome:21718 to GO:0004722
* Added synonym "calcineurin" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 1 activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 1, intrinsic catalyst activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 2A activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 2A, intrinsic catalyst activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 2B activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 2B, intrinsic catalyst activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 2C activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 4 activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase type 4, intrinsic catalyst activity" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Added synonym "protein phosphatase X" to GO:0004722
* Changed synonym scope of GO:0004722 from "Related" to "Narrow"
* Set definition of GO:0004931 to "Catalysis of the transmembrane transfer of an ion by a channel that opens when extracellular ATP has been bound by the channel complex or one of its constituent parts."
* Added definition dbxref GOC:mah to GO:0004931
* Added definition dbxref PMID:9755289 to GO:0004931
* Changed synonym scope of GO:0004931 from "Broad" to "Related"
* Changed synonym scope of GO:0004931 from "Narrow" to "Broad"
* Added synonym "purinoceptor" to GO:0004931
* Changed synonym scope of GO:0004931 from "Related" to "Broad"
* Changed definition of GO:0005945 from "A allosteric homotetrameric molecule with glycolytic activity." to "A protein complex that possesses 6-phosphofructokinase activity; homodimeric and allosteric homotetrameric forms are known."
* Added definition dbxref GOC:mah to GO:0005945
* Deleted GO:0015071 --OBO_REL:is_a--> GO:0004722
* Destroyed object GO:0015071
* Deleted GO:0017018 --OBO_REL:is_a--> GO:0000163
* Copied GO:0017018 to GO:0004722 with type OBO_REL:is_a
* Set definition of GO:0019546 to "The chemical reactions and pathways resulting in the breakdown of arginine into other compounds, including ornithine and CO2, using the enzyme arginine deiminase."
* Added definition dbxref GOC:mah to GO:0019546
* Added definition dbxref MetaCyc:ARGDEGRAD-PWY to GO:0019546
* Set definition of GO:0019561 to "The chemical reactions and pathways resulting in the breakdown of phenylalanine under anaerobic conditions; occurs via the intermediates phenylpyruvate and phenylacetaldehyde."
* Added definition dbxref GOC:mah to GO:0019561
* Added definition dbxref MetaCyc:ANAPHENOXI-PWY to GO:0019561
* Deleted GO:0019613 --OBO_REL:is_a--> GO:0008206
* Destroyed object GO:0019613
* Deleted GO:0030357 --OBO_REL:is_a--> GO:0004722
* Destroyed object GO:0030357
* Deleted GO:0030360 --OBO_REL:is_a--> GO:0004722
* Destroyed object GO:0030360
* added secondary id GO:0019613 to GO:0030573
* Added general dbxref MetaCyc:7ALPHADEHYDROX-PWY to GO:0030573
* Added synonym "bile acid 7alpha-dehydroxylation pathway" to GO:0030573
* Changed synonym scope of GO:0030573 from "Related" to "Narrow"
* Added synonym "cholate catabolic process" to GO:0030573
* Changed synonym scope of GO:0030573 from "Related" to "Narrow"
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"
* Changed definition of GO:0034245 from "A DNA-directed RNA polymerase complex located in the mitochondrion. Mitochondrial RNA polymerase is composed of two subunits, a catalytic core, which resembles the enzymes from bacteriophage T7 and T3, and a
specificity factor required for promoter recognition, which is similar to members of the eubacterial sigma factor family. In S. cerevisiae, these are encoded by the nuclear genes RPO41 and MTF1 and the specificity factor, required for promoter recognition and initiation, is not present in the elongating form." to "A DNA-directed RNA polymerase complex located in the mitochondrion. Mitochondrial RNA polymerase is composed of two subunits, a catalytic core, which resembles the enzymes from bacteriophage T7 and T3, and a specificity factor required for promoter recognition, which is similar to members of the eubacterial sigma factor family. In S. cerevisiae, these are encoded by the nuclear genes RPO41 and MTF1 and the specificity factor, required for promoter recognition and initiation, is not present in the elongating form."
* Deleted synonym "itochondrial RNA polymerase holoenzyme complex" from GO:0034245
* Added synonym "mitochondrial RNA polymerase holoenzyme complex" to GO:0034245
* Changed synonym scope of GO:0034245 from "Related" to "Exact"
* Set definition of GO:0045028 to "Combining with a purine nucleotide and transmitting the signal to a heterotrimeric G-protein complex to initiate a change in cell activity."
* Added definition dbxref GOC:mah to GO:0045028
* Added definition dbxref PMID:9755289 to GO:0045028
* Changed synonym scope of GO:0045028 from "Exact" to "Related"
* Set definition of GO:0065001 to "The pattern specification process by which the polarity of a body or organ axis is established and maintained."
* Added definition dbxref GOC:mah to GO:0065001


From gocvs at genome.Stanford.EDU  Tue Feb 12 21:30:44 2008
From: gocvs at genome.Stanford.EDU (Remote CVS for Gene Ontology)
Date: Tue, 12 Feb 2008 21:30:44 -0800 (PST)
Subject: [go-diff] GO update 02/12/2008
Message-ID: <200802130530.VAA23829@bread.Stanford.EDU>

OBODIFF of gene_ontology_edit.obo version 5.687 by 5.689

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0034248
* Created object of type obo:TERM with id GO:0034249
* Created object of type obo:TERM with id GO:0034250
* Created object of type obo:TERM with id GO:0034251
* Created object of type obo:TERM with id GO:0034252
* Created object of type obo:TERM with id GO:0034253
* Created object of type obo:TERM with id GO:0034254
* Created object of type obo:TERM with id GO:0034255
* Created object of type obo:TERM with id GO:0034256
* Created object of type obo:TERM with id GO:0034257
* Created object of type obo:TERM with id GO:0034258
* Created object of type obo:TERM with id GO:0034259
* Created object of type obo:TERM with id GO:0034260
* Created object of type obo:TERM with id GO:0034261
* Populated new object GO:0034248 (macro)
  * Changed name of GO:0034248 from "<new term>" to "regulation of amide metabolic process"
  * Set definition of GO:0034248 to "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving amides."
  * Added definition dbxref GOC:mah to GO:0034248
  * Added synonym "regulation of amide metabolism" to GO:0034248
  * Changed synonym scope of GO:0034248 from "Related" to "Exact"
  * Copied GO:0034248 to GO:0043603 with type part_of
  * Copied GO:0034248 to GO:0051171 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034248
* Populated new object GO:0034249 (macro)
  * Changed name of GO:0034249 from "<new term>" to "negative regulation of amide metabolic process"
  * Set definition of GO:0034249 to "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways involving amides."
  * Added definition dbxref GOC:mah to GO:0034249
  * Added synonym "negative regulation of amide metabolism" to GO:0034249
  * Changed synonym scope of GO:0034249 from "Related" to "Exact"
  * Copied GO:0034249 to GO:0034248 with type OBO_REL:is_a
  * Copied GO:0034249 to GO:0051172 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034249
* Populated new object GO:0034250 (macro)
  * Changed name of GO:0034250 from "<new term>" to "positive regulation of amide metabolic process"
  * Set definition of GO:0034250 to "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways involving amides."
  * Added definition dbxref GOC:mah to GO:0034250
  * Added synonym "positive regulation of amide metabolism" to GO:0034250
  * Changed synonym scope of GO:0034250 from "Related" to "Exact"
  * Copied GO:0034250 to GO:0051173 with type OBO_REL:is_a
  * Copied GO:0034250 to GO:0034248 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034250
* Populated new object GO:0034251 (macro)
  * Changed name of GO:0034251 from "<new term>" to "regulation of amide catabolic process"
  * Set definition of GO:0034251 to "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of amides."
