[Go-diff] GO update 04/27/2009

Remote CVS for Gene Ontology gocvs at genome.stanford.edu
Mon Apr 27 21:30:54 PDT 2009 

OBODIFF of gene_ontology_write.obo version 1.563 by 1.567

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0010946
* Created object of type obo:TERM with id GO:0010947
* Created object of type obo:TERM with id GO:0010948
* Created object of type obo:TERM with id GO:0010949
* Created object of type obo:TERM with id GO:0010950
* Created object of type obo:TERM with id GO:0010951
* Created object of type obo:TERM with id GO:0010952
* Created object of type obo:TERM with id GO:0010953
* Created object of type obo:TERM with id GO:0010954
* Created object of type obo:TERM with id GO:0010955
* Created object of type obo:TERM with id GO:0080111
* Created object of type obo:TERM with id GO:0080112
* Created object of type obo:TERM with id GO:0080113
* Created object of type obo:TERM with id GO:0080114
* Created object of type obo:TERM with id GO:0080115
* Created object of type obo:TERM with id GO:0080116
* Created object of type obo:TERM with id GO:0080117
* Created object of type obo:TERM with id GO:0080118
* Created object of type obo:TERM with id GO:0080119
* Populated new object GO:0010946 (macro)
  * Changed name of GO:0010946 from "<new term>" to "regulation of meiotic joint molecule formation"
  * Set definition of GO:0010946 to "Any process that modulates the frequency, rate or extent of meiotic joint molecule formation. Meiotic joint molecule formation is the conversion of the paired broken DNA and homologous duplex DNA into a four-stranded branched intermediate, known as a joint molecule, formed during meiotic recombination."
  * Added definition dbxref GOC:dph to GO:0010946
  * Added definition dbxref GOC:tb to GO:0010946
  * Copied GO:0010946 to GO:0000709 with type regulates
  * Copied GO:0010946 to GO:0010564 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010946
* Populated new object GO:0010947 (macro)
  * Changed name of GO:0010947 from "<new term>" to "negative regulation of meiotic joint molecule formation"
  * Set definition of GO:0010947 to "Any process that decreases the frequency, rate or extent of meiotic joint molecule formation. Meiotic joint molecule formation is the conversion of the paired broken DNA and homologous duplex DNA into a four-stranded branched intermediate, known as a joint molecule, formed during meiotic recombination."
  * Added definition dbxref GOC:dph to GO:0010947
  * Added definition dbxref GOC:tb to GO:0010947
  * Copied GO:0010947 to GO:0010948 with type OBO_REL:is_a
  * Copied GO:0010947 to GO:0010946 with type OBO_REL:is_a
  * Copied GO:0010947 to GO:0000709 with type negatively_regulates
  * Assigned namespace "biological_process" to GO:0010947
* Populated new object GO:0010948 (macro)
  * Changed name of GO:0010948 from "<new term>" to "negative regulation of cell cycle process"
  * Set definition of GO:0010948 to "Any process that decreases the rate, frequency or extent of a cellular process that is involved in the progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events."
  * Added definition dbxref GOC:dph to GO:0010948
  * Added definition dbxref GOC:tb to GO:0010948
  * Copied GO:0010948 to GO:0010564 with type OBO_REL:is_a
  * Copied GO:0010948 to GO:0022402 with type negatively_regulates
  * Assigned namespace "biological_process" to GO:0010948
* Populated new object GO:0010949 (macro)
  * Changed name of GO:0010949 from "<new term>" to "negative regulation of intestinal phytosterol absorption"
  * Set definition of GO:0010949 to "Any process that stops, prevents or reduces the frequency, rate or extent of the directed movement of phytosterols into the blood by absorption from the small intestine."
  * Added definition dbxref GOC:dph to GO:0010949
  * Added definition dbxref GOC:tb to GO:0010949
  * Copied GO:0010949 to GO:0032372 with type OBO_REL:is_a
  * Copied GO:0010949 to GO:0050892 with type negatively_regulates
  * Assigned namespace "biological_process" to GO:0010949
* Populated new object GO:0010950 (macro)
  * Changed name of GO:0010950 from "<new term>" to "positive regulation of endopeptidase activity"
  * Set definition of GO:0010950 to "Any process that increases the frequency, rate or extent of endopeptidase activity, the endohydrolysis of peptide bonds within proteins."
