[Go-diff] GO update 05/18/2009

Remote CVS for Gene Ontology gocvs at genome.stanford.edu
Mon May 18 21:30:53 PDT 2009 

OBODIFF of gene_ontology_write.obo version 1.613 by 1.615

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0060614
* Created object of type obo:TERM with id GO:0060615
* Created object of type obo:TERM with id GO:0060616
* Created object of type obo:TERM with id GO:0060617
* Created object of type obo:TERM with id GO:0060618
* Created object of type obo:TERM with id GO:0060619
* Created object of type obo:TERM with id GO:0060620
* Created object of type obo:TERM with id GO:0060621
* Created object of type obo:TERM with id GO:0060622
* Created object of type obo:TERM with id GO:0060623
* Created object of type obo:TERM with id GO:0060624
* Created object of type obo:TERM with id GO:0060625
* Created object of type obo:TERM with id GO:0060626
* Created object of type obo:TERM with id GO:0060627
* Created object of type obo:TERM with id GO:0060628
* Created object of type obo:TERM with id GO:0060629
* Created object of type obo:TERM with id GO:0060630
* Created object of type obo:TERM with id GO:0060631
* Created object of type obo:TERM with id GO:0060632
* Created object of type obo:TERM with id GO:0060633
* Created object of type obo:TERM with id GO:0060634
* Created object of type obo:TERM with id GO:0060635
* Created object of type obo:TERM with id GO:0060636
* Populated new object GO:0060614 (macro)
  * Changed name of GO:0060614 from "<new term>" to "negative regulation of mammary gland development by androgen receptor signaling pathway"
  * Set definition of GO:0060614 to "Any process that decreases the rate or extent of mammary gland development by an androgen binding to its receptor, causing a change in state or activity of a cell."
  * Added definition dbxref GOC:dph to GO:0060614
  * Copied GO:0060614 to GO:0030879 with type negatively_regulates
  * Copied GO:0060614 to GO:0030521 with type OBO_REL:is_a
  * Copied GO:0060614 to GO:0051239 with type OBO_REL:is_a
  * Copied GO:0060614 to GO:0051093 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060614
* Populated new object GO:0060615 (macro)
  * Changed name of GO:0060615 from "<new term>" to "mammary gland bud formation"
  * Set definition of GO:0060615 to "The morphogenetic process by which a bud forms from the mammary placode. A mammary bud is bulb of epithelial cells that is distinct from the surrounding epidermis."
  * Added definition dbxref GOC:dph to GO:0060615
  * Added definition dbxref PMID:12558599 to GO:0060615
  * Copied GO:0060615 to GO:0016331 with type OBO_REL:is_a
  * Copied GO:0060615 to GO:0060572 with type OBO_REL:is_a
  * Copied GO:0060615 to GO:0060603 with type part_of
  * Assigned namespace "biological_process" to GO:0060615
* Populated new object GO:0060616 (macro)
  * Changed name of GO:0060616 from "<new term>" to "mammary gland cord formation"
  * Set definition of GO:0060616 to "The process by which the mammary gland cord. The cord forms by elongation of the mammary bud."
  * Added definition dbxref GOC:dph to GO:0060616
  * Added definition dbxref PMID:12558599 to GO:0060616
  * Added synonym "mammary gland sprout formation" to GO:0060616
  * Added general dbxref GOC:dph to synonym mammary gland sprout formation of GO:0060616
  * Changed synonym scope of GO:0060616 from "Related" to "Exact"
  * Copied GO:0060616 to GO:0016331 with type OBO_REL:is_a
  * Copied GO:0060616 to GO:0060603 with type part_of
  * Assigned namespace "biological_process" to GO:0060616
* Populated new object GO:0060617 (macro)
  * Changed name of GO:0060617 from "<new term>" to "mesenchymal-epithelial signaling involved in mammary placode formation"
  * Set definition of GO:0060617 to "Any process that mediates the transfer of information from a mesenchymal cell to an epithelial cell that results in the formation of a mammary placode."
  * Added definition dbxref GOC:dph to GO:0060617
  * Added definition dbxref PMID:12558599 to GO:0060617
  * Copied GO:0060617 to GO:0007267 with type OBO_REL:is_a
  * Copied GO:0060617 to GO:0060596 with type part_of
  * Assigned namespace "biological_process" to GO:0060617
* Populated new object GO:0060618 (macro)
  * Changed name of GO:0060618 from "<new term>" to "nipple development"
  * Set definition of GO:0060618 to "The progression of the nipple over time, from its formation to the mature structure. The nipple is a part of the mammary gland that protrudes from the surface ectoderm."
