[Go-diff] GO update 04/06/2009

Remote CVS for Gene Ontology gocvs at genome.stanford.edu
Mon Apr 6 21:30:53 PDT 2009 

OBODIFF of gene_ontology_write.obo version 1.515 by 1.520

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0060491
* Created object of type obo:TERM with id GO:0060492
* Created object of type obo:TERM with id GO:0060493
* Created object of type obo:TERM with id GO:0060494
* Created object of type obo:TERM with id GO:0060495
* Created object of type obo:TERM with id GO:0060496
* Created object of type obo:TERM with id GO:0060497
* Created object of type obo:TERM with id GO:0060498
* Created object of type obo:TERM with id GO:0060499
* Created object of type obo:TERM with id GO:0060500
* Created object of type obo:TERM with id GO:0060501
* Created object of type obo:TERM with id GO:0060502
* Created object of type obo:TERM with id GO:0060503
* Created object of type obo:TERM with id GO:0060504
* Created object of type obo:TERM with id GO:0060505
* Created object of type obo:TERM with id GO:0070551
* Created object of type obo:TERM with id GO:0070552
* Created object of type obo:TERM with id GO:0070553
* Created object of type obo:TERM with id GO:0070554
* Populated new object GO:0060491 (macro)
  * Changed name of GO:0060491 from "<new term>" to "regulation of cell projection assembly"
  * Set definition of GO:0060491 to "Any process that modulates the rate, frequency, or extent of cell projection assembly."
  * Added definition dbxref GOC:dph to GO:0060491
  * Added definition dbxref GOC:tb to GO:0060491
  * Added synonym "regulation of cell projection formation" to GO:0060491
  * Added general dbxref GOC:tb to synonym regulation of cell projection formation of GO:0060491
  * Added general dbxref GOC:dph to synonym regulation of cell projection formation of GO:0060491
  * Copied GO:0060491 to GO:0044087 with type OBO_REL:is_a
  * Copied GO:0060491 to GO:0031344 with type OBO_REL:is_a
  * Copied GO:0060491 to GO:0030031 with type regulates
  * Assigned namespace "biological_process" to GO:0060491
* Populated new object GO:0060492 (macro)
  * Changed name of GO:0060492 from "<new term>" to "lung induction"
  * Set definition of GO:0060492 to "The close range interaction of two or more cells or tissues that causes the cells of the foregut to change their fates and specify the development of the lung."
  * Added definition dbxref GOC:dph to GO:0060492
  * Copied GO:0060492 to GO:0060431 with type part_of
  * Copied GO:0060492 to GO:0001759 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060492
* Populated new object GO:0060493 (macro)
  * Changed name of GO:0060493 from "<new term>" to "mesenchymal-enodermal cell signaling involved in lung induction"
  * Set definition of GO:0060493 to "Any process that mediates the transfer of information from a mesenchymal cell to an endodermal cell and cotributes to the formation of the lung bud."
  * Added definition dbxref GOC:dph to GO:0060493
  * Added definition dbxref GOC:mtg_lung to GO:0060493
  * Copied GO:0060493 to GO:0060496 with type OBO_REL:is_a
  * Copied GO:0060493 to GO:0060494 with type OBO_REL:is_a
  * Copied GO:0060493 to GO:0060492 with type part_of
  * Assigned namespace "biological_process" to GO:0060493
* Populated new object GO:0060494 (macro)
  * Changed name of GO:0060494 from "<new term>" to "inductive mesenchymal-endodermal cell signaling"
  * Set definition of GO:0060494 to "Any process that mediates the transfer of information from a mesenchymal cell to an endodermal cell changing the fate of the endodermal cell."
  * Added definition dbxref GOC:dph to GO:0060494
  * Added definition dbxref GOC:mtg_lung to GO:0060494
  * Copied GO:0060494 to GO:0031129 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060494
* Populated new object GO:0060495 (macro)
  * Changed name of GO:0060495 from "<new term>" to "cell-cell signaling involved in lung development"
  * Set definition of GO:0060495 to "Any process that mediates the transfer of information from one cell to another and contributes to the progression of the lung, from its initial state to the mature structure."
  * Added definition dbxref GOC:dph to GO:0060495
  * Added definition dbxref GOC:mtg_lung to GO:0060495
  * Copied GO:0060495 to GO:0030324 with type part_of
  * Copied GO:0060495 to GO:0007267 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060495
* Populated new object GO:0060496 (macro)
  * Changed name of GO:0060496 from "<new term>" to "mesenchymal-enodermal cell signaling involved in lung development"
  * Set definition of GO:0060496 to "Any process that mediates the transfer of information from a mesenchymal cell to an endodermal cell and contributes to the development of the lung."