  * Added definition dbxref GOC:mah to GO:0034251
  * Added synonym "regulation of amide breakdown" to GO:0034251
  * Changed synonym scope of GO:0034251 from "Related" to "Exact"
  * Added synonym "regulation of amide catabolism" to GO:0034251
  * Changed synonym scope of GO:0034251 from "Related" to "Exact"
  * Added synonym "regulation of amide degradation" to GO:0034251
  * Changed synonym scope of GO:0034251 from "Related" to "Exact"
  * Copied GO:0034251 to GO:0043605 with type part_of
  * Copied GO:0034251 to GO:0034248 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034251
* Populated new object GO:0034252 (macro)
  * Changed name of GO:0034252 from "<new term>" to "negative regulation of amide catabolic process"
  * Set definition of GO:0034252 to "Any process that stops, prevents, or reduces the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of amides."
  * Added definition dbxref GOC:mah to GO:0034252
  * Added synonym "negative regulation of amide breakdown" to GO:0034252
  * Changed synonym scope of GO:0034252 from "Related" to "Exact"
  * Added synonym "negative regulation of amide catabolism" to GO:0034252
  * Changed synonym scope of GO:0034252 from "Related" to "Exact"
  * Added synonym "negative regulation of amide degradation" to GO:0034252
  * Copied GO:0034252 to GO:0051172 with type OBO_REL:is_a
  * Copied GO:0034252 to GO:0034249 with type OBO_REL:is_a
  * Copied GO:0034252 to GO:0034251 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034252
* Populated new object GO:0034253 (macro)
  * Changed name of GO:0034253 from "<new term>" to "positive regulation of amide catabolic process"
  * Set definition of GO:0034253 to "Any process that activates or increases the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of amides."
  * Added definition dbxref GOC:mah to GO:0034253
  * Added synonym "positive regulation of amide breakdown" to GO:0034253
  * Changed synonym scope of GO:0034253 from "Related" to "Exact"
  * Added synonym "positive regulation of amide catabolism" to GO:0034253
  * Changed synonym scope of GO:0034253 from "Related" to "Exact"
  * Added synonym "positive regulation of amide degradation" to GO:0034253
  * Copied GO:0034253 to GO:0034251 with type OBO_REL:is_a
  * Copied GO:0034253 to GO:0051172 with type OBO_REL:is_a
  * Copied GO:0034253 to GO:0034250 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034253
* Populated new object GO:0034254 (macro)
  * Changed name of GO:0034254 from "<new term>" to "regulation of urea catabolic process"
  * Set definition of GO:0034254 to "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of urea."
  * Added definition dbxref GOC:mah to GO:0034254
  * Added synonym "regulation of urea breakdown" to GO:0034254
  * Changed synonym scope of GO:0034254 from "Related" to "Exact"
  * Added synonym "regulation of urea catabolism" to GO:0034254
  * Changed synonym scope of GO:0034254 from "Related" to "Exact"
  * Added synonym "regulation of urea degradation" to GO:0034254
  * Changed synonym scope of GO:0034254 from "Related" to "Exact"
  * Copied GO:0034254 to GO:0034255 with type OBO_REL:is_a
  * Copied GO:0034254 to GO:0043419 with type OBO_REL:is_a
  * Copied GO:0034254 to GO:0034251 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034254
* Populated new object GO:0034255 (macro)
  * Changed name of GO:0034255 from "<new term>" to "regulation of urea metabolic process"
  * Set definition of GO:0034255 to "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving urea."
  * Added definition dbxref GOC:mah to GO:0034255
  * Added synonym "regulation of urea metabolism" to GO:0034255
  * Changed synonym scope of GO:0034255 from "Related" to "Exact"
  * Copied GO:0034255 to GO:0034248 with type OBO_REL:is_a
  * Copied GO:0034255 to GO:0019627 with type part_of
  * Assigned namespace "biological_process" to GO:0034255
* Populated new object GO:0034256 (macro)
  * Changed name of GO:0034256 from "<new term>" to "chlorophyll(ide) b reductase activity"
  * Set definition of GO:0034256 to "Catalysis of the reaction: 71-hydroxychlorophyllide a + NAD(P)+ = chlorophyllide b + NAD(P)H + H+."
  * Added definition dbxref EC:1.1.1.294 to GO:0034256
  * Added definition dbxref MetaCyc:RXN-7678 to GO:0034256
  * Added general dbxref EC:1.1.1.294 to GO:0034256
  * Added general dbxref MetaCyc:RXN-7678 to GO:0034256
  * Added synonym "Chl b reductase activity" to GO:0034256
  * Changed synonym scope of GO:0034256 from "Related" to "Exact"
  * Added synonym "chlorophyll b reductase activity" to GO:0034256
  * Changed synonym scope of GO:0034256 from "Related" to "Exact"
  * Added synonym "chlorophyllide b reductase activity" to GO:0034256
  * Changed synonym scope of GO:0034256 from "Related" to "Exact"
  * Copied GO:0034256 to GO:0016616 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034256
* Populated new object GO:0034257 (macro)
  * Changed name of GO:0034257 from "<new term>" to "nicotinamide riboside transporter activity"
  * Set definition of GO:0034257 to "Catalysis of the transfer of nicotinamide riboside, which is a pyridine-3-carboxamide covalently bonded to a ribose sugar, from one side of a membrane to the other."
  * Added definition dbxref GOC:se to GO:0034257
  * Copied GO:0034257 to GO:0005337 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034257
* Populated new object GO:0034258 (macro)
  * Changed name of GO:0034258 from "<new term>" to "nicotinamide riboside transport"
  * Set definition of GO:0034258 to "The directed movement of a nicotinamide riboside, which is a pyridine-3-carboxamide covalently bonded to a ribose sugar, into, out of, within or between cells."
  * Added definition dbxref GOC:se to GO:0034258
  * Copied GO:0034258 to GO:0015858 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034258
* Populated new object GO:0034259 (macro)
  * Changed name of GO:0034259 from "<new term>" to "negative regulation of Rho GTPase activity"
  * Set definition of GO:0034259 to "Any process that stops or reduces the rate of activity of a GTPase of the Rho family."
  * Added definition dbxref GOC:mah to GO:0034259
  * Added synonym "down regulation of Rho GTPase activity" to GO:0034259
  * Changed synonym scope of GO:0034259 from "Related" to "Exact"
  * Added synonym "down-regulation of Rho GTPase activity" to GO:0034259
  * Changed synonym scope of GO:0034259 from "Related" to "Exact"
  * Added synonym "downregulation of Rho GTPase activity" to GO:0034259
  * Changed synonym scope of GO:0034259 from "Related" to "Exact"
  * Added synonym "inhibition of Rho GTPase activity" to GO:0034259
  * Changed synonym scope of GO:0034259 from "Related" to "Narrow"
  * Copied GO:0034259 to GO:0034261 with type OBO_REL:is_a
  * Copied GO:0034259 to GO:0032319 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034259
* Populated new object GO:0034260 (macro)
  * Changed name of GO:0034260 from "<new term>" to "negative regulation of GTPase activity"
  * Set definition of GO:0034260 to "Any process that stops or reduces the rate of GTP hydrolysis by an GTPase."
  * Added definition dbxref GOC:mah to GO:0034260
  * Added synonym "down regulation of GTPase activity" to GO:0034260
  * Changed synonym scope of GO:0034260 from "Related" to "Exact"
  * Added synonym "down-regulation of GTPase activity" to GO:0034260
  * Changed synonym scope of GO:0034260 from "Related" to "Exact"
  * Added synonym "downregulation of GTPase activity" to GO:0034260
  * Changed synonym scope of GO:0034260 from "Related" to "Exact"
  * Added synonym "inhibition of GTPase activity" to GO:0034260
  * Changed synonym scope of GO:0034260 from "Related" to "Narrow"
  * Added synonym "negative regulation of guanosinetriphosphatase activity" to GO:0034260
  * Changed synonym scope of GO:0034260 from "Related" to "Exact"
  * Copied GO:0034260 to GO:0043087 with type OBO_REL:is_a
  * Copied GO:0034260 to GO:0051346 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034260
* Populated new object GO:0034261 (macro)
  * Changed name of GO:0034261 from "<new term>" to "negative regulation of Ras GTPase activity"
  * Set definition of GO:0034261 to "Any process that stops or reduces the rate of activity of a GTPase of the Ras superfamily."
