[Go-diff] GO update 04/01/2009

Wed Apr 1 21:30:48 PDT 2009

OBODIFF of gene_ontology_write.obo version 1.505 by 1.508

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0070541
* Created object of type obo:TERM with id GO:0070542
* Created object of type obo:TERM with id GO:0070543
* Created object of type obo:TERM with id GO:0070544
* Created object of type obo:TERM with id GO:0070545
* Created object of type obo:TERM with id GO:0070546
* Created object of type obo:TERM with id GO:0070547
* Created object of type obo:TERM with id GO:0070548
* Populated new object GO:0070541 (macro)
  * Changed name of GO:0070541 from "<new term>" to "response to platinum"
  * Set definition of GO:0070541 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 platinum stimulus."
  * Added definition dbxref GOC:sl to GO:0070541
  * Copied GO:0070541 to GO:0010038 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070541
* Populated new object GO:0070542 (macro)
  * Changed name of GO:0070542 from "<new term>" to "response to fatty acid"
  * Set definition of GO:0070542 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 fatty acid stimulus."
  * Added definition dbxref ChEBI:35366 to GO:0070542
  * Added definition dbxref GOC:lp to GO:0070542
  * Copied GO:0070542 to GO:0033993 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070542
* Populated new object GO:0070543 (macro)
  * Changed name of GO:0070543 from "<new term>" to "response to linoleic acid"
  * Set definition of GO:0070543 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 linoleic acide stimulus."
  * Added definition dbxref ChEBI:17351 to GO:0070543
  * Added definition dbxref GOC:lp to GO:0070543
  * Added synonym "response to linoleate" to GO:0070543
  * Added general dbxref GOC:mah to synonym response to linoleate of GO:0070543
  * Changed synonym scope of GO:0070543 from "Related" to "Exact"
  * Copied GO:0070543 to GO:0070542 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070543
* Populated new object GO:0070544 (macro)
  * Changed name of GO:0070544 from "<new term>" to "histone H3-K36 demethylation"
  * Set definition of GO:0070544 to "The modification of histone H3 by the removal of a methyl group from lysine at position 36 of the histone."
  * Added definition dbxref GOC:sart to GO:0070544
  * Added definition dbxref PMID:19061644 to GO:0070544
  * Added synonym "H3K36 demethylation" to GO:0070544
  * Copied GO:0070544 to GO:0070076 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070544
* Populated new object GO:0070545 (macro)
  * Changed name of GO:0070545 from "<new term>" to "PeBoW complex"
  * Added comment "Note that the term name uses Saccharomyces gene product names because no other names have yet arisen for this complex; the term nevertheless can be used for analogous complexes in other eukaryotes, and the name can be changed if better wording is found."
  * Set definition of GO:0070545 to "A protein complex thatis involved in coordinating ribosome biogenesis with cell cycle progression. In human, it is composed of Pes1, Bop1, and WDR12."
  * Added definition dbxref GOC:mah to GO:0070545
  * Added definition dbxref PMID:16043514 to GO:0070545
  * Added definition dbxref PMID:17353269 to GO:0070545
  * Copied GO:0070545 to GO:0030686 with type part_of
  * Copied GO:0070545 to GO:0044452 with type OBO_REL:is_a
  * Copied GO:0070545 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070545
* Populated new object GO:0070546 (macro)
  * Changed name of GO:0070546 from "<new term>" to "L-phenylalanine aminotransferase activity"
  * Set definition of GO:0070546 to "Catalysis of the transfer of an amino group from L-phenylalanine to an acceptor, usually a 2-oxo acid."
  * Added definition dbxref GOC:mah to GO:0070546
  * Copied GO:0070546 to GO:0008483 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070546
* Populated new object GO:0070547 (macro)
  * Changed name of GO:0070547 from "<new term>" to "L-tyrosine aminotransferase activity"
  * Set definition of GO:0070547 to "Catalysis of the transfer of an amino group from L-tyrosine to an acceptor, usually a 2-oxo acid."
  * Added definition dbxref GOC:mah to GO:0070547
  * Copied GO:0070547 to GO:0008483 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070547
* Populated new object GO:0070548 (macro)
  * Changed name of GO:0070548 from "<new term>" to "L-glutamine aminotransferase activity"
  * Set definition of GO:0070548 to "Catalysis of the transfer of an amino group from L-glutamine to an acceptor, usually a 2-oxo acid."
  * Added definition dbxref GOC:mah to GO:0070548
  * Copied GO:0070548 to GO:0008483 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070548
* Changed definition of GO:0001947 from "The characteristic morphogenetic movements where the primitive heart tube loops asymmetrically. This looping brings the primitive heart chambers into alignment preceeding their future integration." to "The characteristic morphogenetic movements where the primitive heart tube loops asymmetrically. This looping brings the primitive heart chambers into alignment preceding their future integration."
* Changed synonym scope of GO:0004838 from "Exact" to "Related"
* Changed synonym scope of GO:0004838 from "Exact" to "Related"
* Changed synonym scope of GO:0004838 from "Exact" to "Related"
