[Go-diff] GO update 12/22/2008

Mon Dec 22 21:30:47 PST 2008

OBODIFF of gene_ontology_write.obo version 1.363 by 1.365

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0010837
* Created object of type obo:TERM with id GO:0010838
* Created object of type obo:TERM with id GO:0010839
* Created object of type obo:TERM with id GO:0010840
* Created object of type obo:TERM with id GO:0010841
* Created object of type obo:TERM with id GO:0010842
* Created object of type obo:TERM with id GO:0070217
* Populated new object GO:0010837 (macro)
  * Changed name of GO:0010837 from "<new term>" to "regulation of keratinocyte proliferation"
  * Set definition of GO:0010837 to "Any process that modulates the rate, frequency or extent of keratinocyte proliferation. Keratinocyte proliferation is the multiplication or reproduction of keratinocytes, resulting in the expansion of a cell population."
  * Added definition dbxref GOC:dph to GO:0010837
  * Added definition dbxref GOC:tb to GO:0010837
  * Copied GO:0010837 to GO:0042127 with type OBO_REL:is_a
  * Copied GO:0010837 to GO:0043616 with type regulates
  * Assigned namespace "biological_process" to GO:0010837
* Populated new object GO:0010838 (macro)
  * Changed name of GO:0010838 from "<new term>" to "positive regulation of keratinocyte proliferation"
  * Set definition of GO:0010838 to "Any process that increases the rate, frequency or extent of keratinocyte proliferation. Keratinocyte proliferation is the multiplication or reproduction of keratinocytes, resulting in the expansion of a cell population."
  * Added definition dbxref GOC:dph to GO:0010838
  * Added definition dbxref GOC:tb to GO:0010838
  * Copied GO:0010838 to GO:0008284 with type OBO_REL:is_a
  * Copied GO:0010838 to GO:0043616 with type positively_regulates
  * Copied GO:0010838 to GO:0010837 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010838
* Populated new object GO:0010839 (macro)
  * Changed name of GO:0010839 from "<new term>" to "negative regulation of keratinocyte proliferation"
  * Set definition of GO:0010839 to "Any process that decreases the rate, frequency or extent of keratinocyte proliferation. Keratinocyte proliferation is the multiplication or reproduction of keratinocytes, resulting in the expansion of a cell population."
  * Added definition dbxref GOC:dph to GO:0010839
  * Added definition dbxref GOC:tb to GO:0010839
  * Copied GO:0010839 to GO:0008285 with type OBO_REL:is_a
  * Copied GO:0010839 to GO:0043616 with type negatively_regulates
  * Copied GO:0010839 to GO:0010837 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010839
* Populated new object GO:0010840 (macro)
  * Changed name of GO:0010840 from "<new term>" to "regulation of circadian sleep/wake cycle, wakefulness"
  * Set definition of GO:0010840 to "Any process that modulates the rate, frequency, or extent of the wakeful phase of the circadian sleep/wake cycle. The wakeful phase is the part of the circadian sleep/wake cycle where the organism is not asleep."
  * Added definition dbxref GOC:dph to GO:0010840
  * Added definition dbxref GOC:tb to GO:0010840
  * Copied GO:0010840 to GO:0042746 with type regulates
  * Copied GO:0010840 to GO:0042749 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010840
* Populated new object GO:0010841 (macro)
  * Changed name of GO:0010841 from "<new term>" to "positive regulation of circadian sleep/wake cycle, wakefulness"
  * Set definition of GO:0010841 to "Any process that increases the frequency, or extent of the wakeful phase of the circadian sleep/wake cycle. The wakeful phase is the part of the circadian sleep/wake cycle where the organism is not asleep."