  * Added definition dbxref GOC:mah to GO:0034261
  * Added synonym "down regulation of Ras GTPase activity" to GO:0034261
  * Changed synonym scope of GO:0034261 from "Related" to "Exact"
  * Added synonym "down-regulation of Ras GTPase activity" to GO:0034261
  * Changed synonym scope of GO:0034261 from "Related" to "Exact"
  * Added synonym "downregulation of Ras GTPase activity" to GO:0034261
  * Changed synonym scope of GO:0034261 from "Related" to "Exact"
  * Added synonym "inhibition of Ras GTPase activity" to GO:0034261
  * Changed synonym scope of GO:0034261 from "Related" to "Narrow"
  * Copied GO:0034261 to GO:0032318 with type OBO_REL:is_a
  * Copied GO:0034261 to GO:0034260 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034261
* Copied GO:0000186 to GO:0006468 with type OBO_REL:is_a
* Copied GO:0000187 to GO:0006468 with type OBO_REL:is_a
* Deleted definition dbxref EC:1.6.99.2 from GO:0003955
* Added definition dbxref EC:1.6.5.2 to GO:0003955
* Changed definition of GO:0004294 from "Catalysis of the release of an N-terminal tripeptide from a polypeptide." to "Catalysis of the release of an N-terminal tripeptide from a polypeptide at neutral pH."
* Set definition of GO:0004694 to "Catalysis of the phosphorylation of the alpha subunit of eukaryotic translation initiation factor 2 (EIF2)."
* Added definition dbxref GOC:mah to GO:0004694
* Added definition dbxref InterPro:IPR015516 to GO:0004694
* Copied GO:0006994 to GO:0032569 with type OBO_REL:is_a
* Changed name of GO:0007228 from "activation of hh target transcription factor" to "positive regulation of hh target transcription factor activity"
* Changed definition of GO:0007228 from "Upregulation of the activity of a transcription factor that activates transcription of Hedgehog-target genes in response to Smoothened signaling. In Drosophila, Cubitus interruptus (Ci) is the only identified transcription factor so far in the Hedgehog signaling pathway. In vertebrates, members of the Gli protein family are activated in this way. Activation of the Gli/Ci transcription factor is distinct from its stabilization, when proteolytic cleavage is inhibited." to "Any process that increases the activity of a transcription factor that activates transcription of Hedgehog-target genes in response to Smoothened signaling. In Drosophila, Cubitus interruptus (Ci) is the only identified transcription factor so far in the Hedgehog signaling pathway. In vertebrates, members of the Gli protein family are activated in this way. Activation of the Gli/Ci transcription factor is distinct from its stabilization, when proteolytic cleavage is inhibited."
* Added definition dbxref GOC:dph to GO:0007228
* Added definition dbxref GOC:tb to GO:0007228
* Added synonym "activation of hh target transcription factor" to GO:0007228
* Added general dbxref GOC:tb to synonym activation of hh target transcription factor of GO:0007228
* Added general dbxref GOC:dph to synonym activation of hh target transcription factor of GO:0007228
* Changed synonym scope of GO:0007228 from "Related" to "Exact"
* Set definition of GO:0008240 to "Catalysis of the release of an N-terminal tripeptide from a polypeptide."
* Added definition dbxref GOC:mah to GO:0008240
* Set definition of GO:0008330 to "Catalysis of the reaction: protein threonine/tyrosine phosphate + H2O = protein threonine/tyrosine + phosphate."
* Added definition dbxref GOC:mah to GO:0008330
* added secondary id GO:0046407 to GO:0010277
* Changed definition of GO:0010277 from "Catalysis of the reactions: chlorophyllide a + O2 + NADPH + H+ = 7-hydroxychlorophyllide a + H2O + NADP+ and 7-hydroxychlorophyllide a + O2 + NADPH + H+ = chlorophyllide b + 2 H2O + NADP+." to "Catalysis of hydroxylation at the 7-methyl group of chlorophyllide a, according to the reactions: chlorophyllide a + O2 + NADPH + H+ = 7-hydroxychlorophyllide a + H2O + NADP+ and 7-hydroxychlorophyllide a + O2 + NADPH + H+ = chlorophyllide b + 2 H2O + NADP+."
* Added definition dbxref MetaCyc:RXN-7677 to GO:0010277
* Added synonym "chlorophyll a oxygenase activity" to GO:0010277
* Changed synonym scope of GO:0010277 from "Related" to "Exact"
* Added synonym "chlorophyll b synthetase activity" to GO:0010277
* Changed synonym scope of GO:0010277 from "Related" to "Exact"
* Copied GO:0032320 to GO:0043547 with type OBO_REL:is_a
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"
* Deleted GO:0043089 --OBO_REL:is_a--> GO:0043547
* Deleted GO:0046407 --OBO_REL:is_a--> GO:0016696
* Destroyed object GO:0046407
* Changed name of GO:0048034 from "heme o biosynthetic process" to "heme O biosynthetic process"
* Deleted synonym "haem o biosynthesis" from GO:0048034
* Deleted synonym "haem o biosynthetic process" from GO:0048034
* Deleted synonym "heme o anabolism" from GO:0048034
* Deleted synonym "heme o biosynthesis" from GO:0048034
* Deleted synonym "heme o formation" from GO:0048034
* Deleted synonym "heme o synthesis" from GO:0048034
* Added synonym "haem O biosynthesis" to GO:0048034
* Changed synonym scope of GO:0048034 from "Related" to "Exact"
* Added synonym "haem O biosynthetic process" to GO:0048034
* Changed synonym scope of GO:0048034 from "Related" to "Exact"
* Added synonym "heme O anabolism" to GO:0048034
* Changed synonym scope of GO:0048034 from "Related" to "Exact"
* Added synonym "heme O biosynthesis" to GO:0048034
* Changed synonym scope of GO:0048034 from "Related" to "Exact"
* Added synonym "heme O formation" to GO:0048034
* Changed synonym scope of GO:0048034 from "Related" to "Exact"
* Added synonym "heme O synthesis" to GO:0048034
* Changed synonym scope of GO:0048034 from "Related" to "Exact"


From gocvs at genome.Stanford.EDU  Wed Feb 13 21:30:45 2008
From: gocvs at genome.Stanford.EDU (Remote CVS for Gene Ontology)
Date: Wed, 13 Feb 2008 21:30:45 -0800 (PST)
Subject: [go-diff] GO update 02/13/2008
Message-ID: <200802140530.VAA06296@bread.Stanford.EDU>

OBODIFF of gene_ontology_edit.obo version 5.689 by 5.692

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0000496
* Created object of type obo:TERM with id GO:0000497
* Created object of type obo:TERM with id GO:0000498
* Created object of type obo:TERM with id GO:0000499
* Created object of type obo:TERM with id GO:0000944
* Created object of type obo:TERM with id GO:0000945
* Created object of type obo:TERM with id GO:0000946
* Created object of type obo:TERM with id GO:0010542
* Populated new object GO:0000496 (macro)
  * Changed name of GO:0000496 from "<new term>" to "base pairing"
  * Added comment "Note that with respect to annotation, "base pairing" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with other nucleic acid molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function."