  * Added definition dbxref GOC:dph to GO:0060618
  * Copied GO:0060618 to GO:0030879 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060618
* Populated new object GO:0060619 (macro)
  * Changed name of GO:0060619 from "<new term>" to "cell migration involved in mammary placode formation"
  * Set definition of GO:0060619 to "The orderly movement of epithelial cells within the mammary line that contributes to the formation of the mammary placode."
  * Added definition dbxref GOC:dph to GO:0060619
  * Added definition dbxref PMID:12558599 to GO:0060619
  * Copied GO:0060619 to GO:0010631 with type OBO_REL:is_a
  * Copied GO:0060619 to GO:0060596 with type part_of
  * Assigned namespace "biological_process" to GO:0060619
* Populated new object GO:0060620 (macro)
  * Changed name of GO:0060620 from "<new term>" to "regulation of cholesterol import"
  * Set definition of GO:0060620 to "Any process that modulates the rate, frequency or extent of cholesterol import. Cholesterol import is the directed movement of cholesterol into a cell or organelle."
  * Added definition dbxref GOC:dph to GO:0060620
  * Added definition dbxref GOC:tb to GO:0060620
  * Copied GO:0060620 to GO:0032374 with type OBO_REL:is_a
  * Copied GO:0060620 to GO:0070508 with type regulates
  * Assigned namespace "biological_process" to GO:0060620
* Populated new object GO:0060621 (macro)
  * Changed name of GO:0060621 from "<new term>" to "negative regulation of cholesterol import"
  * Set definition of GO:0060621 to "Any process that decreases the rate, frequency or extent of cholesterol import. Cholesterol import is the directed movement of cholesterol into a cell or organelle."
  * Added definition dbxref GOC:dph to GO:0060621
  * Added definition dbxref GOC:tb to GO:0060621
  * Copied GO:0060621 to GO:0060620 with type OBO_REL:is_a
  * Copied GO:0060621 to GO:0032375 with type OBO_REL:is_a
  * Copied GO:0060621 to GO:0070508 with type negatively_regulates
  * Assigned namespace "biological_process" to GO:0060621
* Populated new object GO:0060622 (macro)
  * Changed name of GO:0060622 from "<new term>" to "regulation of ascospore wall beta-glucan biosynthetic process"
  * Set definition of GO:0060622 to "Any process that modulates the rate, frequency or extent of ascospore wall beta-glucan biosynthetic process, the chemical reactions and pathways resulting in the formation of beta-glucans, compounds composed of glucose residues linked by beta-D-glucosidic bonds, found in the walls of ascospores."
  * Added definition dbxref GOC:dph to GO:0060622
  * Added definition dbxref GOC:tb to GO:0060622
  * Copied GO:0060622 to GO:0032951 with type OBO_REL:is_a
  * Copied GO:0060622 to GO:0034412 with type regulates
  * Assigned namespace "biological_process" to GO:0060622
* Populated new object GO:0060623 (macro)
  * Changed name of GO:0060623 from "<new term>" to "regulation of chromosome condensation"
  * Set definition of GO:0060623 to "Any process that modulates the rate, frequency, or extent of chromosome condensation, the progressive compaction of dispersed interphase chromatin into threadlike chromosomes prior to mitotic or meiotic nuclear division, or during apoptosis, in eukaryotic cells."
  * Added definition dbxref GOC:dph to GO:0060623
  * Added definition dbxref GOC:tb to GO:0060623
  * Copied GO:0060623 to GO:0051128 with type OBO_REL:is_a
  * Copied GO:0060623 to GO:0030261 with type regulates
  * Assigned namespace "biological_process" to GO:0060623
* Populated new object GO:0060624 (macro)
  * Changed name of GO:0060624 from "<new term>" to "regulation of ascospore wall 1,3-beta-glucan biosynthetic process"
  * Set definition of GO:0060624 to "Any process that modulates the rate, frequency, or extent of ascospore wall 1,3-beta-glucan biosynthetic process, the chemical reactions and pathways resulting in the formation of 1,3-beta-glucans, compounds composed of glucose residues linked by 1,3-beta-D-glucosidic bonds, found in the walls of ascospores."