  * Added definition dbxref GOC:dph to GO:0010841
  * Added definition dbxref GOC:tb to GO:0010841
  * Copied GO:0010841 to GO:0010840 with type OBO_REL:is_a
  * Copied GO:0010841 to GO:0048520 with type OBO_REL:is_a
  * Copied GO:0010841 to GO:0042746 with type positively_regulates
  * Copied GO:0010841 to GO:0051240 with type OBO_REL:is_a
  * Copied GO:0010841 to GO:0042753 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010841
* Populated new object GO:0010842 (macro)
  * Changed name of GO:0010842 from "<new term>" to "retina layer formation"
  * Set definition of GO:0010842 to "The process whereby the vertebrate retina is organized into three laminae: the outer nuclear layer (ONL), which contains photoreceptor nuclei; the inner nuclear layer (INL), which contains amacrine, bipolar and
horizontal cells; and the retinal ganglion cell (RGC) layer. Between the inner and outer nuclear layers, the outer plexiform layer (OPL) contains connections between the photoreceptors and bipolar and horizontal cells. The inner plexiform layer (IPL) is positioned between the INL and the
ganglion cell layer and contains the dendrites of RGCs and processes of bipolar and amacrine cells. Spanning all layers of the retina are the
radially oriented M?ller glia."
  * Added definition dbxref GOC:dph to GO:0010842
  * Added definition dbxref GOC:tb to GO:0010842
  * Added definition dbxref PMID:1270266 to GO:0010842
  * Added synonym "retinal lamination" to GO:0010842
  * Added general dbxref GOC:tb to synonym retinal lamination of GO:0010842
  * Added general dbxref GOC:dph to synonym retinal lamination of GO:0010842
  * Changed synonym scope of GO:0010842 from "Related" to "Exact"
  * Added synonym "retinal layer formation" to GO:0010842
  * Added general dbxref GOC:tb to synonym retinal layer formation of GO:0010842
  * Added general dbxref GOC:dph to synonym retinal layer formation of GO:0010842
  * Changed synonym scope of GO:0010842 from "Related" to "Exact"
  * Copied GO:0010842 to GO:0048646 with type OBO_REL:is_a
  * Copied GO:0010842 to GO:0060042 with type part_of
  * Assigned namespace "biological_process" to GO:0010842
* Populated new object GO:0070217 (macro)
  * Changed name of GO:0070217 from "<new term>" to "transcription factor TFIIIB complex assembly"
  * Set definition of GO:0070217 to "The aggregation, arrangement and bonding together of a set of components to form a transcription factor TFIIIB complex."
  * Added definition dbxref GOC:mah to GO:0070217
  * Added synonym "TFIIIB assembly" to GO:0070217
  * Added general dbxref GOC:mah to synonym TFIIIB assembly of GO:0070217
  * Changed synonym scope of GO:0070217 from "Related" to "Exact"
  * Copied GO:0070217 to GO:0043623 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070217
* Changed definition of GO:0001957 from "The formation of bone in which osteoblasts secrete a collage-proteoglycan matrix that binds calcium salts and becomes calcified. Intramembranous ossification is the way flat bones and the shell of a turtle are formed." to "The formation of bone in which osteoblasts secrete a collagen-proteoglycan matrix that binds calcium salts and becomes calcified. Intramembranous ossification is the way flat bones and the shell of a turtle are formed."
* Copied GO:0004176 to GO:0042623 with type OBO_REL:is_a
* Changed name of GO:0008247 from "2-acetyl-1-alkylglycerophosphocholine esterase complex" to "1-alkyl-2-acetylglycerophosphocholine esterase complex"
* Deleted synonym "1-alkyl-2-acetylglycerophosphocholine esterase complex" from GO:0008247
* Added synonym "2-acetyl-1-alkylglycerophosphocholine esterase complex" to GO:0008247
* Changed synonym scope of GO:0008247 from "Related" to "Exact"
* Changed definition of GO:0008255 from "The action characteristic of ecdysis-triggering hormone, a peptide hormone that, upon receptor binding,  initiates pre-ecdysis and ecdysis (i.e. cuticle shedding) through direct action on the central nervous system." to "The action characteristic of ecdysis-triggering hormone, a peptide hormone that, upon receptor binding, initiates pre-ecdysis and ecdysis (i.e. cuticle shedding) through direct action on the central nervous system."