  * Set definition of GO:0000496 to "Interacting selectively with nucleic acid via hydrogen bonds between the bases of a gene product molecule and the bases of a target nucleic acid molecule."
  * Added definition dbxref GOC:krc to GO:0000496
  * Copied GO:0000496 to GO:0003676 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0000496
* Populated new object GO:0000497 (macro)
  * Changed name of GO:0000497 from "<new term>" to "base pairing with DNA"
  * Added comment "Note that with respect to annotation, "base pairing" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with DNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function."
  * Set definition of GO:0000497 to "Interacting selectively with nucleic acid via hydrogen bonds between the bases of a gene product molecule and the bases of a target nucleic acid molecule"
  * Added definition dbxref GOC:krc to GO:0000497
  * Copied GO:0000497 to GO:0000496 with type OBO_REL:is_a
  * Copied GO:0000497 to GO:0003677 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0000497
* Populated new object GO:0000498 (macro)
  * Changed name of GO:0000498 from "<new term>" to "base pairing with RNA"
  * Added comment "Note that with respect to annotation, "base pairing with RNA" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with other RNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function."
  * Set definition of GO:0000498 to "Interacting selectively with ribonucleic acid (RNA) via hydrogen bonds between the bases of a gene product molecule and the bases of a target RNA molecule."
  * Added definition dbxref GOC:krc to GO:0000498
  * Copied GO:0000498 to GO:0003723 with type OBO_REL:is_a
  * Copied GO:0000498 to GO:0000496 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0000498
* Populated new object GO:0000499 (macro)
  * Changed name of GO:0000499 from "<new term>" to "base pairing with mRNA"
  * Added comment "Note that with respect to annotation, "base pairing with RNA" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with other RNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function."
  * Set definition of GO:0000499 to "Interacting selectively with messenger ribonucleic acid (mRNA) via hydrogen bonds between the bases of a gene product molecule and the bases of a target mRNA molecule."
  * Added definition dbxref GOC:krc to GO:0000499
  * Copied GO:0000499 to GO:0000498 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0000499
* Populated new object GO:0000944 (macro)
  * Changed name of GO:0000944 from "<new term>" to "base pairing with rRNA"
  * Added comment "Note that with respect to annotation, "base pairing with RNA" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with other RNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function."
  * Set definition of GO:0000944 to "Interacting selectively with ribosomal ribonucleic acid (rRNA) via hydrogen bonds between the bases of a gene product molecule and the bases of a target rRNA molecule."
  * Added definition dbxref GOC:krc to GO:0000944
  * Copied GO:0000944 to GO:0000498 with type OBO_REL:is_a
  * Copied GO:0000944 to GO:0019843 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0000944
* Populated new object GO:0000945 (macro)
  * Changed name of GO:0000945 from "<new term>" to "base pairing with snRNA"
  * Added comment "Note that with respect to annotation, "base pairing with RNA" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with other RNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function."
  * Set definition of GO:0000945 to "Interacting selectively with small nuclear ribonucleic acid (snRNA) via hydrogen bonds between the bases of a gene product molecule and the bases of a target snRNA molecule."
  * Added definition dbxref GOC:krc to GO:0000945
  * Copied GO:0000945 to GO:0000498 with type OBO_REL:is_a
  * Copied GO:0000945 to GO:0017069 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0000945
* Populated new object GO:0000946 (macro)
  * Changed name of GO:0000946 from "<new term>" to "base pairing with tRNA"
  * Added comment "Note that with respect to annotation, "base pairing with RNA" and its child terms are intended to be used to annotate the activity of gene products composed of nucleic acid, presumably RNA, to interact with other RNA molecules via base pairing. Internal base pairing with itself is considered part of the secondary structure of the molecule and is not within the scope of GO function."
  * Set definition of GO:0000946 to "Interacting selectively with transfer ribonucleic acid (mRNA) via hydrogen bonds between the bases of a gene product molecule and the bases of a target tRNA molecule."
  * Added definition dbxref GOC:krc to GO:0000946
  * Copied GO:0000946 to GO:0000049 with type OBO_REL:is_a
  * Copied GO:0000946 to GO:0000498 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0000946
* Populated new object GO:0010542 (macro)
  * Changed name of GO:0010542 from "<new term>" to "nitrate efflux transmembrane transporter activity"
  * Copied GO:0010542 to GO:0015562 with type OBO_REL:is_a
  * Copied GO:0010542 to GO:0015291 with type OBO_REL:is_a
  * Copied GO:0010542 to GO:0015113 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0010542
* Deleted GO:0000332 --OBO_REL:is_a--> GO:0003674
* Copied GO:0000332 to GO:0000497 with type OBO_REL:is_a
* Changed name of GO:0002017 from "aldosterone mediated regulation of blood volume" to "renal regulation of blood volume by aldosterone"
* Added definition dbxref GOC:dph to GO:0002017
* Added definition dbxref GOC:tb to GO:0002017
* Added synonym "aldosterone mediated regulation of blood volume" to GO:0002017
* Added general dbxref GOC:tb to synonym aldosterone mediated regulation of blood volume of GO:0002017
* Added general dbxref GOC:dph to synonym aldosterone mediated regulation of blood volume of GO:0002017
* Changed synonym scope of GO:0002017 from "Related" to "Exact"
* Changed name of GO:0007072 from "activation of transcription on exit from mitosis" to "positive regulation of transcription on exit from mitosis"
* Changed definition of GO:0007072 from "The cell cycle process whereby transcription is positively regulated as the cell leaves M phase. M phase is the part of the mitotic cell cycle during which mitosis and cytokinesis take place." to "Any process that increases the frequency, rate or extent of transcription as the cell leaves M phase. M phase is the part of the mitotic cell cycle during which mitosis and cytokinesis take place."
* Added definition dbxref GOC:dph to GO:0007072
* Added definition dbxref GOC:tb to GO:0007072
* Added synonym "activation of transcription on exit from mitosis" to GO:0007072
* Added general dbxref GOC:tb to synonym activation of transcription on exit from mitosis of GO:0007072
* Added general dbxref GOC:dph to synonym activation of transcription on exit from mitosis of GO:0007072
* Changed synonym scope of GO:0007072 from "Related" to "Narrow"
* Changed name of GO:0007073 from "activation of transcription on exit from mitosis, from RNA polymerase I promoter" to "positive regulation of transcription on exit from mitosis, from RNA polymerase I promoter"
* Set definition of GO:0007073 to "Any process that increases the frequency, rate or extent of transcription from an RNA polymerase I promoter as the cell leaves M phase. M phase is the part of the mitotic cell cycle during which mitosis and cytokinesis take place."
* Added definition dbxref GOC:dph to GO:0007073
* Added definition dbxref GOC:tb to GO:0007073
* Added general dbxref GOC:tb to synonym activation of transcription on exit from mitosis, from Pol I promoter of GO:0007073
* Added general dbxref GOC:dph to synonym activation of transcription on exit from mitosis, from Pol I promoter of GO:0007073
* Changed synonym scope of GO:0007073 from "Exact" to "Narrow"
* Added synonym "activation of transcription on exit from mitosis, from RNA polymerase I promoter" to GO:0007073
* Changed synonym scope of GO:0007073 from "Related" to "Narrow"
* Changed name of GO:0007074 from "activation of transcription on exit from mitosis, from RNA polymerase II promoter" to "positive regulation of transcription on exit from mitosis, from RNA polymerase II promoter"
* Set definition of GO:0007074 to "Any process that increases the frequency, rate or extent of transcription from an RNA polymerase II promoter as the cell leaves M phase. M phase is the part of the mitotic cell cycle during which mitosis and cytokinesis take place."
