[Go-diff] GO update 03/17/2008

Remote CVS for Gene Ontology gocvs at genome.stanford.edu
Mon Mar 17 21:30:47 PDT 2008 

OBODIFF of gene_ontology_edit.obo version 5.736 by 5.738

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0034329
* Created object of type obo:TERM with id GO:0034330
* Created object of type obo:TERM with id GO:0034331
* Created object of type obo:TERM with id GO:0034332
* Created object of type obo:TERM with id GO:0034333
* Created object of type obo:TERM with id GO:0034334
* Created object of type obo:TERM with id GO:0034335
* Created object of type obo:TERM with id GO:0034336
* Created object of type obo:TERM with id GO:0034337
* Populated new object GO:0034329 (macro)
  * Changed name of GO:0034329 from "<new term>" to "cell junction assembly"
  * Set definition of GO:0034329 to "A cellular process that results in the assembly of a cell junction."
  * Added definition dbxref GOC:mah to GO:0034329
  * Copied GO:0034329 to GO:0022607 with type OBO_REL:is_a
  * Copied GO:0034329 to GO:0034330 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034329
* Populated new object GO:0034330 (macro)
  * Changed name of GO:0034330 from "<new term>" to "cell junction assembly and maintenance"
  * Set definition of GO:0034330 to "The assembly and maintenance of junctions between cells or between a cell and its substrate."
  * Added definition dbxref GOC:mah to GO:0034330
  * Copied GO:0034330 to GO:0016043 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034330
* Populated new object GO:0034331 (macro)
  * Changed name of GO:0034331 from "<new term>" to "cell junction maintenance"
  * Set definition of GO:0034331 to "The maintenance of junctions between cells or between a cell and its substrate."
  * Added definition dbxref GOC:mah to GO:0034331
  * Copied GO:0034331 to GO:0034330 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034331
* Populated new object GO:0034332 (macro)
  * Changed name of GO:0034332 from "<new term>" to "adherens junction assembly and maintenance"
  * Set definition of GO:0034332 to "The assembly and maintenance of an adherens junction."
  * Added definition dbxref GOC:mah to GO:0034332
  * Copied GO:0034332 to GO:0045216 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034332
* Populated new object GO:0034333 (macro)
  * Changed name of GO:0034333 from "<new term>" to "adherens junction assembly"
  * Set definition of GO:0034333 to "The aggregation, arrangement and bonding together of a set of components to form an adherens junction."
  * Added definition dbxref GOC:mah to GO:0034333
  * Added synonym "adherens junction formation" to GO:0034333
  * Changed synonym scope of GO:0034333 from "Related" to "Exact"
  * Copied GO:0034333 to GO:0034332 with type OBO_REL:is_a
  * Copied GO:0034333 to GO:0034329 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034333
* Populated new object GO:0034334 (macro)
  * Changed name of GO:0034334 from "<new term>" to "adherens junction maintenance"
  * Set definition of GO:0034334 to "The maintenance of an adherens junction."
  * Added definition dbxref GOC:mah to GO:0034334
  * Copied GO:0034334 to GO:0034332 with type OBO_REL:is_a
  * Copied GO:0034334 to GO:0034331 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034334
* Populated new object GO:0034335 (macro)
  * Changed name of GO:0034335 from "<new term>" to "DNA supercoiling activity"
  * Set definition of GO:0034335 to "Catalysis of the formation of positive or negative supercoils in a DNA molecule or region thereof; may be associated with a geometric or topological change in the DNA molecule."
  * Added definition dbxref GOC:mah to GO:0034335
  * Copied GO:0034335 to GO:0016853 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034335
* Populated new object GO:0034336 (macro)
  * Changed name of GO:0034336 from "<new term>" to "misfolded RNA binding"
  * Set definition of GO:0034336 to "Interacting selectively with an RNA molecule that has assumed an incorrect conformation."
  * Added definition dbxref GOC:mah to GO:0034336
  * Added definition dbxref PMID:10393192 to GO:0034336
  * Added synonym "RNA chaperone" to GO:0034336
