[Go-diff] GO update 05/07/2009

Thu May 7 21:30:54 PDT 2009

OBODIFF of gene_ontology_write.obo version 1.595 by 1.598

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0060579
* Created object of type obo:TERM with id GO:0060580
* Created object of type obo:TERM with id GO:0060581
* Created object of type obo:TERM with id GO:0060582
* Created object of type obo:TERM with id GO:0070635
* Created object of type obo:TERM with id GO:0070636
* Created object of type obo:TERM with id GO:0070637
* Created object of type obo:TERM with id GO:0070638
* Populated new object GO:0060579 (macro)
  * Changed name of GO:0060579 from "<new term>" to "ventral spinal cord interneuron fate commitment"
  * Set definition of GO:0060579 to "The process whereby the developmental fate of a cell becomes restricted such that it will develop into a ventral spinal cord interneuron. Ventral spinal cord interneurons are cells located in the ventral portion of the spinal cord that transmit signals between sensory and motor neurons and are required for reflexive responses."
  * Added definition dbxref GOC:dph to GO:0060579
  * Copied GO:0060579 to GO:0021514 with type part_of
  * Copied GO:0060579 to GO:0048663 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060579
* Populated new object GO:0060580 (macro)
  * Changed name of GO:0060580 from "<new term>" to "ventral spinal cord interneuron fate determination"
  * Set definition of GO:0060580 to "The process whereby a cell becomes capable of differentiating autonomously into a ventral spinal cord interneuron regardless of its environment; upon determination, the cell fate cannot be reversed. Ventral spinal cord interneurons are cells located in the ventral portion of the spinal cord that transmit signals between sensory and motor neurons and are required for reflexive responses."
  * Added definition dbxref GOC:dph to GO:0060580
  * Copied GO:0060580 to GO:0060579 with type part_of
  * Copied GO:0060580 to GO:0048664 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060580
* Populated new object GO:0060581 (macro)
  * Changed name of GO:0060581 from "<new term>" to "cell fate commitment involved in pattern specification"
  * Set definition of GO:0060581 to "The commitment of cells to specific cell fates and their capacity to differentiate into particular kinds of cells within a field of cells that will exhibit a certain pattern of differentiation. Positional information is established through protein signals that emanate from a localized source within a developmental field resulting in specification of a cell type. Those signals are then interpreted in a cell-autonomous manner resulting in the determination of the cell type."
  * Added definition dbxref GOC:dph to GO:0060581
  * Copied GO:0060581 to GO:0007389 with type part_of
  * Copied GO:0060581 to GO:0045165 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0060581
* Populated new object GO:0060582 (macro)
  * Changed name of GO:0060582 from "<new term>" to "cell fate determination involved in pattern specification"
  * Set definition of GO:0060582 to "A process involved in commitment of a cell to a fate in a developmental field. Once determination has taken place, a cell becomes committed to differentiate down a particular pathway regardless of its environment."
  * Added definition dbxref GOC:dph to GO:0060582
  * Copied GO:0060582 to GO:0001709 with type OBO_REL:is_a
  * Copied GO:0060582 to GO:0060581 with type part_of
  * Assigned namespace "biological_process" to GO:0060582
* Populated new object GO:0070635 (macro)
  * Changed name of GO:0070635 from "<new term>" to "nicotinamide riboside hydrolase activity"
  * Set definition of GO:0070635 to "Catalysis of the reaction: nicotinamide riboside + H2O = nicotinamide + D-ribose."
  * Added definition dbxref MetaCyc:RXN-8441 to GO:0070635
  * Added definition dbxref PMID:19001417 to GO:0070635
  * Added general dbxref EC:3.2.2.- to GO:0070635