  * Added definition dbxref GOC:dph to GO:0060624
  * Added definition dbxref GOC:tb to GO:0060624
  * Copied GO:0060624 to GO:0034413 with type regulates
  * Copied GO:0060624 to GO:0060622 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060624
* Populated new object GO:0060625 (macro)
  * Changed name of GO:0060625 from "<new term>" to "regulation of protein deneddylation"
  * Set definition of GO:0060625 to "Any process that modulates the rate, frequency, or extent of protein deneddylation, the removal of a ubiquitin-like protein of the NEDD8 type from a protein."
  * Added definition dbxref GOC:dph to GO:0060625
  * Added definition dbxref GOC:tb to GO:0060625
  * Copied GO:0060625 to GO:0000338 with type regulates
  * Copied GO:0060625 to GO:0031399 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060625
* Populated new object GO:0060626 (macro)
  * Changed name of GO:0060626 from "<new term>" to "regulation of cullin deneddylation"
  * Set definition of GO:0060626 to "Any process that modulates the rate, frequency or extent of cullin deneddylation, the modification of cullins by removal of ubiquitin-like protein NEDD8 (RUB1)."
  * Added definition dbxref GOC:dph to GO:0060626
  * Added definition dbxref GOC:tb to GO:0060626
  * Copied GO:0060626 to GO:0010388 with type regulates
  * Copied GO:0060626 to GO:0060625 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060626
* Populated new object GO:0060627 (macro)
  * Changed name of GO:0060627 from "<new term>" to "regulation of vesicle-mediated transport"
  * Set definition of GO:0060627 to "Any process that modulates the rate, frequency, or extent of vesicle-mediated transport, the directed movement of substances, either within a vesicle or in the vesicle membrane, into, out of or within a cell."
  * Added definition dbxref GOC:dph to GO:0060627
  * Added definition dbxref GOC:tb to GO:0060627
  * Copied GO:0060627 to GO:0050794 with type OBO_REL:is_a
  * Copied GO:0060627 to GO:0016192 with type regulates
  * Copied GO:0060627 to GO:0051049 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060627
* Populated new object GO:0060628 (macro)
  * Changed name of GO:0060628 from "<new term>" to "regulation of ER to Golgi vesicle-mediated transport"
  * Set definition of GO:0060628 to "Any process that modulates the rate, frequency, or extent of ER to Golgi vesicle-mediated transport, the directed movement of substances from the endoplasmic reticulum (ER) to the Golgi, mediated by COP II vesicles. Small COP II coated vesicles form from the ER and then fuse directly with the cis-Golgi. Larger structures are transported along microtubules to the cis-Golgi."
  * Added definition dbxref GOC:dph to GO:0060628
  * Added definition dbxref GOC:tb to GO:0060628
  * Copied GO:0060628 to GO:0060627 with type OBO_REL:is_a
  * Copied GO:0060628 to GO:0006888 with type regulates
  * Assigned namespace "biological_process" to GO:0060628
* Populated new object GO:0060629 (macro)
  * Changed name of GO:0060629 from "<new term>" to "regulation of homologous chromosome segregation"
  * Set definition of GO:0060629 to "Any process that modulates the rate, frequency, or extent of homologous chromosome segregation, the cell cycle process whereby replicated homologous chromosomes are organized and then physically separated and apportioned to two sets during the first division of the meiotic cell cycle. Each replicated chromosome, composed of two sister chromatids, aligns at the cell equator, paired with its homologous partner; this pairing off, referred to as synapsis, permits genetic recombination. One homolog (both sister chromatids) of each morphologic type goes into each of the resulting chromosome sets."
  * Added definition dbxref GOC:dph to GO:0060629
  * Added definition dbxref GOC:tb to GO:0060629
  * Copied GO:0060629 to GO:0045143 with type regulates
  * Copied GO:0060629 to GO:0060631 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060629
* Populated new object GO:0060630 (macro)
  * Changed name of GO:0060630 from "<new term>" to "regulation of M/G1 transition of mitotic cell cycle"
  * Set definition of GO:0060630 to "Any process that modulates the rate, frequency, or extent of M/G1 transition of the mitotic cell cycle, the progression from M phase to G1 phase of the mitotic cell cycle."
  * Added definition dbxref GOC:dph to GO:0060630
  * Added definition dbxref GOC:tb to GO:0060630
  * Copied GO:0060630 to GO:0000216 with type regulates
  * Copied GO:0060630 to GO:0010564 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060630
* Populated new object GO:0060631 (macro)
  * Changed name of GO:0060631 from "<new term>" to "regulation of meiosis I"
  * Set definition of GO:0060631 to "Any process that modulates the rate, frequency , or extent of meiosis I, a cell cycle process comprising the steps by which a cell progresses through the first phase of meiosis, in which cells divide and homologous chromosomes are paired and segregated from each other, producing two daughter cells."