* Added definition dbxref GOC:dph to GO:0007074
* Added definition dbxref GOC:tb to GO:0007074
* Changed synonym scope of GO:0007074 from "Exact" to "Narrow"
* Added synonym "activation of transcription on exit from mitosis, from RNA polymerase II promoter" to GO:0007074
* Changed synonym scope of GO:0007074 from "Related" to "Narrow"
* Changed name of GO:0007075 from "activation of transcription on exit from mitosis, from RNA polymerase III promoter" to "positive regulation of transcription on exit from mitosis, from RNA polymerase III promoter"
* Set definition of GO:0007075 to "Any process that increases the frequency, rate or extent of transcription from an RNA polymerase III promoter as the cell leaves M phase. M phase is the part of the mitotic cell cycle during which mitosis and cytokinesis take place."
* Added definition dbxref GOC:dph to GO:0007075
* Added definition dbxref GOC:tb to GO:0007075
* Changed synonym scope of GO:0007075 from "Exact" to "Narrow"
* Added synonym "activation of transcription on exit from mitosis, from RNA polymerase III promoter" to GO:0007075
* Added general dbxref GOC:tb to synonym activation of transcription on exit from mitosis, from RNA polymerase III promoter of GO:0007075
* Added general dbxref GOC:dph to synonym activation of transcription on exit from mitosis, from RNA polymerase III promoter of GO:0007075
* Changed synonym scope of GO:0007075 from "Related" to "Narrow"
* Changed name of GO:0007190 from "adenylate cyclase activation" to "activation of adenylate cyclase activity"
* Added synonym "adenylate cyclase activation" to GO:0007190
* Added general dbxref GOC:tb to synonym adenylate cyclase activation of GO:0007190
* Added general dbxref GOC:dph to synonym adenylate cyclase activation of GO:0007190
* Changed synonym scope of GO:0007190 from "Related" to "Exact"
* Changed name of GO:0007221 from "activation of Notch receptor target transcription factor" to "positive regulation of transcription of Notch receptor target"
* Changed synonym scope of GO:0007221 from "Exact" to "Related"
* Changed synonym scope of GO:0007221 from "Exact" to "Related"
* Deleted GO:0007221 --OBO_REL:is_a--> GO:0051091
* Copied GO:0007221 to GO:0045944 with type OBO_REL:is_a
* Copied GO:0030533 to GO:0000499 with type OBO_REL:is_a
* Deleted GO:0030555 --OBO_REL:is_a--> GO:0003723
* Copied GO:0030555 to GO:0000498 with type OBO_REL:is_a
* Deleted GO:0030556 --OBO_REL:is_a--> GO:0019843
* Copied GO:0030556 to GO:0000944 with type OBO_REL:is_a
* Deleted GO:0030557 --OBO_REL:is_a--> GO:0000049
* Copied GO:0030557 to GO:0000946 with type OBO_REL:is_a
* Deleted GO:0030566 --OBO_REL:is_a--> GO:0017069
* Copied GO:0030566 to GO:0000945 with type OBO_REL:is_a
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"


From gocvs at genome.Stanford.EDU  Thu Feb 14 21:30:45 2008
From: gocvs at genome.Stanford.EDU (Remote CVS for Gene Ontology)
Date: Thu, 14 Feb 2008 21:30:45 -0800 (PST)
Subject: [go-diff] GO update 02/14/2008
Message-ID: <200802150530.VAA18449@bread.Stanford.EDU>

OBODIFF of gene_ontology_edit.obo version 5.692 by 5.694

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0060219
* Created object of type obo:TERM with id GO:0060220
* Created object of type obo:TERM with id GO:0060221
* Created object of type obo:TERM with id GO:0060222
* Created object of type obo:TERM with id GO:0060223
* Created object of type obo:TERM with id GO:0060224
* Created object of type obo:TERM with id GO:0060225
* Created object of type obo:TERM with id GO:0060226
* Created object of type obo:TERM with id GO:0060227
* Populated new object GO:0060219 (macro)
  * Changed name of GO:0060219 from "<new term>" to "camera-type eye photoreceptor cell differentiation"
  * Set definition of GO:0060219 to "The process whereby a relatively unspecialized cell acquires the specialized features of a photoreceptor cell in a camera-type eye."
  * Added definition dbxref GOC:dph to GO:0060219
  * Copied GO:0060219 to GO:0001754 with type OBO_REL:is_a
  * Copied GO:0060219 to GO:0060042 with type part_of
  * Assigned namespace "biological_process" to GO:0060219
* Populated new object GO:0060220 (macro)
  * Changed name of GO:0060220 from "<new term>" to "camera-type eye photoreceptor cell fate commitment"
  * Set definition of GO:0060220 to "The process whereby the developmental fate of a cell becomes
restricted such that it will develop into a photoreceptor cell in a camera-type eye."
  * Added definition dbxref GOC:dph to GO:0060220
  * Copied GO:0060220 to GO:0042706 with type OBO_REL:is_a
  * Copied GO:0060220 to GO:0060219 with type part_of
  * Assigned namespace "biological_process" to GO:0060220
* Populated new object GO:0060221 (macro)
  * Changed name of GO:0060221 from "<new term>" to "retinal rod cell differentiation"
  * Set definition of GO:0060221 to "The process whereby a relatively unspecialized cell acquires the specialized features of a retinal rod cell."
  * Added definition dbxref GOC:dph to GO:0060221
  * Copied GO:0060221 to GO:0060219 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060221
* Populated new object GO:0060222 (macro)
  * Changed name of GO:0060222 from "<new term>" to "regulation of retinal cone cell fate commitment"
  * Set definition of GO:0060222 to "Any process that modulates the process whereby a cell becomes commited to a retinal cone cell fate. Retinal cone cell fate commitment is the process whereby the developmental fate of a cell becomes restricted such that it will develop into a retinal cone cell."
  * Added definition dbxref GOC:dph to GO:0060222
  * Copied GO:0060222 to GO:0010453 with type OBO_REL:is_a
  * Copied GO:0060222 to GO:0046551 with type part_of
  * Assigned namespace "biological_process" to GO:0060222
* Populated new object GO:0060223 (macro)
  * Changed name of GO:0060223 from "<new term>" to "retinal rod cell fate commitment"
  * Set definition of GO:0060223 to "The process whereby the developmental fate of a cell becomes restricted such that it will develop into a retinal rod cell. A retinal rod cell is one of the two photoreceptor subtypes in a camera-type eye."
  * Added definition dbxref GOC:dph to GO:0060223
  * Copied GO:0060223 to GO:0060220 with type OBO_REL:is_a
  * Copied GO:0060223 to GO:0060221 with type part_of
  * Assigned namespace "biological_process" to GO:0060223
* Populated new object GO:0060224 (macro)
  * Changed name of GO:0060224 from "<new term>" to "regulation of retinal rod cell fate commitment"
  * Set definition of GO:0060224 to "Any process that modulates the process whereby the developmental fate of a cell becomes restricted such that it will develop into a retinal rod cell. A retinal rod cell is one of the two photoreceptor subtypes in a camera-type eye."
  * Added definition dbxref GOC:dph to GO:0060224
  * Copied GO:0060224 to GO:0010453 with type OBO_REL:is_a
  * Copied GO:0060224 to GO:0060223 with type part_of
  * Assigned namespace "biological_process" to GO:0060224
* Populated new object GO:0060225 (macro)
  * Changed name of GO:0060225 from "<new term>" to "positive regulation of retinal rod cell fate commitment"
  * Set definition of GO:0060225 to "Any process that increases the process whereby the developmental fate of a cell becomes restricted such that it will develop into a retinal rod cell. A retinal rod cell is one of the two photoreceptor subtypes in a camera-type eye."
