[Go-diff] GO update 04/11/2008

Remote CVS for Gene Ontology gocvs at genome.stanford.edu
Fri Apr 11 21:30:46 PDT 2008 

OBODIFF of gene_ontology_write.obo version 1.26 by 1.29

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0034397
* Created object of type obo:TERM with id GO:0034398
* Created object of type obo:TERM with id GO:0034399
* Created object of type obo:TERM with id GO:0034400
* Created object of type obo:TERM with id GO:0034401
* Created object of type obo:TERM with id GO:0034402
* Created object of type obo:TERM with id GO:0034403
* Created object of type obo:TERM with id GO:0055115
* Created object of type obo:TERM with id GO:0055116
* Created object of type obo:TERM with id GO:0060232
* Created object of type obo:TERM with id GO:0060233
* Created object of type obo:TERM with id GO:0060234
* Populated new object GO:0034397 (macro)
  * Changed name of GO:0034397 from "<new term>" to "telomere localization"
  * Set definition of GO:0034397 to "The processes by which a telomere is transported to, and/or maintained in, a specific location."
  * Added definition dbxref GOC:mah to GO:0034397
  * Copied GO:0034397 to GO:0032200 with type OBO_REL:is_a
  * Copied GO:0034397 to GO:0050000 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034397
* Populated new object GO:0034398 (macro)
  * Changed name of GO:0034398 from "<new term>" to "telomere tethering at nuclear periphery"
  * Set definition of GO:0034398 to "The process by which a telomere is maintained in a specific location at the nuclear periphery."
  * Added definition dbxref GOC:mah to GO:0034398
  * Copied GO:0034398 to GO:0034397 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034398
* Populated new object GO:0034399 (macro)
  * Changed name of GO:0034399 from "<new term>" to "nuclear periphery"
  * Set definition of GO:0034399 to "The region of the nucleus adjacent to the nuclear envelope."
  * Added definition dbxref GOC:krc to GO:0034399
  * Copied GO:0034399 to GO:0044428 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034399
* Populated new object GO:0034400 (macro)
  * Changed name of GO:0034400 from "<new term>" to "gerontoplast"
  * Set definition of GO:0034400 to "A plastid found in senescing, formerly green tissues that is derived from a chloroplast that undergoes an organized developmental  program of senescence."
  * Added definition dbxref PMID:12654863 to GO:0034400
  * Added definition dbxref PMID:16151876 to GO:0034400
  * Copied GO:0034400 to GO:0009536 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0034400
* Populated new object GO:0034401 (macro)
  * Changed name of GO:0034401 from "<new term>" to "establishment and/or maintenance of chromatin architecture during transcription"
  * Set definition of GO:0034401 to "The specification, formation and maintenance of the physical structure of eukaryotic chromatin during transcription."
  * Added definition dbxref GOC:curators to GO:0034401
  * Copied GO:0034401 to GO:0006325 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034401
* Populated new object GO:0034402 (macro)
  * Changed name of GO:0034402 from "<new term>" to "recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex"
  * Set definition of GO:0034402 to "The process by which proteins required for 3'-end transcript processing become associated with the RNA polymerase II holoenzyme complex and the 3' end of a transcript."
  * Added definition dbxref PMID:18195044 to GO:0034402
  * Copied GO:0034402 to GO:0031124 with type part_of
  * Copied GO:0034402 to GO:0022618 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034402
* Populated new object GO:0034403 (macro)
  * Changed name of GO:0034403 from "<new term>" to "alignment of 3' and 5' splice sites of nuclear mRNA"
  * Set definition of GO:0034403 to "Recognition of both the 5' and 3'-splice sites and
positioning them in the correct alignment with respect to each other so that the second catalytic step of nuclear mRNA splicing can occur."
  * Added definition dbxref GOC:krc to GO:0034403
  * Added definition dbxref PMID:9430647 to GO:0034403
  * Copied GO:0034403 to GO:0000350 with type part_of
  * Copied GO:0034403 to GO:0000389 with type OBO_REL:is_a
  * Copied GO:0034403 to GO:0000395 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0034403
* Populated new object GO:0055115 (macro)
  * Changed name of GO:0055115 from "<new term>" to "diapause"
  * Set definition of GO:0055115 to "A neurohormonally mediated, dynamic state of low metabolic activity. Associated characteristics of this form of dormancy include reduced morphogenesis, increased resistance to environmental extremes, and altered or reduced behavioral activity. Full expression develops in a species-specific manner, usually in response to a number of environmental stimuli that precede unfavorable conditions. Once diapause has begun, metabolic activity is suppressed even if conditions favorable for development prevail. Once initiated, only certain stimuli are capable of releasing the organism from this state, and this characteristic is essential in distinguishing diapause from hibernation."
  * Added definition dbxref GOC:ds to GO:0055115
  * Added definition dbxref GOC:jid to GO:0055115
  * Copied GO:0055115 to GO:0022611 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0055115
* Populated new object GO:0055116 (macro)
  * Changed name of GO:0055116 from "<new term>" to "reproductive diapause"
