[Go-diff] GO update 09/05/2008

Fri Sep 5 21:30:47 PDT 2008

OBODIFF of gene_ontology_write.obo version 1.192 by 1.195

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0002118
* Created object of type obo:TERM with id GO:0002120
* Created object of type obo:TERM with id GO:0002121
* Created object of type obo:TERM with id GO:0002122
* Created object of type obo:TERM with id GO:0002123
* Created object of type obo:TERM with id GO:0002124
* Created object of type obo:TERM with id GO:0002125
* Created object of type obo:TERM with id GO:0002126
* Created object of type obo:TERM with id GO:0034769
* Created object of type obo:TERM with id GO:0034770
* Created object of type obo:TERM with id GO:0034771
* Created object of type obo:TERM with id GO:0034772
* Created object of type obo:TERM with id GO:0034773
* Created object of type obo:TERM with id GO:0034774
* Created object of type obo:TERM with id GO:0034775
* Created object of type obo:TERM with id GO:0034776
* Created object of type obo:TERM with id GO:0034777
* Created object of type obo:TERM with id GO:0060303
* Created object of type obo:TERM with id GO:0060304
* Created object of type obo:TERM with id GO:0060305
* Populated new object GO:0002118 (macro)
  * Changed name of GO:0002118 from "<new term>" to "aggressive behavior"
  * Set definition of GO:0002118 to "A behavioral interaction between organisms in which one organism has the intention of inflicting physical damage on another individual."
  * Added definition dbxref GOC:hjd to GO:0002118
  * Added general dbxref GOC:hjd to GO:0002118
  * Added synonym "aggression" to GO:0002118
  * Changed synonym scope of GO:0002118 from "Related" to "Exact"
  * Copied GO:0002118 to GO:0051705 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0002118
* Populated new object GO:0002120 (macro)
  * Changed name of GO:0002120 from "<new term>" to "predatory aggressive behavior"
  * Set definition of GO:0002120 to "Aggressive behavior involving attack on prey by a predator, characterized by lack of threatening displays, silence, and no sex differences."
  * Added definition dbxref GOC:hjd to GO:0002120
  * Added synonym "predatory aggression" to GO:0002120
  * Changed synonym scope of GO:0002120 from "Related" to "Exact"
  * Copied GO:0002120 to GO:0002118 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0002120
* Populated new object GO:0002121 (macro)
  * Changed name of GO:0002121 from "<new term>" to "inter-male aggressive behavior"
  * Set definition of GO:0002121 to "Aggressive behavior based on competition between males of the same species over access to resources such as females, dominance, status, etc. and characterized by noise, threats, and is often less injurious."
  * Added definition dbxref GOC:hjd to GO:0002121
  * Added synonym "inter-male aggression" to GO:0002121
  * Changed synonym scope of GO:0002121 from "Related" to "Exact"
  * Copied GO:0002121 to GO:0002118 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0002121
* Populated new object GO:0002122 (macro)
  * Changed name of GO:0002122 from "<new term>" to "fear-induced aggressive behavior"
  * Set definition of GO:0002122 to "Aggressive behavior associated with attempts to flee from a threat."
  * Added definition dbxref GOC:hjd to GO:0002122
  * Added synonym "fear-induced aggression" to GO:0002122
  * Changed synonym scope of GO:0002122 from "Related" to "Exact"
  * Copied GO:0002122 to GO:0002118 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0002122
* Populated new object GO:0002123 (macro)
  * Changed name of GO:0002123 from "<new term>" to "irritable aggressive behavior"
  * Set definition of GO:0002123 to "Aggressive behavior induced by frustration and directed against an available target."
  * Added definition dbxref GOC:hjd to GO:0002123
  * Added synonym "irritable aggression" to GO:0002123
  * Changed synonym scope of GO:0002123 from "Related" to "Exact"
  * Copied GO:0002123 to GO:0002118 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0002123
* Populated new object GO:0002124 (macro)
  * Changed name of GO:0002124 from "<new term>" to "territorial aggressive behavior"
  * Set definition of GO:0002124 to "Aggressive behavior performed in defence of a fixed area against intruders, typically conspecifics."