  * Added definition dbxref GOC:dph to GO:0010950
  * Added definition dbxref GOC:tb to GO:0010950
  * Copied GO:0010950 to GO:0052548 with type OBO_REL:is_a
  * Copied GO:0010950 to GO:0004175 with type positively_regulates
  * Copied GO:0010950 to GO:0010952 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010950
* Populated new object GO:0010951 (macro)
  * Changed name of GO:0010951 from "<new term>" to "negative regulation of endopeptidase activity"
  * Set definition of GO:0010951 to "Any process that decreases the frequency, rate or extent of endopeptidase activity, the endohydrolysis of peptide bonds within proteins."
  * Added definition dbxref GOC:dph to GO:0010951
  * Added definition dbxref GOC:tb to GO:0010951
  * Copied GO:0010951 to GO:0052548 with type OBO_REL:is_a
  * Copied GO:0010951 to GO:0004175 with type negatively_regulates
  * Copied GO:0010951 to GO:0010466 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010951
* Populated new object GO:0010952 (macro)
  * Changed name of GO:0010952 from "<new term>" to "positive regulation of peptidase activity"
  * Set definition of GO:0010952 to "Any process that increases the frequency, rate or extent of peptidase activity, the hydrolysis of peptide bonds within proteins."
  * Added definition dbxref GOC:dph to GO:0010952
  * Added definition dbxref GOC:tb to GO:0010952
  * Copied GO:0010952 to GO:0008233 with type positively_regulates
  * Copied GO:0010952 to GO:0052547 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010952
* Populated new object GO:0010953 (macro)
  * Changed name of GO:0010953 from "<new term>" to "regulation of protein maturation by proteolysis"
  * Set definition of GO:0010953 to "Any process that modulates the rate, frequency or extent of protein maturation by proteolysis. Protein maturation by proteolysis is the hydrolysis of a peptide bond or bonds within a protein during protein maturation, the process leading to the attainment of the full functional capacity of a protein."
  * Added definition dbxref GOC:dph to GO:0010953
  * Added definition dbxref GOC:tb to GO:0010953
  * Copied GO:0010953 to GO:0030162 with type OBO_REL:is_a
  * Copied GO:0010953 to GO:0051605 with type regulates
  * Assigned namespace "biological_process" to GO:0010953
* Populated new object GO:0010954 (macro)
  * Changed name of GO:0010954 from "<new term>" to "positive regulation of protein maturation by proteolysis"
  * Set definition of GO:0010954 to "Any process that increases the rate, frequency or extent of protein maturation by proteolysis. Protein maturation by proteolysis is the hydrolysis of a peptide bond or bonds within a protein during protein maturation, the process leading to the attainment of the full functional capacity of a protein."
  * Added definition dbxref GOC:dph to GO:0010954
  * Added definition dbxref GOC:tb to GO:0010954
  * Copied GO:0010954 to GO:0010953 with type OBO_REL:is_a
  * Copied GO:0010954 to GO:0045862 with type OBO_REL:is_a
  * Copied GO:0010954 to GO:0051605 with type positively_regulates
  * Assigned namespace "biological_process" to GO:0010954
* Populated new object GO:0010955 (macro)
  * Changed name of GO:0010955 from "<new term>" to "negative regulation of protein maturation by proteolysis"
  * Set definition of GO:0010955 to "Any process that decreases the rate, frequency or extent of protein maturation by proteolysis. Protein maturation by proteolysis is the hydrolysis of a peptide bond or bonds within a protein during protein maturation, the process leading to the attainment of the full functional capacity of a protein."
  * Added definition dbxref GOC:dph to GO:0010955
  * Added definition dbxref GOC:tb to GO:0010955
  * Copied GO:0010955 to GO:0010953 with type OBO_REL:is_a
  * Copied GO:0010955 to GO:0045861 with type OBO_REL:is_a
  * Copied GO:0010955 to GO:0051605 with type negatively_regulates
  * Assigned namespace "biological_process" to GO:0010955
* Populated new object GO:0080111 (macro)
  * Changed name of GO:0080111 from "<new term>" to "DNA demethylation"
  * Set definition of GO:0080111 to "The removal of a methyl group from C-5 or N-4 of cytosine or N-6 of adenine in a DNA molecule."