* Changed synonym scope of GO:0004838 from "Exact" to "Related"
* Changed synonym scope of GO:0004838 from "Exact" to "Broad"
* Changed synonym scope of GO:0004838 from "Exact" to "Broad"
* Changed synonym scope of GO:0004838 from "Exact" to "Broad"
* Deleted GO:0004838 --OBO_REL:is_a--> GO:0008483
* Copied GO:0004838 to GO:0070547 with type OBO_REL:is_a
* Added comment "This term was made obsolete because it represents both a biological process and a molecular function."
* Set definition of GO:0005155 to "OBSOLETE. This term was not defined before being made obsolete."
* Added definition dbxref GOC:dph to GO:0005155
* Added definition dbxref GOC:mah to GO:0005155
* Added definition dbxref GOC:tb to GO:0005155
* Deleted GO:0005155 --OBO_REL:is_a--> GO:0005154
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 85bd21
* Added comment "This term was made obsolete because it represents both a biological process and a molecular function."
* Set definition of GO:0005156 to "OBSOLETE. This term was not defined before being made obsolete."
* Added definition dbxref GOC:dph to GO:0005156
* Added definition dbxref GOC:mah to GO:0005156
* Added definition dbxref GOC:tb to GO:0005156
* Deleted GO:0005156 --OBO_REL:is_a--> GO:0005154
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 43de84
* Copied GO:0008286 to GO:0032869 with type OBO_REL:is_a
* Added general dbxref GOC:mah to synonym spinal cord dorsal-ventral patterning of GO:0021513
* Added general dbxref GOC:mah to synonym forebrain dorsal-ventral pattern formation of GO:0021798
* Changed name of GO:0034201 from "response to oleate" to "response to oleic acid"
* Changed definition of GO:0034201 from "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 oleate stimulus." 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 an oleic acid stimulus."
* Deleted definition dbxref ChEBI:30823 from GO:0034201
* Deleted definition dbxref GOC:rb from GO:0034201
* Deleted definition dbxref PMID:17551510 from GO:0034201
* Added definition dbxref ChEBI:16196 to GO:0034201
* Added definition dbxref GOC:lp to GO:0034201
* Deleted synonym "response to oleic acid" from GO:0034201
* Added synonym "response to oleate" to GO:0034201
* Added general dbxref GOC:mah to synonym response to oleate of GO:0034201
* Changed synonym scope of GO:0034201 from "Related" to "Exact"
* Deleted GO:0034201 --OBO_REL:is_a--> GO:0033993
* Copied GO:0034201 to GO:0070542 with type OBO_REL:is_a
* Changed name of GO:0047312 from "phenylalanine(histidine) transaminase activity" to "L-phenylalanine:pyruvate aminotransferase activity"
* Changed synonym scope of GO:0047312 from "Exact" to "Related"
* Changed synonym scope of GO:0047312 from "Exact" to "Broad"
* Deleted synonym "L-phenylalanine:pyruvate aminotransferase activity" from GO:0047312
* Changed synonym scope of GO:0047312 from "Exact" to "Broad"
* Changed synonym scope of GO:0047312 from "Exact" to "Broad"
* Changed synonym scope of GO:0047312 from "Exact" to "Broad"
* Added synonym "histidine aminotransferase activity" to GO:0047312
* Added general dbxref GOC:kad to synonym histidine aminotransferase activity of GO:0047312
* Added synonym "L-histidine:pyruvate aminotransferase activity" to GO:0047312
* Added general dbxref GOC:kad to synonym L-histidine:pyruvate aminotransferase activity of GO:0047312
* Added synonym "L-phenylalanine:pyruvate transaminase activity" to GO:0047312
* Added general dbxref GOC:kad to synonym L-phenylalanine:pyruvate transaminase activity of GO:0047312
* Changed synonym scope of GO:0047312 from "Related" to "Exact"
* Added synonym "phenylalanine(histidine) transaminase activity" to GO:0047312
* Added general dbxref EC:2.6.1.58 to synonym phenylalanine(histidine) transaminase activity of GO:0047312
* Changed synonym scope of GO:0047312 from "Related" to "Broad"
* Deleted GO:0047312 --OBO_REL:is_a--> GO:0008483
* Copied GO:0047312 to GO:0070546 with type OBO_REL:is_a
* Changed name of GO:0047945 from "glutamine-pyruvate transaminase activity" to "L-glutamine:pyruvate aminotransferase activity"
* Changed synonym scope of GO:0047945 from "Exact" to "Related"
* Changed synonym scope of GO:0047945 from "Exact" to "Related"
* Changed synonym scope of GO:0047945 from "Exact" to "Broad"
* Changed synonym scope of GO:0047945 from "Exact" to "Broad"
* Changed synonym scope of GO:0047945 from "Exact" to "Broad"
* Changed synonym scope of GO:0047945 from "Exact" to "Broad"
* Changed synonym scope of GO:0047945 from "Exact" to "Broad"
* Changed synonym scope of GO:0047945 from "Exact" to "Broad"
* Changed synonym scope of GO:0047945 from "Exact" to "Broad"
* Changed synonym scope of GO:0047945 from "Exact" to "Broad"
* Deleted synonym "L-glutamine:pyruvate aminotransferase activity" from GO:0047945
* Added synonym "glutamine-pyruvate transaminase activity" to GO:0047945
* Added general dbxref EC:2.6.1.15 to synonym glutamine-pyruvate transaminase activity of GO:0047945
* Changed synonym scope of GO:0047945 from "Related" to "Broad"
* Changed definition of GO:0060134 from "The process by which a startle magnitude is reduced when the startling stimulus is preceeded by a low-intensity prepulse." to "The process by which a startle magnitude is reduced when the startling stimulus is preceded by a low-intensity prepulse."