  * Added definition dbxref GOC:hjd to GO:0002124
  * Added synonym "territorial aggression" to GO:0002124
  * Changed synonym scope of GO:0002124 from "Related" to "Exact"
  * Copied GO:0002124 to GO:0002118 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0002124
* Populated new object GO:0002125 (macro)
  * Changed name of GO:0002125 from "<new term>" to "maternal aggressive behavior"
  * Added comment "Paternal aggression also exists. Serves to protect the offspring from intruders."
  * Set definition of GO:0002125 to "Aggressive behavior of a female to protect her offspring from a threat."
  * Added definition dbxref GOC:hjd to GO:0002125
  * Added synonym "maternal aggression" to GO:0002125
  * Changed synonym scope of GO:0002125 from "Related" to "Exact"
  * Copied GO:0002125 to GO:0002118 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0002125
* Populated new object GO:0002126 (macro)
  * Changed name of GO:0002126 from "<new term>" to "instrumental aggressive behavior"
  * Set definition of GO:0002126 to "Aggressive behavior directed towards obtaining some goal, considered to be a learned response to a situation."
  * Added definition dbxref GOC:hjd to GO:0002126
  * Added synonym "instrumental aggression" to GO:0002126
  * Changed synonym scope of GO:0002126 from "Related" to "Exact"
  * Copied GO:0002126 to GO:0002118 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0002126
* Populated new object GO:0034769 (macro)
  * Changed name of GO:0034769 from "<new term>" to "basement membrane disassembly"
  * Set definition of GO:0034769 to "The controlled breakdown of the basement membrane in the context of a normal process such as imaginal disc eversion."
  * Added definition dbxref GOC:sart to GO:0034769
  * Added definition dbxref PMID:17301221 to GO:0034769
  * Copied GO:0034769 to GO:0022411 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034769
* Populated new object GO:0034770 (macro)
  * Changed name of GO:0034770 from "<new term>" to "histone H3-K20 methylation"
  * Set definition of GO:0034770 to "The modification of histone H3 by addition of one or more methyl groups to lysine at position 20 of the histone."
  * Added definition dbxref GOC:mah to GO:0034770
  * Added synonym "histone H3 K20 methylation" to GO:0034770
  * Changed synonym scope of GO:0034770 from "Related" to "Exact"
  * Added synonym "histone H3K20me" to GO:0034770
  * Changed synonym scope of GO:0034770 from "Related" to "Exact"
  * Added synonym "histone lysine H3 K20 methylation" to GO:0034770
  * Changed synonym scope of GO:0034770 from "Related" to "Exact"
  * Copied GO:0034770 to GO:0016571 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034770
* Populated new object GO:0034771 (macro)
  * Changed name of GO:0034771 from "<new term>" to "histone H3-K20 monomethylation"
  * Set definition of GO:0034771 to "The modification of histone H3 by addition of one methyl group to lysine at position 20 of the histone."
  * Added definition dbxref GOC:mah to GO:0034771
  * Added synonym "histone H3 K20 monomethylation" to GO:0034771
  * Changed synonym scope of GO:0034771 from "Related" to "Exact"
  * Added synonym "histone lysine H3 K20 monomethylation" to GO:0034771
  * Changed synonym scope of GO:0034771 from "Related" to "Exact"
  * Copied GO:0034771 to GO:0034770 with type OBO_REL:is_a
  * Copied GO:0034771 to GO:0018026 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034771
* Populated new object GO:0034772 (macro)
  * Changed name of GO:0034772 from "<new term>" to "histone H3-K20 dimethylation"
  * Set definition of GO:0034772 to "The modification of histone H3 by addition of two methyl groups to lysine at position 20 of the histone."
  * Added definition dbxref GOC:mah to GO:0034772
  * Added synonym "histone H3 K20 dimethylation" to GO:0034772
  * Changed synonym scope of GO:0034772 from "Related" to "Exact"
  * Added synonym "histone lysine H3 K20 dimethylation" to GO:0034772
  * Changed synonym scope of GO:0034772 from "Related" to "Exact"
  * Copied GO:0034772 to GO:0034770 with type OBO_REL:is_a
  * Copied GO:0034772 to GO:0018027 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034772
* Populated new object GO:0034773 (macro)
  * Changed name of GO:0034773 from "<new term>" to "histone H3-K20 trimethylation"
  * Set definition of GO:0034773 to "The modification of histone H3 by addition of three methyl groups to lysine at position 20 of the histone."