  * Set definition of GO:0055116 to "A form of diapause where the organism itself will remain fully active, including feeding and other routine activities, but the reproductive organs experience a tissue-specific reduction in metabolism, with characteristic triggering and releasing stimuli."
  * Added definition dbxref GOC:ds to GO:0055116
  * Added definition dbxref GOC:jid to GO:0055116
  * Copied GO:0055116 to GO:0055115 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0055116
* Populated new object GO:0060232 (macro)
  * Changed name of GO:0060232 from "<new term>" to "delamination"
  * Set definition of GO:0060232 to "The negative regulation of cell adhesion process by which a cell or sheet of cells splits off of an existing epithelial sheet."
  * Added definition dbxref GOC:dph to GO:0060232
  * Added definition dbxref PMID:16962574 to GO:0060232
  * Added definition dbxref PMID:18343170 to GO:0060232
  * Copied GO:0060232 to GO:0022408 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060232
* Populated new object GO:0060233 (macro)
  * Changed name of GO:0060233 from "<new term>" to "oenocyte delamination"
  * Set definition of GO:0060233 to "The negative regulation of cell adhesion process by which an oenocyte splits off of an existing epithelial sheet."
  * Added definition dbxref GOC:dph to GO:0060233
  * Copied GO:0060233 to GO:0060232 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060233
* Populated new object GO:0060234 (macro)
  * Changed name of GO:0060234 from "<new term>" to "neuroblast delamination"
  * Set definition of GO:0060234 to "The negative regulation of cell adhesion process by which a neuroblast slits off of a neurectodermal sheet."
  * Added definition dbxref GOC:dph to GO:0060234
  * Copied GO:0060234 to GO:0060232 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060234
* Changed name of GO:0000391 from "U2-dependent spliceosome disassembly" to "U2-type spliceosome disassembly"
* Deleted synonym "U2-type spliceosome disassembly" from GO:0000391
* Changed name of GO:0000392 from "U12-dependent spliceosome disassembly" to "U12-type spliceosome disassembly"
* Deleted synonym "U12-type spliceosome disassembly" from GO:0000392
* Deleted GO:0000786 --OBO_REL:is_a--> GO:0043234
* Copied GO:0000786 to GO:0032993 with type OBO_REL:is_a
* Copied GO:0001837 to GO:0060232 with type OBO_REL:is_a
* Copied GO:0002500 to GO:0007039 with type OBO_REL:is_a
* Copied GO:0006853 to GO:0032365 with type OBO_REL:is_a
* Deleted GO:0007041 --OBO_REL:is_a--> GO:0046907
* Copied GO:0007041 to GO:0007034 with type OBO_REL:is_a
* Copied GO:0016456 to GO:0030529 with type OBO_REL:is_a
* Copied GO:0019090 to GO:0006839 with type OBO_REL:is_a
* Added synonym "metachromatic granule" to GO:0020022
* Added general dbxref PMID:15738951 to synonym metachromatic granule of GO:0020022
* Changed synonym scope of GO:0020022 from "Related" to "Exact"
* Added synonym "polyphosphate vacuole" to GO:0020022
* Added general dbxref PMID:15738951 to synonym polyphosphate vacuole of GO:0020022
* Added synonym "volutin granule" to GO:0020022
* Added general dbxref PMID:15738951 to synonym volutin granule of GO:0020022
* Changed synonym scope of GO:0020022 from "Related" to "Exact"
* Copied GO:0030033 to GO:0030031 with type OBO_REL:is_a
* Deleted GO:0030709 --OBO_REL:is_a--> GO:0022408
* Copied GO:0030709 to GO:0060232 with type OBO_REL:is_a
* Deleted GO:0032122 --OBO_REL:is_a--> GO:0006996
* Copied GO:0032122 to GO:0030030 with type OBO_REL:is_a
* Deleted GO:0033298 --OBO_REL:is_a--> GO:0006996
* Copied GO:0033298 to GO:0007033 with type OBO_REL:is_a
* Changed definition of GO:0042714 from "The aggregation, arrangement and bonding together of proteins on DNA to form the complex that mediates dosage compensation on one or more X chromosomes." to "The aggregation, arrangement and bonding together of proteins on DNA or RNA to form the complex that mediates dosage compensation on one or more X chromosomes."
* Deleted GO:0042714 --OBO_REL:is_a--> GO:0065004
* Copied GO:0042714 to GO:0065003 with type OBO_REL:is_a
* Copied GO:0043001 to GO:0006886 with type OBO_REL:is_a
* Copied GO:0043504 to GO:0032042 with type OBO_REL:is_a
* Changed name of GO:0045141 from "telomere clustering" to "meiotic telomere clustering"
* Copied GO:0045141 to GO:0034397 with type OBO_REL:is_a
* Deleted GO:0046536 --OBO_REL:is_a--> GO:0043234
* Copied GO:0046536 to GO:0044421 with type OBO_REL:is_a
* Changed name of GO:0048268 from "clathrin cage assembly" to "clathrin coat assembly"
* Changed definition of GO:0048268 from "Assembly of clathrin triskelia into clathrin cage." to "The process by which clathrin triskelia are assembled into the ordered structure known as a clathrin cage."
* Deleted synonym "clathrin coat assembly" from GO:0048268
* Added synonym "clathrin cage assembly" to GO:0048268
* Changed synonym scope of GO:0048268 from "Related" to "Exact"
* Copied GO:0048268 to GO:0006461 with type OBO_REL:is_a
* Deleted GO:0048753 --OBO_REL:is_a--> GO:0006996
* Copied GO:0048753 to GO:0016050 with type OBO_REL:is_a
* Added synonym "compartment boundary formation" to GO:0048859
* Added general dbxref GOC:dph to synonym compartment boundary formation of GO:0048859
* Changed synonym scope of GO:0048859 from "Related" to "Narrow"
* Deleted GO:0051417 --OBO_REL:is_a--> GO:0007020
* Copied GO:0051417 to GO:0051418 with type OBO_REL:is_a
* Deleted GO:0055112 --OBO_REL:is_a--> GO:0022408
* Copied GO:0055112 to GO:0060232 with type OBO_REL:is_a

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