  * Added definition dbxref PMID:17208187 to GO:0080111
  * Copied GO:0080111 to GO:0006304 with type OBO_REL:is_a
  * Copied GO:0080111 to GO:0040029 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0080111
* Populated new object GO:0080112 (macro)
  * Changed name of GO:0080112 from "<new term>" to "seed growth"
  * Set definition of GO:0080112 to "The increase in size or mass of a seed. Seed is a propagating organ formed in the reproductive cycle of gymnosperms and angiosperms, derived from the ovule and enclosing an embryo."
  * Added definition dbxref GOC:DHL to GO:0080112
  * Added definition dbxref PO:0009010 to GO:0080112
  * Copied GO:0080112 to GO:0035265 with type OBO_REL:is_a
  * Copied GO:0080112 to GO:0048316 with type part_of
  * Assigned namespace "biological_process" to GO:0080112
* Populated new object GO:0080113 (macro)
  * Changed name of GO:0080113 from "<new term>" to "regulation of seed growth"
  * Set definition of GO:0080113 to "Any process that modulates the frequency, rate or extent of growth of the seed of an plant."
  * Added definition dbxref PMID:19141706 to GO:0080113
  * Added synonym "regulation of seed size" to GO:0080113
  * Changed synonym scope of GO:0080113 from "Related" to "Exact"
  * Copied GO:0080113 to GO:0080112 with type regulates
  * Copied GO:0080113 to GO:0046620 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0080113
* Populated new object GO:0080114 (macro)
  * Changed name of GO:0080114 from "<new term>" to "positive regulation of glycine hydroxymethyltransferase activity"
  * Set definition of GO:0080114 to "Any process that activates or increases the frequency, rate or extent of glycine hydroxymethyltransferase activity, the catalysis of the reaction 5,10-methylenetetrahydrofolate + glycine + H2O = tetrahydrofolate + L-serine."
  * Added definition dbxref E.C.:2.1.2.1 to GO:0080114
  * Added definition dbxref PMID:19223513 to GO:0080114
  * Copied GO:0080114 to GO:0004372 with type positively_regulates
  * Copied GO:0080114 to GO:0051347 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0080114
* Populated new object GO:0080115 (macro)
  * Changed name of GO:0080115 from "<new term>" to "myosin XI tail binding"
  * Set definition of GO:0080115 to "Interacting selectively with the tail region of a myosin XI heavy chain."
  * Added definition dbxref PMID:18703495 to GO:0080115
  * Copied GO:0080115 to GO:0032029 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0080115
* Populated new object GO:0080116 (macro)
  * Changed name of GO:0080116 from "<new term>" to "glucuronoxylan glucuronosyltransferase activity"
  * Set definition of GO:0080116 to "Catalysis of the transfer of glucuronate to the xylan backbone of glucuronoxylan molecule."
  * Added definition dbxref PMID:18980649 to GO:0080116
  * Copied GO:0080116 to GO:0015020 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0080116
* Populated new object GO:0080117 (macro)
  * Changed name of GO:0080117 from "<new term>" to "secondary growth"
  * Set definition of GO:0080117 to "Increase in plant girth due to the activity of lateral meristems (vascular and cork cambium)."
  * Added definition dbxref PMID:19074290 to GO:0080117
  * Copied GO:0080117 to GO:0040007 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0080117
* Populated new object GO:0080118 (macro)
  * Changed name of GO:0080118 from "<new term>" to "brassinosteroid sulfotransferase activity"
  * Set definition of GO:0080118 to "Catalysis of the transfer of a sulfate group from 3'-phosphoadenosine 5'-phosphosulfate to the hydroxyl group of a brassinosteroid acceptor, producing the sulfated brassinosteroid derivative and 3'-phosphoadenosine 5'-phosphate."
  * Added definition dbxref ChEBI:22921 to GO:0080118
  * Added definition dbxref PMID:10409637 to GO:0080118
  * Added definition dbxref PMID:17039368 to GO:0080118
  * Copied GO:0080118 to GO:0008146 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0080118
* Populated new object GO:0080119 (macro)
  * Changed name of GO:0080119 from "<new term>" to "ER body organization"
  * Set definition of GO:0080119 to "A process that is carried out at the cellular level which results in the formation of ER (endoplasmic reticulum) body. ER body is a compartment found in plant cells that is derived from the ER. The structures have a characteristic shape and size (10 mm long and 0.5 mm wide) and are surrounded with ribosomes. They have been found in Arabidopsis thaliana and related Brassicaceae species."