  * Added definition dbxref GOC:mah to GO:0034773
  * Added synonym "histone H3 K20 trimethylation" to GO:0034773
  * Changed synonym scope of GO:0034773 from "Related" to "Exact"
  * Added synonym "histone lysine H3 K20 trimethylation" to GO:0034773
  * Changed synonym scope of GO:0034773 from "Related" to "Exact"
  * Copied GO:0034773 to GO:0018023 with type OBO_REL:is_a
  * Copied GO:0034773 to GO:0034770 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034773
* Populated new object GO:0034774 (macro)
  * Changed name of GO:0034774 from "<new term>" to "secretory granule lumen"
  * Set definition of GO:0034774 to ": The volume enclosed by the membrane of a secretory granule."
  * Added definition dbxref GOC:rph to GO:0034774
  * Copied GO:0034774 to GO:0030141 with type part_of
  * Copied GO:0034774 to GO:0060205 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034774
* Populated new object GO:0034775 (macro)
  * Changed name of GO:0034775 from "<new term>" to "transmembrane glutathione transport"
  * Set definition of GO:0034775 to "A process whereby glutathinone is transported from one side of a membrane to the other."
  * Added definition dbxref GOC:mah to GO:0034775
  * Copied GO:0034775 to GO:0034635 with type OBO_REL:is_a
  * Copied GO:0034775 to GO:0055085 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034775
* Populated new object GO:0034776 (macro)
  * Changed name of GO:0034776 from "<new term>" to "response to histamine"
  * Set definition of GO:0034776 to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a histamine stimulus. Histamine, the biogenic amine 2-(1H-imidazol-4-yl)ethanamine, is involved in local immune responses as well as regulating physiological function in the gut and acting as a neurotransmitter."
  * Added definition dbxref ChEBI:18295 to GO:0034776
  * Added definition dbxref GOC:mah to GO:0034776
  * Added definition dbxref GOC:vk to GO:0034776
  * Added synonym "response to histamine stimulus" to GO:0034776
  * Changed synonym scope of GO:0034776 from "Related" to "Exact"
  * Copied GO:0034776 to GO:0014075 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034776
* Populated new object GO:0034777 (macro)
  * Changed name of GO:0034777 from "<new term>" to "recycling endosome lumen"
  * Set definition of GO:0034777 to "The volume enclosed by the membranes of a recycling endosome."
  * Added definition dbxref GOC:rph to GO:0034777
  * Copied GO:0034777 to GO:0031904 with type OBO_REL:is_a
  * Copied GO:0034777 to GO:0055037 with type part_of
  * Assigned namespace "cellular_component" to GO:0034777
* Populated new object GO:0060303 (macro)
  * Changed name of GO:0060303 from "<new term>" to "regulation of nucleosome density"
  * Set definition of GO:0060303 to "Any process that modulates the number of nucleosomes in a given region of a chromosome."
  * Added definition dbxref GOC:dph to GO:0060303
  * Added definition dbxref GOC:tb to GO:0060303
  * Copied GO:0060303 to GO:0065008 with type OBO_REL:is_a
  * Copied GO:0060303 to GO:0034728 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060303
* Populated new object GO:0060304 (macro)
  * Changed name of GO:0060304 from "<new term>" to "regulation of phosphoinosotide dephosphorylation"
  * Set definition of GO:0060304 to "Any process that modulates the frequency, rate or extent of the chemical reaction involving the removal of one or more phosphate groups from a phosphoinositide, a class of substances comprising phosphatidylinositol and its derivatives."
  * Added definition dbxref GOC:dph to GO:0060304
  * Added definition dbxref GOC:tb to GO:0060304
  * Copied GO:0060304 to GO:0046856 with type regulates
  * Copied GO:0060304 to GO:0060255 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060304
* Populated new object GO:0060305 (macro)
  * Changed name of GO:0060305 from "<new term>" to "regulation of cell diameter"
  * Set definition of GO:0060305 to "Any process that modulates the diameter of a cell, the length of a line segment that crosses through the center of a circular section through a cell."