  * Added definition dbxref GOC:dph to GO:0060225
  * Copied GO:0060225 to GO:0060224 with type OBO_REL:is_a
  * Copied GO:0060225 to GO:0010455 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060225
* Populated new object GO:0060226 (macro)
  * Changed name of GO:0060226 from "<new term>" to "negative regulation of retinal cone cell fate commitment"
  * Set definition of GO:0060226 to "Any process that increases the process whereby a cell becomes commited to a retinal cone cell fate. Retinal cone cell fate commitment is the process whereby the developmental fate of a cell becomes restricted such that it will develop into a retinal cone cell."
  * Added definition dbxref GOC:dph to GO:0060226
  * Copied GO:0060226 to GO:0060222 with type OBO_REL:is_a
  * Copied GO:0060226 to GO:0010454 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060226
* Populated new object GO:0060227 (macro)
  * Changed name of GO:0060227 from "<new term>" to "Notch signaling pathway involved in camera-type eye photoreceptor fate commitment"
  * Set definition of GO:0060227 to "The series of molecular signals initiated by binding of an extracellular ligand to a Notch receptor on the surface of the target cell that contributes to the commitment of a precursor cell to a eye photoreceptor fate."
  * Added definition dbxref GOC:dph to GO:0060227
  * Copied GO:0060227 to GO:0060220 with type part_of
  * Copied GO:0060227 to GO:0007219 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060227
* Deleted GO:0001905 --OBO_REL:is_a--> GO:0019835
* Changed name of GO:0007092 from "anaphase-promoting complex activation during mitotic cell cycle" to "activation of anaphase-promoting complex during mitotic cell cycle"
* Changed definition of GO:0007092 from "Any process that activates, maintains or increases the rate of the ubiquitin ligase activity of the anaphase-promoting complex during the mitotic cell cycle." to "Any process that initiates the ubiquitin ligase activity of the anaphase-promoting complex during the mitotic cell cycle."
* Added definition dbxref GOC:dph to GO:0007092
* Added definition dbxref GOC:tb to GO:0007092
* Added synonym "anaphase-promoting complex activation during mitotic cell cycle" to GO:0007092
* Changed synonym scope of GO:0007092 from "Related" to "Exact"
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"
* Deleted GO:0042670 --part_of--> GO:0060042
* Deleted GO:0042670 --OBO_REL:is_a--> GO:0001754
* Copied GO:0042670 to GO:0060219 with type OBO_REL:is_a
* Changed definition of GO:0046551 from "The process whereby the developmental fate of a cell becomes restricted such that it will develop into a camera-style eye photoreceptor cell. A photoreceptor cell is a cell that responds to incident electromagnetic radiation. Different classes of photoreceptor have different spectral sensitivities and express different photosensitive pigments." to "The process whereby the developmental fate of a cell becomes restricted such that it will develop into a retinal cone cell. A retinal cone cell is one of the two photoreceptor subtypes in a camera-type eye."
* Deleted GO:0046551 --OBO_REL:is_a--> GO:0042706
* Copied GO:0046551 to GO:0060220 with type OBO_REL:is_a
* Changed name of GO:0051487 from "anaphase-promoting complex activation during meiotic cell cycle" to "activation of anaphase-promoting complex during meiotic cell cycle"
* Changed definition of GO:0051487 from "Any process that initiatiates the ubiquitin ligase activity of the anaphase-promoting complex during the meiotic cell cycle." to "Any process that initiates the ubiquitin ligase activity of the anaphase-promoting complex during the meiotic cell cycle."
* Added definition dbxref GOC:dph to GO:0051487
* Added definition dbxref GOC:tb to GO:0051487
* Added synonym "anaphase-promoting complex activation during meiotic cell cycle" to GO:0051487
* Changed synonym scope of GO:0051487 from "Related" to "Exact"
* Changed name of GO:0051488 from "anaphase-promoting complex activation" to "activation of anaphase-promoting complex"
* Changed definition of GO:0051488 from "Any process that initiatiates the ubiquitin ligase activity of the anaphase-promoting complex." to "Any process that initiates the ubiquitin ligase activity of the anaphase-promoting complex."
* Added definition dbxref GOC:dph to GO:0051488
* Added definition dbxref GOC:tb to GO:0051488
* Added synonym "anaphase-promoting complex activation" to GO:0051488
* Changed synonym scope of GO:0051488 from "Related" to "Exact"


From gocvs at genome.Stanford.EDU  Fri Feb 15 21:30:45 2008
From: gocvs at genome.Stanford.EDU (Remote CVS for Gene Ontology)
Date: Fri, 15 Feb 2008 21:30:45 -0800 (PST)
Subject: [go-diff] GO update 02/15/2008
Message-ID: <200802160530.VAA06277@bread.Stanford.EDU>

OBODIFF of gene_ontology_edit.obo version 5.694 by 5.697

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0010543
* Created object of type obo:TERM with id GO:0010544
* Created object of type obo:TERM with id GO:0010545
* Created object of type obo:TERM with id GO:0010546
* Created object of type obo:TERM with id GO:0010547
* Created object of type obo:TERM with id GO:0010548
* Created object of type obo:TERM with id GO:0010549
* Created object of type obo:TERM with id GO:0010550
* Created object of type obo:TERM with id GO:0010551
* Created object of type obo:TERM with id GO:0010552
* Created object of type obo:TERM with id GO:0010553
* Created object of type obo:TERM with id GO:0034262
* Created object of type obo:TERM with id GO:0034263
* Created object of type obo:TERM with id GO:0034264
* Created object of type obo:TERM with id GO:0034265
* Created object of type obo:TERM with id GO:0034266
* Created object of type obo:TERM with id GO:0034267
* Created object of type obo:TERM with id GO:0034268
* Created object of type obo:TERM with id GO:0034269
* Populated new object GO:0010543 (macro)
  * Changed name of GO:0010543 from "<new term>" to "regulation of platelet activation"
  * Set definition of GO:0010543 to "Any process that modulates the rate or frequency of platelet activation. Platelet activation is a series of progressive, overlapping events triggered by exposure of the platelets to subendothelial tissue."
  * Added definition dbxref GOC:dph to GO:0010543
  * Added definition dbxref GOC:tb to GO:0010543
  * Copied GO:0010543 to GO:0050865 with type OBO_REL:is_a
  * Copied GO:0010543 to GO:0030168 with type part_of
  * Assigned namespace "biological_process" to GO:0010543
* Populated new object GO:0010544 (macro)
  * Changed name of GO:0010544 from "<new term>" to "negative regulation of platelet activation"
  * Set definition of GO:0010544 to "Any process that decreases the rate or frequency of platelet activation. Platelet activation is a series of progressive, overlapping events triggered by exposure of the platelets to subendothelial tissue."
  * Added definition dbxref GOC:dph to GO:0010544
  * Added definition dbxref GOC:tb to GO:0010544
  * Copied GO:0010544 to GO:0030195 with type OBO_REL:is_a
  * Copied GO:0010544 to GO:0010543 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010544
* Populated new object GO:0010545 (macro)
  * Changed name of GO:0010545 from "<new term>" to "Hsp90 protein regulator activity"
  * Set definition of GO:0010545 to "Binds to and modulates the activity of the molecular chaperone Hsp90."
  * Added definition dbxref GOC:dph to GO:0010545
  * Added definition dbxref GOC:tb to GO:0010545
  * Added definition dbxref PMID:11146632 to GO:0010545
  * Copied GO:0010545 to GO:0030188 with type OBO_REL:is_a
  * Copied GO:0010545 to GO:0051879 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0010545
* Populated new object GO:0010546 (macro)
  * Changed name of GO:0010546 from "<new term>" to "Hsp90 protein inhibitor activity"
  * Set definition of GO:0010546 to "Stops, prevents or reduces the activity of the Hsp90 molecular chaperone."