  * Added definition dbxref GOC:dph to GO:0060496
  * Added definition dbxref GOC:mtg_lung to GO:0060496
  * Copied GO:0060496 to GO:0060497 with type OBO_REL:is_a
  * Copied GO:0060496 to GO:0060495 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060496
* Populated new object GO:0060497 (macro)
  * Changed name of GO:0060497 from "<new term>" to "mesenchymal-endodermal cell signaling"
  * Set definition of GO:0060497 to "Any process that mediates the transfer of information from a mesenchymal cell to an endodermal cell."
  * Added definition dbxref GOC:dph to GO:0060497
  * Copied GO:0060497 to GO:0007267 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060497
* Populated new object GO:0060498 (macro)
  * Changed name of GO:0060498 from "<new term>" to "retinoic acid receptor signaling pathway involved in lung bud formation"
  * Set definition of GO:0060498 to "The series of molecular signals generated as a consequence of a retinoic acid receptor binding to one of its physiological ligands contributing to the formation of the primary lung bud."
  * Added definition dbxref GOC:dph to GO:0060498
  * Added definition dbxref GOC:mtg_lung to GO:0060498
  * Copied GO:0060498 to GO:0060431 with type part_of
  * Copied GO:0060498 to GO:0048384 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060498
* Populated new object GO:0060499 (macro)
  * Changed name of GO:0060499 from "<new term>" to "fibroblast growth factor receptor signaling pathway involved in lung induction"
  * Set definition of GO:0060499 to "The series of molecular signals generated as a consequence of a fibroblast growth factor receptor binding to one of its physiological ligands resulting in the formation of the lung bud along the lateral-esophageal sulcus."
  * Added definition dbxref GOC:dph to GO:0060499
  * Added definition dbxref GOC:mtg_lung to GO:0060499
  * Copied GO:0060499 to GO:0060493 with type part_of
  * Copied GO:0060499 to GO:0008543 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060499
* Populated new object GO:0060500 (macro)
  * Changed name of GO:0060500 from "<new term>" to "regulation of transcription from RNA polymerase II promoter involved in lung bud formation"
  * Set definition of GO:0060500 to "Any process that modulates the frequency, rate or extent of transcription from an RNA polymerase II promoter that contributes to the branching morphogenesis by which the initial primordium of the lung is formed."
  * Added definition dbxref GOC:dph to GO:0060500
  * Added definition dbxref GOC:mtg_lung to GO:0060500
  * Copied GO:0060500 to GO:0060431 with type part_of
  * Copied GO:0060500 to GO:0006357 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060500
* Populated new object GO:0060501 (macro)
  * Changed name of GO:0060501 from "<new term>" to "positive reguation of epithelial cell proliferation involved in lung morhogenesis"
  * Set definition of GO:0060501 to "Any process that increases the rate or frquency of epithelial cell proliferation that results in the lung attaining its shape."
  * Added definition dbxref GOC:dph to GO:0060501
  * Copied GO:0060501 to GO:0050679 with type OBO_REL:is_a
  * Copied GO:0060501 to GO:0060502 with type positively_regulates
  * Assigned namespace "biological_process" to GO:0060501
* Populated new object GO:0060502 (macro)
  * Changed name of GO:0060502 from "<new term>" to "epithelial cell proliferation involved in lung morphogenesis"
  * Set definition of GO:0060502 to "The multiplication or reproduction of epithelial cells, resulting in the expansion of a cell population that contributes to the shaping of the lung."
  * Added definition dbxref GOC:dph to GO:0060502
  * Copied GO:0060502 to GO:0050673 with type OBO_REL:is_a
  * Copied GO:0060502 to GO:0060425 with type part_of
  * Assigned namespace "biological_process" to GO:0060502
* Populated new object GO:0060503 (macro)
  * Changed name of GO:0060503 from "<new term>" to "bud dilation involved in lung branching"
  * Set definition of GO:0060503 to "The process whereby a bud in the lung increases radially."