  * Added definition dbxref GOC:dph to GO:0060305
  * Added definition dbxref GOC:tb to GO:0060305
  * Copied GO:0060305 to GO:0008361 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060305
* Changed definition of GO:0000417 from "A protein complex proposed to be involved in replication-independent chromatin assembly. For example, in Saccharomyces, the complex contains Hir1p, Hir2p, Hir3p, and Hpc2p." to "A protein complex proposed to be involved in replication-independent nucleosome assembly, by promoting histone deposition onto DNA. For example, in Saccharomyces, the complex contains Hir1p, Hir2p, Hir3p, and Hpc2p."
* Added definition dbxref GOC:mah to GO:0000417
* Added definition dbxref PMID:17180700 to GO:0000417
* Copied GO:0005275 to GO:0022891 with type OBO_REL:is_a
* Added synonym "nucleosome assembly complex" to GO:0005678
* Changed synonym scope of GO:0005678 from "Related" to "Narrow"
* Copied GO:0006342 to GO:0031507 with type OBO_REL:is_a
* Deleted GO:0006345 --OBO_REL:is_a--> GO:0045815
* Deleted GO:0006345 --OBO_REL:is_a--> GO:0045893
* Deleted GO:0006345 --OBO_REL:is_a--> GO:0006338
* Copied GO:0006345 to GO:0031936 with type OBO_REL:is_a
* Changed name of GO:0018012 from "N-terminal peptidyl-alanine tri-methylation" to "N-terminal peptidyl-alanine trimethylation"
* Changed definition of GO:0018012 from "The tri-methylation of the N-terminal alanine of proteins to form the derivative peptidyl-N,N,N-trimethyl-L-alanine." to "The trimethylation of the N-terminal alanine of proteins to form the derivative peptidyl-N,N,N-trimethyl-L-alanine."
* Changed name of GO:0018016 from "N-terminal peptidyl-proline di-methylation" to "N-terminal peptidyl-proline dimethylation"
* Changed definition of GO:0018022 from "The methylation of peptidyl-lysine to form either the mono-, di- or tri-methylated derivative." to "The methylation of peptidyl-lysine to form either the mono-, di- or trimethylated derivative."
* Changed name of GO:0018023 from "peptidyl-lysine tri-methylation" to "peptidyl-lysine trimethylation"
* Changed name of GO:0018026 from "peptidyl-lysine mono-methylation" to "peptidyl-lysine monomethylation"
* Changed name of GO:0018027 from "peptidyl-lysine di-methylation" to "peptidyl-lysine dimethylation"
* Changed name of GO:0019716 from "N-terminal peptidyl-alanine mono-methylation" to "N-terminal peptidyl-alanine monomethylation"
* Changed definition of GO:0019716 from "The mono-methylation of the N-terminal alanine of proteins to form the derivative peptidyl-N-methyl-L-alanine." to "The monomethylation of the N-terminal alanine of proteins to form the derivative peptidyl-N-methyl-L-alanine."
* Changed definition of GO:0031070 from "The biogenesis of a snoRNA molecue which resides within, and is processed from, the intron of a pre-mRNA." to "The biogenesis of a snoRNA molecule which resides within, and is processed from, the intron of a pre-mRNA."
* Changed definition of GO:0031904 from "The volume enclosed by the membranes of an endosome." to "The volume enclosed by the membrane of an endosome."
* Changed definition of GO:0031905 from "The volume enclosed by the membranes of an early endosome." to "The volume enclosed by the membrane of an early endosome."
* Changed definition of GO:0031906 from "The volume enclosed by the membranes of a late endosome." to "The volume enclosed by the membrane of a late endosome."
* Copied GO:0031936 to GO:0045893 with type OBO_REL:is_a
* Copied GO:0031936 to GO:0045815 with type OBO_REL:is_a
* Changed name of GO:0050838 from "peptidyl-5-hydroxy-L-lysine tri-methylation" to "peptidyl-5-hydroxy-L-lysine trimethylation"
* Changed comment from "Note that the chromatophore mentioned here is distinct from thenpigment bearing structure found in certain photosynthetic bacteria and cyanobacteria. It is also different from the plant chromoplast, which is also sometimes called a chromatophore." to "Note that the chromatophore mentioned here is distinct from the pigment bearing structure found in certain photosynthetic bacteria and cyanobacteria. It is also different from the plant chromoplast, which is also sometimes called a chromatophore."
* Deleted GO:0055038 --OBO_REL:is_a--> GO:0055037
* Copied GO:0055038 to GO:0055037 with type part_of