  * Added definition dbxref GOC:dph to GO:0010546
  * Added definition dbxref GOC:tb to GO:0010546
  * Added definition dbxref PMID:11146632 to GO:0010546
  * Copied GO:0010546 to GO:0030190 with type OBO_REL:is_a
  * Copied GO:0010546 to GO:0010545 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0010546
* Populated new object GO:0010547 (macro)
  * Changed name of GO:0010547 from "<new term>" to "thylakoid membrane disassembly"
  * Set definition of GO:0010547 to "The controlled breakdown of the thylakoid membrane in the context of a normal process."
  * Added definition dbxref GOC:dph to GO:0010547
  * Added definition dbxref GOC:tb to GO:0010547
  * Added definition dbxref PMID:17416733 to GO:0010547
  * Added synonym "thylakoid membrane degradation" to GO:0010547
  * Added general dbxref GOC:tb to synonym thylakoid membrane degradation of GO:0010547
  * Added general dbxref GOC:dph to synonym thylakoid membrane degradation of GO:0010547
  * Changed synonym scope of GO:0010547 from "Related" to "Exact"
  * Copied GO:0010547 to GO:0030397 with type OBO_REL:is_a
  * Copied GO:0010547 to GO:0010027 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010547
* Populated new object GO:0010548 (macro)
  * Changed name of GO:0010548 from "<new term>" to "regulation of thylakoid membrane disassembly"
  * Set definition of GO:0010548 to "Any process that modulates the frequency, rate or extent of thylakoid membrane disassembly."
  * Added definition dbxref GOC:dph to GO:0010548
  * Added definition dbxref GOC:tb to GO:0010548
  * Added definition dbxref PMID:17416733 to GO:0010548
  * Added synonym "regulation of thylakoid membrane degradation" to GO:0010548
  * Added general dbxref GOC:tb to synonym regulation of thylakoid membrane degradation of GO:0010548
  * Added general dbxref GOC:dph to synonym regulation of thylakoid membrane degradation of GO:0010548
  * Changed synonym scope of GO:0010548 from "Related" to "Exact"
  * Copied GO:0010548 to GO:0033043 with type OBO_REL:is_a
  * Copied GO:0010548 to GO:0010547 with type part_of
  * Copied GO:0010548 to GO:0010549 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010548
* Populated new object GO:0010549 (macro)
  * Changed name of GO:0010549 from "<new term>" to "regulation of membrane disassembly"
  * Set definition of GO:0010549 to "Any process that modulates the frequency, rate or extent of membrane disassembly."
  * Added definition dbxref GOC:dph to GO:0010549
  * Added definition dbxref GOC:tb to GO:0010549
  * Copied GO:0010549 to GO:0030397 with type part_of
  * Copied GO:0010549 to GO:0051128 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010549
* Populated new object GO:0010550 (macro)
  * Changed name of GO:0010550 from "<new term>" to "regulation of PSII associated light-harvesting complex II catabolic process"
  * Set definition of GO:0010550 to "Any process that modulates the catabolism of one or more components of the light-harvesting complex of photosystem II."
  * Added definition dbxref GOC:dph to GO:0010550
  * Added definition dbxref GOC:tb to GO:0010550
  * Added synonym "regulation of LHCII catabolism" to GO:0010550
  * Added general dbxref PMID:17416733 to synonym regulation of LHCII catabolism of GO:0010550
  * Added general dbxref GOC:tb to synonym regulation of LHCII catabolism of GO:0010550
  * Added general dbxref GOC:dph to synonym regulation of LHCII catabolism of GO:0010550
  * Changed synonym scope of GO:0010550 from "Related" to "Exact"
  * Added synonym "regulation of LHCII degradation" to GO:0010550
  * Added general dbxref PMID:17416733 to synonym regulation of LHCII degradation of GO:0010550
  * Changed synonym scope of GO:0010550 from "Related" to "Exact"
  * Copied GO:0010550 to GO:0031329 with type OBO_REL:is_a
  * Copied GO:0010550 to GO:0010304 with type part_of
  * Assigned namespace "biological_process" to GO:0010550
* Populated new object GO:0010551 (macro)
  * Changed name of GO:0010551 from "<new term>" to "regulation of specific transcription from RNA polymerase II promoter"
  * Set definition of GO:0010551 to "Any process that modulates the frequency, rate or extent of the specifically regulated synthesis of RNA from DNA encoding a specific gene or set of genes by RNA polymerase II (Pol II), originating at a Pol II-specific promoter."
  * Added definition dbxref GOC:dph to GO:0010551
  * Added definition dbxref GOC:tb to GO:0010551
  * Copied GO:0010551 to GO:0006357 with type OBO_REL:is_a
  * Copied GO:0010551 to GO:0032569 with type part_of
  * Assigned namespace "biological_process" to GO:0010551
* Populated new object GO:0010552 (macro)
  * Changed name of GO:0010552 from "<new term>" to "positive regulation of specific transcription from RNA polymerase II promoter"
  * Set definition of GO:0010552 to "Any process that increases the frequency, rate or extent of the specifically regulated synthesis of RNA from DNA encoding a specific gene or set of genes by RNA polymerase II (Pol II), originating at a Pol II-specific promoter."
  * Added definition dbxref GOC:dph to GO:0010552
  * Added definition dbxref GOC:tb to GO:0010552
  * Copied GO:0010552 to GO:0010551 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010552
* Populated new object GO:0010553 (macro)
  * Changed name of GO:0010553 from "<new term>" to "negative regulation of specific transcription from RNA polymerase II promoter"
  * Set definition of GO:0010553 to "Any process that decreases the frequency, rate or extent of the specifically regulated synthesis of RNA from DNA encoding a specific gene or set of genes by RNA polymerase II (Pol II), originating at a Pol II-specific promoter."
  * Added definition dbxref GOC:dph to GO:0010553
  * Added definition dbxref GOC:tb to GO:0010553
  * Copied GO:0010553 to GO:0010551 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010553
* Populated new object GO:0034262 (macro)
  * Changed name of GO:0034262 from "<new term>" to "autophagy in response to cellular starvation"
  * Set definition of GO:0034262 to "The process by which cells digest parts of their own cytoplasm in response to deprivation of nourishment."
  * Added definition dbxref GOC:mah to GO:0034262
  * Copied GO:0034262 to GO:0009267 with type OBO_REL:is_a
  * Copied GO:0034262 to GO:0006914 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034262
* Populated new object GO:0034263 (macro)
  * Changed name of GO:0034263 from "<new term>" to "autophagy in response to ER overload"
  * Set definition of GO:0034263 to "The process by which cells digest parts of their own cytoplasm in response to the accumulation of misfolded proteins in the endoplasmic reticulum."
  * Added definition dbxref GOC:mah to GO:0034263
  * Added synonym "autophagy in response to endoplasmic reticulum overload" to GO:0034263
  * Changed synonym scope of GO:0034263 from "Related" to "Exact"
  * Added synonym "autophagy in response to ER stress" to GO:0034263
  * Changed synonym scope of GO:0034263 from "Related" to "Exact"
  * Copied GO:0034263 to GO:0006983 with type OBO_REL:is_a
  * Copied GO:0034263 to GO:0006914 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034263
* Populated new object GO:0034264 (macro)
  * Changed name of GO:0034264 from "<new term>" to "isopentenyl adenine metabolic process"
  * Set definition of GO:0034264 to "The chemical reactions and pathways involving the cytokinin 6-isopentenyladenine."
  * Added definition dbxref GOC:mah to GO:0034264
  * Added definition dbxref PMID:18216168 to GO:0034264
  * Added synonym "isopentenyl adenine metabolism" to GO:0034264
  * Changed synonym scope of GO:0034264 from "Related" to "Exact"
  * Added synonym "isopentenyladenine metabolic process" to GO:0034264
  * Changed synonym scope of GO:0034264 from "Related" to "Exact"
  * Copied GO:0034264 to GO:0009690 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034264
* Populated new object GO:0034265 (macro)
  * Changed name of GO:0034265 from "<new term>" to "isopentenyl adenine biosynthetic process"
  * Set definition of GO:0034265 to "The chemical reactions and pathways resulting in the formation of the cytokinin 6-isopentenyladenine."