  * Added definition dbxref GOC:dph to GO:0060503
  * Added synonym "bud expansion" to GO:0060503
  * Added general dbxref GOC:dph to synonym bud expansion of GO:0060503
  * Changed synonym scope of GO:0060503 from "Related" to "Exact"
  * Copied GO:0060503 to GO:0048589 with type OBO_REL:is_a
  * Copied GO:0060503 to GO:0060441 with type part_of
  * Assigned namespace "biological_process" to GO:0060503
* Populated new object GO:0060504 (macro)
  * Changed name of GO:0060504 from "<new term>" to "positive regulation of epithelial cell proliferation involved in lung bud dilation"
  * Set definition of GO:0060504 to "Any process that increases the rate or frquency of epithelial cell proliferation that results in the lung bud increasing in size radially."
  * Added definition dbxref GOC:dph to GO:0060504
  * Copied GO:0060504 to GO:0060505 with type positively_regulates
  * Copied GO:0060504 to GO:0060501 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060504
* Populated new object GO:0060505 (macro)
  * Changed name of GO:0060505 from "<new term>" to "epithelial cell proliferation involved in lung bud dilation"
  * Set definition of GO:0060505 to "The multiplication or reproduction of epithelial cells that contribute to the radial growth of a lung bud."
  * Added definition dbxref GOC:dph to GO:0060505
  * Copied GO:0060505 to GO:0060502 with type OBO_REL:is_a
  * Copied GO:0060505 to GO:0060503 with type part_of
  * Assigned namespace "biological_process" to GO:0060505
* Populated new object GO:0070551 (macro)
  * Changed name of GO:0070551 from "<new term>" to "endoribonuclease activity, cleaving siRNA-paired mRNA"
  * Set definition of GO:0070551 to "Catalysis of the endonucleolytic cleavage of the mRNA in a double-stranded RNA molecule formed by the base pairing of an mRNA with an siRNA, yielding 5'-phosphomonoesters."
  * Added definition dbxref GOC:mah to GO:0070551
  * Added definition dbxref PMID:15105377 to GO:0070551
  * Added synonym "argonaute endoribonuclease activity" to GO:0070551
  * Added general dbxref GOC:mah to synonym argonaute endoribonuclease activity of GO:0070551
  * Copied GO:0070551 to GO:0016891 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070551
* Populated new object GO:0070552 (macro)
  * Changed name of GO:0070552 from "<new term>" to "BRISC complex"
  * Set definition of GO:0070552 to "A protein complex that contains the FAM175B/ABRO1, BRCC3/BRCC36, BRE/BRCC45 and MERIT40/NBA1 proteins, and specifically cleaves K63-linked polyubiquitin chains."
  * Added definition dbxref GOC:mah to GO:0070552
  * Added definition dbxref PMID:19214193 to GO:0070552
  * Copied GO:0070552 to GO:0043234 with type OBO_REL:is_a
  * Copied GO:0070552 to GO:0044428 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070552
* Populated new object GO:0070553 (macro)
  * Changed name of GO:0070553 from "<new term>" to "nicotinic acid receptor activity"
  * Set definition of GO:0070553 to "Combining with nicotinic acid to initiate a change in cell activity."
  * Added definition dbxref ChEBI:15940 to GO:0070553
  * Added definition dbxref GOC:mah to GO:0070553
  * Added definition dbxref PMID:12522134 to GO:0070553
  * Added synonym "niacin receptor activity" to GO:0070553
  * Added general dbxref GOC:mah to synonym niacin receptor activity of GO:0070553
  * Added general dbxref ChEBI:15940 to synonym niacin receptor activity of GO:0070553
  * Changed synonym scope of GO:0070553 from "Related" to "Exact"
  * Copied GO:0070553 to GO:0004930 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070553
* Populated new object GO:0070554 (macro)
  * Changed name of GO:0070554 from "<new term>" to "synaptobrevin 2-SNAP-25-syntaxin-3-complexin complex"
  * Set definition of GO:0070554 to "A SNARE complex that contains synaptobrevin 2 (VAMP2), SNAP-25, syntaxin 3, and a complexin (or orthologs thereof)."