  * Added definition dbxref GOC:dph to GO:0060631
  * Added definition dbxref GOC:tb to GO:0060631
  * Copied GO:0060631 to GO:0007127 with type regulates
  * Copied GO:0060631 to GO:0040020 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060631
* Populated new object GO:0060632 (macro)
  * Changed name of GO:0060632 from "<new term>" to "regulation of microtubule-based movement"
  * Set definition of GO:0060632 to "Any process that modulates the rate, frequency, or extent of microtubule-based movement, the movement of organelles, other microtubules and other particles along microtubules, mediated by motor proteins."
  * Added definition dbxref GOC:dph to GO:0060632
  * Added definition dbxref GOC:tb to GO:0060632
  * Copied GO:0060632 to GO:0032886 with type OBO_REL:is_a
  * Copied GO:0060632 to GO:0007018 with type regulates
  * Assigned namespace "biological_process" to GO:0060632
* Populated new object GO:0060633 (macro)
  * Changed name of GO:0060633 from "<new term>" to "negative regulation of transcription initiation from RNA polymerase II promoter"
  * Set definition of GO:0060633 to "Any process that decreases the rate, frequency or extent of a process involved in starting transcription from the RNA polymerase II promoter."
  * Added definition dbxref GOC:dph to GO:0060633
  * Added definition dbxref GOC:tb to GO:0060633
  * Copied GO:0060633 to GO:0060260 with type OBO_REL:is_a
  * Copied GO:0060633 to GO:0006367 with type negatively_regulates
  * Assigned namespace "biological_process" to GO:0060633
* Populated new object GO:0060634 (macro)
  * Changed name of GO:0060634 from "<new term>" to "regulation of 4,6-pyruvylated galactose residue biosynthetic process"
  * Set definition of GO:0060634 to "Any process that modulates the rate, frequency, or extent of 4,6-pyruvylated galactose residue biosynthetic process, the chemical reactions and pathways resulting in the formation of the pyruvylated galactose residue 4-6-O-[(R)(1-carboxyethylidine)]-Gal-beta-1,3-. The galactose residue is part of a larger polysaccharide chain."
  * Added definition dbxref GOC:dph to GO:0060634
  * Added definition dbxref GOC:tb to GO:0060634
  * Copied GO:0060634 to GO:0051072 with type regulates
  * Copied GO:0060634 to GO:0032885 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060634
* Populated new object GO:0060635 (macro)
  * Changed name of GO:0060635 from "<new term>" to "positive regulation of 1,3-beta-glucan biosynthetic process"
  * Set definition of GO:0060635 to "Any process that increases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of beta-1,3 glucans."
  * Added definition dbxref GOC:dph to GO:0060635
  * Added definition dbxref GOC:tb to GO:0060635
  * Copied GO:0060635 to GO:0006075 with type positively_regulates
  * Copied GO:0060635 to GO:0032953 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060635
* Populated new object GO:0060636 (macro)
  * Changed name of GO:0060636 from "<new term>" to "negative regulation of 1,3-beta-glucan biosynthetic process"
  * Set definition of GO:0060636 to "Any process that decreases the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of beta-1,3 glucans."
  * Added definition dbxref GOC:dph to GO:0060636
  * Added definition dbxref GOC:tb to GO:0060636
  * Copied GO:0060636 to GO:0006075 with type negatively_regulates
  * Copied GO:0060636 to GO:0032953 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060636
* Copied GO:0010516 to GO:0080135 with type OBO_REL:is_a
* Changed definition of GO:0032953 from "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways relusting in the formation of beta-1,3 glucans." to "Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the formation of beta-1,3 glucans."
* Changed name of GO:0035148 from "lumen formation" to "tube lumen formation"
* Copied GO:0060431 to GO:0016331 with type OBO_REL:is_a
* Copied GO:0060513 to GO:0016331 with type OBO_REL:is_a
* Changed name of GO:0060605 from "lumen cavitation" to "tube lumen cavitation"
* Changed name of GO:0060606 from "sealing an epithelial fold to form a lumen" to "tube closure"
* Changed name of GO:0060609 from "apoptosis involved in lumen cavitation" to "apoptosis involved in tube lumen cavitation"

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