  * Added definition dbxref GOC:mah to GO:0034265
  * Added definition dbxref PMID:18216168 to GO:0034265
  * Added GO:0034265 to category gosubset_prok
  * Added synonym "isopentenyl adenine anabolism" to GO:0034265
  * Changed synonym scope of GO:0034265 from "Related" to "Exact"
  * Added synonym "isopentenyl adenine biosynthesis" to GO:0034265
  * Changed synonym scope of GO:0034265 from "Related" to "Exact"
  * Added synonym "isopentenyl adenine formation" to GO:0034265
  * Changed synonym scope of GO:0034265 from "Related" to "Exact"
  * Added synonym "isopentenyl adenine synthesis" to GO:0034265
  * Changed synonym scope of GO:0034265 from "Related" to "Exact"
  * Added synonym "isopentenyladenine biosynthetic process" to GO:0034265
  * Changed synonym scope of GO:0034265 from "Related" to "Exact"
  * Copied GO:0034265 to GO:0009691 with type OBO_REL:is_a
  * Copied GO:0034265 to GO:0034264 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034265
* Populated new object GO:0034266 (macro)
  * Changed name of GO:0034266 from "<new term>" to "isopentenyl adenine catabolic process"
  * Set definition of GO:0034266 to "The chemical reactions and pathways resulting in the breakdown of the cytokinin 6-isopentenyladenine."
  * Added definition dbxref GOC:mah to GO:0034266
  * Added definition dbxref PMID:18216168 to GO:0034266
  * Added GO:0034266 to category gosubset_prok
  * Added synonym "isopentenyl adenine breakdown" to GO:0034266
  * Changed synonym scope of GO:0034266 from "Related" to "Exact"
  * Added synonym "isopentenyl adenine catabolism" to GO:0034266
  * Changed synonym scope of GO:0034266 from "Related" to "Exact"
  * Added synonym "isopentenyl adenine degradation" to GO:0034266
  * Changed synonym scope of GO:0034266 from "Related" to "Exact"
  * Added synonym "isopentenyl adenine synthesis" to GO:0034266
  * Changed synonym scope of GO:0034266 from "Related" to "Exact"
  * Added synonym "isopentenyladenine catabolic process" to GO:0034266
  * Changed synonym scope of GO:0034266 from "Related" to "Exact"
  * Copied GO:0034266 to GO:0009823 with type OBO_REL:is_a
  * Copied GO:0034266 to GO:0034264 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034266
* Populated new object GO:0034267 (macro)
  * Changed name of GO:0034267 from "<new term>" to "discadenine metabolic process"
  * Set definition of GO:0034267 to "The chemical reactions and pathways involving discadenine, (2S)-2-amino-4-{6-[(3-methylbut-2-en-1-yl)amino]-3H-purin-3-yl}butanoic acid."
  * Added definition dbxref ChEBI:15955 to GO:0034267
  * Added definition dbxref GOC:mah to GO:0034267
  * Added synonym "discadenine metabolism" to GO:0034267
  * Changed synonym scope of GO:0034267 from "Related" to "Exact"
  * Copied GO:0034267 to GO:0009690 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034267
* Populated new object GO:0034268 (macro)
  * Changed name of GO:0034268 from "<new term>" to "discadenine biosynthetic process"
  * Set definition of GO:0034268 to "The chemical reactions and pathways resulting in the formation of discadenine, (2S)-2-amino-4-{6-[(3-methylbut-2-en-1-yl)amino]-3H-purin-3-yl}butanoic acid."
  * Added definition dbxref ChEBI:15955 to GO:0034268
  * Added definition dbxref GOC:mah to GO:0034268
  * Added synonym "discadenine anabolism" to GO:0034268
  * Changed synonym scope of GO:0034268 from "Related" to "Exact"
  * Added synonym "discadenine biosynthesis" to GO:0034268
  * Changed synonym scope of GO:0034268 from "Related" to "Exact"
  * Added synonym "discadenine formation" to GO:0034268
  * Changed synonym scope of GO:0034268 from "Related" to "Exact"
  * Added synonym "discadenine synthesis" to GO:0034268
  * Changed synonym scope of GO:0034268 from "Related" to "Exact"
  * Copied GO:0034268 to GO:0034267 with type OBO_REL:is_a
  * Copied GO:0034268 to GO:0009691 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034268
* Populated new object GO:0034269 (macro)
  * Changed name of GO:0034269 from "<new term>" to "discadenine catabolic process"
  * Set definition of GO:0034269 to "The chemical reactions and pathways resulting in the breakdown of discadenine, (2S)-2-amino-4-{6-[(3-methylbut-2-en-1-yl)amino]-3H-purin-3-yl}butanoic acid."
  * Added definition dbxref ChEBI:15955 to GO:0034269
  * Added definition dbxref GOC:mah to GO:0034269
  * Added synonym "discadenine breakdown" to GO:0034269
  * Changed synonym scope of GO:0034269 from "Related" to "Exact"
  * Added synonym "discadenine catabolism" to GO:0034269
  * Changed synonym scope of GO:0034269 from "Related" to "Exact"
  * Added synonym "discadenine degradation" to GO:0034269
  * Changed synonym scope of GO:0034269 from "Related" to "Exact"
  * Copied GO:0034269 to GO:0009823 with type OBO_REL:is_a
  * Copied GO:0034269 to GO:0034267 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034269
* Copied GO:0000271 to GO:0009059 with type OBO_REL:is_a
* Copied GO:0001309 to GO:0006259 with type OBO_REL:is_a
* Deleted GO:0005975 --OBO_REL:is_a--> GO:0043170
* Copied GO:0005976 to GO:0043170 with type OBO_REL:is_a
* Copied GO:0007329 to GO:0010552 with type OBO_REL:is_a
* Changed definition of GO:0009057 from "The chemical reactions and pathways resulting in the breakdown of a macromolecule, any large molecule including proteins, nucleic acids and carbohydrates." to "The chemical reactions and pathways resulting in the breakdown of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass."
* Deleted definition dbxref GOC:jl from GO:0009057
* Deleted definition dbxref http://cancerweb.ncl.ac.uk from GO:0009057
* Added definition dbxref ChEBI:33839 to GO:0009057
* Added definition dbxref GOC:mah to GO:0009057
* Changed definition of GO:0009059 from "The chemical reactions and pathways resulting in the formation of macromolecules, large molecules including proteins, nucleic acids and carbohydrates." to "The chemical reactions and pathways resulting in the formation of a macromolecule, any molecule of high relative molecular mass, the structure of which essentially comprises the multiple repetition of units derived, actually or conceptually, from molecules of low relative molecular mass."
* Deleted definition dbxref GOC:jl from GO:0009059
* Deleted definition dbxref http://cancerweb.ncl.ac.uk from GO:0009059
* Added definition dbxref ChEBI:33839 to GO:0009059
* Added definition dbxref GOC:mah to GO:0009059
* Deleted GO:0016051 --OBO_REL:is_a--> GO:0009059
* Deleted GO:0016052 --OBO_REL:is_a--> GO:0009057
* Deleted GO:0016947 --OBO_REL:is_a--> GO:0016645
* Destroyed object GO:0016947
* Changed definition of GO:0018958 from "The chemical reactions and pathways involving phenol, any compound containing one or more hydroxyl groups directly attached to an aromatic carbon ring. The largest single use of phenol is in the production of plastics, but it is also used in the synthesis of caprolactam, a precursor for nylon 6 and other man-made fibers." to "The chemical reactions and pathways involving a phenol, a