  * Added definition dbxref PMID:18780803 to GO:0080119
  * Added definition dbxref PMID:19147648 to GO:0080119
  * Added synonym "endoplasmic reticulum body organization" to GO:0080119
  * Changed synonym scope of GO:0080119 from "Related" to "Exact"
  * Added synonym "endoplasmic reticulum body organization and biogenesis" to GO:0080119
  * Changed synonym scope of GO:0080119 from "Related" to "Exact"
  * Added synonym "ER body organization and biogenesis" to GO:0080119
  * Changed synonym scope of GO:0080119 from "Related" to "Exact"
  * Copied GO:0080119 to GO:0006996 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0080119
* Changed name of GO:0001951 from "D-glucose absorption" to "intestinal D-glucose absorption"
* Copied GO:0001951 to GO:0015758 with type OBO_REL:is_a
* Changed name of GO:0002541 from "activation of plasma proteins during acute inflammatory response" to "activation of plasma proteins involved in acute inflammatory response"
* Changed definition of GO:0002541 from "Any process activating plasma proteins via proteolysis during an acute inflammatory response." to "Any process activating plasma proteins by proteolysis as part of an acute inflammatory response."
* Deleted GO:0002542 --OBO_REL:is_a--> GO:0002541
* Copied GO:0002542 to GO:0045862 with type OBO_REL:is_a
* Copied GO:0002542 to GO:0002541 with type positively_regulates
* Changed definition of GO:0003677 from "Interacting selectively with DNA (deoxyribonucleic acid)." to "Any process by which a gene product interacts selectively with DNA (deoxyribonucleic acid)."
* Added definition dbxref GOC:dph to GO:0003677
* Added definition dbxref GOC:tb to GO:0003677
* Copied GO:0007094 to GO:0045841 with type OBO_REL:is_a
* Deleted GO:0010168 --OBO_REL:is_a--> GO:0044444
* Copied GO:0010168 to GO:0043226 with type OBO_REL:is_a
* Changed name of GO:0022417 from "protein maturation via protein folding" to "protein maturation by protein folding"
* Changed name of GO:0030299 from "cholesterol absorption" to "intestinal cholesterol absorption"
* Copied GO:0030299 to GO:0030301 with type OBO_REL:is_a
* Changed name of GO:0030300 from "regulation of cholesterol absorption" to "regulation of intestinal cholesterol absorption"
* Copied GO:0030300 to GO:0032374 with type OBO_REL:is_a
* Deleted GO:0032932 --OBO_REL:is_a--> GO:0010564
* Copied GO:0032932 to GO:0010948 with type OBO_REL:is_a
* Copied GO:0043280 to GO:0010952 with type OBO_REL:is_a
* Changed definition of GO:0043388 from "Any process that activates or increases the frequency, rate or extent of DNA binding, selective interaction with deoxyribonucleic acid." to "Any process that increases the frequency, rate or extent of DNA binding. DNA binding is any process by which a gene product interacts selectively with DNA (deoxyribonucleic acid)."
* Added definition dbxref GOC:dph to GO:0043388
* Added definition dbxref GOC:tb to GO:0043388
* Changed definition of GO:0043392 from "Any process that stops, prevents or reduces the frequency, rate or extent of DNA binding, selective interaction with deoxyribonucleic acid." to "Any process that increases the frequency, rate or extent of DNA binding. DNA binding is any process by which a gene product interacts selectively with DNA (deoxyribonucleic acid)."
* Added definition dbxref GOC:dph to GO:0043392
* Added definition dbxref GOC:tb to GO:0043392
* Changed name of GO:0045796 from "negative regulation of cholesterol absorption" to "negative regulation of intestinal cholesterol absorption"
* Copied GO:0045796 to GO:0032375 with type OBO_REL:is_a
* Changed name of GO:0045797 from "positive regulation of cholesterol absorption" to "positive regulation of intestinal cholesterol absorption"
* Copied GO:0045797 to GO:0032376 with type OBO_REL:is_a
* Changed definition of GO:0051101 from "Any process that modulates the frequency, rate or extent of DNA binding, selective interaction with deoxyribonucleic acid." to "Any process that modulates the frequency, rate or extent of DNA binding.  DNA binding is any process by which a gene product interacts selectively with DNA (deoxyribonucleic acid)."
* Added definition dbxref GOC:dph to GO:0051101
* Added definition dbxref GOC:tb to GO:0051101
* Changed name of GO:0051605 from "protein maturation via proteolysis" to "protein maturation by proteolysis"

More information about the Go-diff mailing list