  * Added definition dbxref PMID:8824312 to GO:0070554
  * Added synonym "SNARE complex (Stx3, Snap25, Vamp2, Cplx1)" to GO:0070554
  * Added general dbxref CORUM:842 to synonym SNARE complex (Stx3, Snap25, Vamp2, Cplx1) of GO:0070554
  * Changed synonym scope of GO:0070554 from "Related" to "Narrow"
  * Added synonym "Stx3-Snap25-Vamp2-Cplx1 complex" to GO:0070554
  * Added general dbxref CORUM:842 to synonym Stx3-Snap25-Vamp2-Cplx1 complex of GO:0070554
  * Changed synonym scope of GO:0070554 from "Related" to "Narrow"
  * Copied GO:0070554 to GO:0031201 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0070554
* Changed synonym scope of GO:0006769 from "Broad" to "Related"
* Changed synonym scope of GO:0006769 from "Broad" to "Related"
* Changed name of GO:0009297 from "pilus formation" to "pilus assembly"
* Added definition dbxref GOC:dgh to GO:0009297
* Added definition dbxref GOC:tb to GO:0009297
* Added synonym "pilus formation" to GO:0009297
* Added general dbxref GOC:tb to synonym pilus formation of GO:0009297
* Added general dbxref GOC:dph to synonym pilus formation of GO:0009297
* Changed synonym scope of GO:0009297 from "Related" to "Exact"
* Deleted GO:0010591 --OBO_REL:is_a--> GO:0044087
* Copied GO:0010591 to GO:0060491 with type OBO_REL:is_a
* Copied GO:0010868 to GO:0031327 with type OBO_REL:is_a
* Copied GO:0019346 to GO:0050667 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
* Deleted GO:0021914 --part_of--> GO:0051960
* Copied GO:0021914 to GO:0051960 with type OBO_REL:is_a
* Deleted GO:0021916 --OBO_REL:is_a--> GO:0007267
* Copied GO:0021916 to GO:0031129 with type OBO_REL:is_a
* Deleted GO:0030092 --OBO_REL:is_a--> GO:0044087
* Copied GO:0030092 to GO:0060491 with type OBO_REL:is_a
* Changed name of GO:0030845 from "inhibition of phospholipase C activity" to "inhibition of phospholipase C activity involved in G-protein coupled receptor signaling pathway"
* Changed definition of GO:0030845 from "A signaling pathway that results in preventing the activation of phospholipase C in response to the signal." to "A signaling pathway that results in preventing the activation of phospholipase C in response to a signal."
* Copied GO:0030845 to GO:0045744 with type OBO_REL:is_a
* Copied GO:0030856 to GO:0051239 with type OBO_REL:is_a
* Copied GO:0030997 to GO:0070507 with type OBO_REL:is_a
* Changed name of GO:0031269 from "pseudopodium formation" to "pseudopodium assembly"
* Added definition dbxref GOC:dph to GO:0031269
* Added definition dbxref GOC:tb to GO:0031269
* Added synonym "pseudopodium formation" to GO:0031269
* Added general dbxref GOC:tb to synonym pseudopodium formation of GO:0031269
* Added general dbxref GOC:dph to synonym pseudopodium formation of GO:0031269
* Changed synonym scope of GO:0031269 from "Related" to "Exact"
* Changed name of GO:0031271 from "lateral pseudopodium formation" to "lateral pseudopodium assembly"
* Added definition dbxref GOC:dph to GO:0031271
* Added definition dbxref GOC:tb to GO:0031271
* Added synonym "lateral pseudopodium formation" to GO:0031271
* Added general dbxref GOC:tb to synonym lateral pseudopodium formation of GO:0031271
* Added general dbxref GOC:dph to synonym lateral pseudopodium formation of GO:0031271
* Changed synonym scope of GO:0031271 from "Related" to "Exact"
* Changed name of GO:0031272 from "regulation of pseudopodium formation" to "regulation of pseudopodium assembly"
* Added synonym "regulation of pseudopodium formation" to GO:0031272
* Changed synonym scope of GO:0031272 from "Related" to "Exact"
* Copied GO:0031272 to GO:0060491 with type OBO_REL:is_a
* Changed name of GO:0031273 from "negative regulation of pseudopodium formation" to "negative regulation of pseudopodium assembly"
* Added synonym "<new synonym>" to GO:0031273
* Added synonym "negative regulation of pseudopodium formation" to GO:0031273
* Changed synonym scope of GO:0031273 from "Related" to "Exact"
* Changed name of GO:0031274 from "positive regulation of pseudopodium formation" to "positive regulation of pseudopodium assembly"
* Added synonym "positive regulation of pseudopodium formation" to GO:0031274
* Added general dbxref GOC:dph to synonym positive regulation of pseudopodium formation of GO:0031274
* Changed synonym scope of GO:0031274 from "Related" to "Exact"
* Changed name of GO:0031275 from "regulation of lateral pseudopodium formation" to "regulation of lateral pseudopodium assembly"