* Set definition of GO:0009381 to "Catalysis of the hydrolysis of ester linkages within deoxyribonucleic acid at sites flanking regions of damaged DNA to which the Uvr ABC excinuclease complexes bind."
* Added definition dbxref GOC:mah to GO:0009381
* Added definition dbxref PMID:15192705 to GO:0009381
* Changed name of GO:0010169 from "myrosinase complex" to "thioglucosidase complex"
* Deleted synonym "thioglucosidase complex" from GO:0010169
* Added synonym "myrosinase complex" to GO:0010169
* Changed synonym scope of GO:0010169 from "Related" to "Exact"
* Changed definition of GO:0019814 from "A protein complex that in its canonical form is composed of two
identical immunoglobulin heavy chains and two identical immunoglobulin light chains, held together by disulfide bonds and sometimes complexed with additional proteins. An immunoglobin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph." to "A protein complex that in its canonical form is composed of two identical immunoglobulin heavy chains and two identical immunoglobulin light chains, held together by disulfide bonds and sometimes complexed with additional proteins. An immunoglobin complex may be embedded in the plasma membrane or present in the extracellular space, in mucosal areas or other tissues, or circulating in the blood or lymph."
* Changed definition of GO:0034661 from "The chemical reactions and pathways resulting in the breakdown of non-coding RNA transcripts (ncRNAs). Includes the breakdown of cryptic unstable trascripts (CUTs)." to "The chemical reactions and pathways resulting in the breakdown of non-coding RNA transcripts (ncRNAs). Includes the breakdown of cryptic unstable transcripts (CUTs)."
* Deleted GO:0034769 --OBO_REL:is_a--> GO:0022411
* Copied GO:0034769 to GO:0022617 with type OBO_REL:is_a
* Changed definition of GO:0042571 from "An immunoglobulin complex that is secreted into extracellular space and found in mucosal areas or other tissues or circulating in the blood or lymph.  In its canonical form, a circulating immunoglobulin complex is composed of two identical heavy chains and two identical light chains, held together by disulfide bonds.  Some forms of are polymers of the basic structure and contain additional components such as J-chain and the secretory component." to "An immunoglobulin complex that is secreted into extracellular space and found in mucosal areas or other tissues or circulating in the blood or lymph. In its canonical form, a circulating immunoglobulin complex is composed of two identical heavy chains and two identical light chains, held together by disulfide bonds. Some forms of are polymers of the basic structure and contain additional components such as J-chain and the secretory component."
* Changed definition of GO:0043426 from "Interacting selectively with Myogenic Regulatory Factor (MRF), a member of the basic Helix-Loop-Helix (bHLH) superfamily of trascription factors." to "Interacting selectively with Myogenic Regulatory Factor (MRF), a member of the basic Helix-Loop-Helix (bHLH) superfamily of transcription factors."
* Changed name of GO:0045240 from "alpha-ketoglutarate dehydrogenase complex" to "dihydrolipoyl dehydrogenase complex"
* Changed definition of GO:0045240 from "Complex that possesses alpha-ketoglutarate dehydrogenase activity." to "A protein complex that possesses alpha-ketoglutarate dehydrogenase activity."
* Deleted synonym "dihydrolipoyl dehydrogenase complex" from GO:0045240
* Added synonym "alpha-ketoglutarate dehydrogenase complex" to GO:0045240
* Changed synonym scope of GO:0045240 from "Related" to "Exact"
* Added synonym "retinal development" to GO:0060041
* Added general dbxref GOC:tb to synonym retinal development of GO:0060041
* Added general dbxref GOC:dph to synonym retinal development of GO:0060041