  * Copied GO:0034336 to GO:0003723 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0034336
* Populated new object GO:0034337 (macro)
  * Changed name of GO:0034337 from "<new term>" to "RNA folding"
  * Set definition of GO:0034337 to "The process of assisting in the covalent and noncovalent assembly of single or multimeric RNAs into the correct tertiary structure."
  * Added definition dbxref GOC:mah to GO:0034337
  * Added definition dbxref PMID:10393192 to GO:0034337
  * Added synonym "RNA chaperone" to GO:0034337
  * Copied GO:0034337 to GO:0016070 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034337
* Deleted synonym "DNA supercoiling activity" from GO:0003916
* Added synonym "hemi-adherens junction" to GO:0005924
* Changed definition of GO:0005926 from "A hemiadherens junction (HAJ) that forms juctions such that HAJs in opposing cells are separated by only 30-40nm, with a thin line of extracellular electron-dense material in between; found where muscles attach to epidermal cells directly (in insects)." to "A hemiadherens junction (HAJ) that forms one of a pair of HAJs in opposing cells that are separated by only 30-40nm, with a thin line of extracellular electron-dense material in between; found where muscles attach to epidermal cells directly (in insects)."
* Added comment "This term was made obsolete because it is a grouping term that is not useful, but has caused true path violations."
* Changed definition of GO:0006100 from "The chemical reactions and pathways involving intermediates of the tricarboxylic acid cycle." to "OBSOLETE. The chemical reactions and pathways involving intermediates of the tricarboxylic acid cycle."
* Deleted GO:0006100 --OBO_REL:is_a--> GO:0044262
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at a60d93
* Deleted GO:0006101 --OBO_REL:is_a--> GO:0006100
* Deleted GO:0006102 --OBO_REL:is_a--> GO:0006100
* Deleted GO:0006103 --OBO_REL:is_a--> GO:0006100
* Deleted GO:0006104 --OBO_REL:is_a--> GO:0006100
* Deleted GO:0006105 --OBO_REL:is_a--> GO:0006100
* Deleted GO:0006106 --OBO_REL:is_a--> GO:0006100
* Deleted GO:0006107 --OBO_REL:is_a--> GO:0006100
* Deleted GO:0006108 --OBO_REL:is_a--> GO:0006100
* Changed name of GO:0007043 from "intercellular junction assembly" to "cell-cell junction assembly"
* Added synonym "intercellular junction assembly" to GO:0007043
* Changed synonym scope of GO:0007043 from "Related" to "Exact"
* Copied GO:0007043 to GO:0034329 with type OBO_REL:is_a
* Changed definition of GO:0007044 from "The assembly of abundant stress fibers, which help maintain cell shapes and adhere cells to the substratum." to "The aggregation, arrangement and bonding together of a set of components to form a junction between a cell and its substrate."
* Deleted definition dbxref GOC:jic from GO:0007044
* Deleted definition dbxref ISBN:0716731363 from GO:0007044
* Added definition dbxref GOC:mah to GO:0007044
* Deleted GO:0007044 --OBO_REL:is_a--> GO:0022607
* Copied GO:0007044 to GO:0034329 with type OBO_REL:is_a
* Changed name of GO:0030055 from "cell-matrix junction" to "cell-substrate junction"
* Added synonym "cell-matrix junction" to GO:0030055
* Changed synonym scope of GO:0030055 from "Related" to "Exact"
* Changed synonym scope of GO:0033920 from "Broad" to "Exact"
* Changed name of GO:0045216 from "intercellular junction assembly and maintenance" to "cell-cell junction assembly and maintenance"
* Added synonym "intercellular junction assembly and maintenance" to GO:0045216
* Changed synonym scope of GO:0045216 from "Related" to "Exact"
* Deleted GO:0045216 --OBO_REL:is_a--> GO:0007028
* Copied GO:0045216 to GO:0034330 with type OBO_REL:is_a
* Changed name of GO:0045217 from "intercellular junction maintenance" to "cell-cell junction maintenance"
* Added synonym "intercellular junction maintenance" to GO:0045217
* Changed synonym scope of GO:0045217 from "Related" to "Exact"
* Copied GO:0045217 to GO:0034331 with type OBO_REL:is_a
* Added synonym "LCAT activator activity" to GO:0060228
* Added general dbxref GOC:tb to synonym LCAT activator activity of GO:0060228
* Changed synonym scope of GO:0060228 from "Related" to "Narrow"

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