* Added definition dbxref GOC:dph to GO:0031275
* Added definition dbxref GOC:tb to GO:0031275
* Added synonym "regulation of lateral pseudopodium formation" to GO:0031275
* Added general dbxref GOC:tb to synonym regulation of lateral pseudopodium formation of GO:0031275
* Added general dbxref GOC:dph to synonym regulation of lateral pseudopodium formation of GO:0031275
* Changed synonym scope of GO:0031275 from "Related" to "Exact"
* Changed name of GO:0031276 from "negative regulation of lateral pseudopodium formation" to "negative regulation of lateral pseudopodium assembly"
* Added definition dbxref GOC:dph to GO:0031276
* Added definition dbxref GOC:tb to GO:0031276
* Added synonym "negative regulation of lateral pseudopodium formation" to GO:0031276
* Added general dbxref GOC:dph to synonym negative regulation of lateral pseudopodium formation of GO:0031276
* Changed synonym scope of GO:0031276 from "Related" to "Exact"
* Changed name of GO:0031277 from "positive regulation of lateral pseudopodium formation" to "positive regulation of lateral pseudopodium assembly"
* Added definition dbxref GOC:dph to GO:0031277
* Added definition dbxref GOC:tb to GO:0031277
* Added synonym "positive regulation of lateral pseudopodium formation" to GO:0031277
* Changed synonym scope of GO:0031277 from "Related" to "Exact"
* Deleted GO:0031344 --OBO_REL:is_a--> GO:0022604
* Copied GO:0031344 to GO:0051128 with type OBO_REL:is_a
* Copied GO:0031383 to GO:0060491 with type OBO_REL:is_a
* Changed name of GO:0046847 from "filopodium formation" to "filopodium assembly"
* Added definition dbxref GOC:dph to GO:0046847
* Added definition dbxref GOC:tb to GO:0046847
* Added synonym "filopodium formation" to GO:0046847
* Added general dbxref GOC:tb to synonym filopodium formation of GO:0046847
* Added general dbxref GOC:dph to synonym filopodium formation of GO:0046847
* Changed synonym scope of GO:0046847 from "Related" to "Exact"
* Deleted general dbxref GOC:kad from synonym histidine:pyruvate aminotransferase activity of GO:0047312
* Added general dbxref EC:2.6.1.58 to synonym histidine:pyruvate aminotransferase activity of GO:0047312
* Changed name of GO:0051489 from "regulation of filopodium formation" to "regulation of filopodium assembly"
* Added definition dbxref GOC:dph to GO:0051489
* Added definition dbxref GOC:tb to GO:0051489
* Added synonym "regulation of filopodium formation" to GO:0051489
* Added general dbxref GOC:tb to synonym regulation of filopodium formation of GO:0051489
* Added general dbxref GOC:dph to synonym regulation of filopodium formation of GO:0051489
* Changed synonym scope of GO:0051489 from "Related" to "Exact"
* Deleted GO:0051489 --OBO_REL:is_a--> GO:0031344
* Copied GO:0051489 to GO:0060491 with type OBO_REL:is_a
* Changed name of GO:0051490 from "negative regulation of filopodium formation" to "negative regulation of filopodium assembly"
* Added synonym "negative regulation of filopodium formation" to GO:0051490
* Added general dbxref GOC:tb to synonym negative regulation of filopodium formation of GO:0051490
* Added general dbxref GOC:dph to synonym negative regulation of filopodium formation of GO:0051490
* Changed synonym scope of GO:0051490 from "Related" to "Exact"
* Changed name of GO:0051491 from "positive regulation of filopodium formation" to "positive regulation of filopodium assembly"
* Added definition dbxref GOC:dph to GO:0051491
* Added definition dbxref GOC:tb to GO:0051491
* Added synonym "positive regulation of filopodium formation" to GO:0051491
* Added general dbxref GOC:tb to synonym positive regulation of filopodium formation of GO:0051491
* Added general dbxref GOC:dph to synonym positive regulation of filopodium formation of GO:0051491
* Changed synonym scope of GO:0051491 from "Related" to "Exact"
* Copied GO:0060431 to GO:0060441 with type OBO_REL:is_a
* Added synonym "SNARE complex (Stx1a, SNAP25, VAMP)" to GO:0070044
* Added general dbxref CORUM:841 to synonym SNARE complex (Stx1a, SNAP25, VAMP) of GO:0070044
* Changed synonym scope of GO:0070044 from "Related" to "Narrow"
* Added synonym "Stx1a-SNAP25-VAMP complex" to GO:0070044
* Added general dbxref CORUM:841 to synonym Stx1a-SNAP25-VAMP complex of GO:0070044
* Changed synonym scope of GO:0070044 from "Related" to "Narrow"
* Copied GO:0070507 to GO:0051493 with type OBO_REL:is_a

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