  * Added general dbxref MetaCyc:RXN-8441 to GO:0070635
  * Added synonym "N-ribosylnicotinamide hydrolase activity" to GO:0070635
  * Added general dbxref ChEBI:15927 to synonym N-ribosylnicotinamide hydrolase activity of GO:0070635
  * Changed synonym scope of GO:0070635 from "Related" to "Exact"
  * Added synonym "nicotinamide ribonucleoside hydrolase activity" to GO:0070635
  * Added general dbxref ChEBI:15927 to synonym nicotinamide ribonucleoside hydrolase activity of GO:0070635
  * Changed synonym scope of GO:0070635 from "Related" to "Exact"
  * Copied GO:0070635 to GO:0016799 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070635
* Populated new object GO:0070636 (macro)
  * Changed name of GO:0070636 from "<new term>" to "nicotinic acid riboside hydrolase activity"
  * Set definition of GO:0070636 to "Catalysis of the reaction: nicotinic acid riboside + H2O = nicotinic acid + D-ribose."
  * Added definition dbxref GOC:mah to GO:0070636
  * Added definition dbxref PMID:19001417 to GO:0070636
  * Added general dbxref EC:3.2.2.- to GO:0070636
  * Added synonym "D-ribosylnicotinic acid hydrolase activity" to GO:0070636
  * Added general dbxref ChEBI:27748 to synonym D-ribosylnicotinic acid hydrolase activity of GO:0070636
  * Changed synonym scope of GO:0070636 from "Related" to "Exact"
  * Added synonym "nicotinic acid ribonucleoside hydrolase activity" to GO:0070636
  * Added general dbxref GOC:mah to synonym nicotinic acid ribonucleoside hydrolase activity of GO:0070636
  * Changed synonym scope of GO:0070636 from "Related" to "Exact"
  * Copied GO:0070636 to GO:0016799 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070636
* Populated new object GO:0070637 (macro)
  * Changed name of GO:0070637 from "<new term>" to "pyridine nucleoside metabolic process"
  * Set definition of GO:0070637 to "The chemical reactions and pathways involving any pyridine nucleoside, a nucleoside in which a pyridine base covalently bonded to a sugar, usually ribose."
  * Added definition dbxref ChEBI:47896 to GO:0070637
  * Added definition dbxref GOC:mah to GO:0070637
  * Added GO:0070637 to category gosubset_prok
  * Added synonym "pyridine nucleoside metabolism" to GO:0070637
  * Added general dbxref GOC:mah to synonym pyridine nucleoside metabolism of GO:0070637
  * Changed synonym scope of GO:0070637 from "Related" to "Exact"
  * Copied GO:0070637 to GO:0009116 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070637
* Populated new object GO:0070638 (macro)
  * Changed name of GO:0070638 from "<new term>" to "pyridine nucleoside catabolic process"
  * Set definition of GO:0070638 to "The chemical reactions and pathways resulting in the breakdown of any pyridine nucleoside, a nucleoside in which a pyridine base covalently bonded to a sugar, usually ribose."
  * Added definition dbxref ChEBI:47896 to GO:0070638
  * Added definition dbxref GOC:mah to GO:0070638
  * Added GO:0070638 to category gosubset_prok
  * Added synonym "pyridine nucleoside breakdown" to GO:0070638
  * Added general dbxref GOC:mah to synonym pyridine nucleoside breakdown of GO:0070638
  * Changed synonym scope of GO:0070638 from "Related" to "Exact"
  * Added synonym "pyridine nucleoside catabolism" to GO:0070638
  * Added general dbxref GOC:mah to synonym pyridine nucleoside catabolism of GO:0070638
  * Changed synonym scope of GO:0070638 from "Related" to "Exact"
  * Added synonym "pyridine nucleoside degradation" to GO:0070638
  * Added general dbxref GOC:mah to synonym pyridine nucleoside degradation of GO:0070638
  * Changed synonym scope of GO:0070638 from "Related" to "Exact"
  * Copied GO:0070638 to GO:0070637 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070638
* Changed name of GO:0000752 from "agglutination during conjugation with cellular fusion" to "agglutination involved in conjugation with cellular fusion"
* Changed name of GO:0000758 from "agglutination during conjugation without cellular fusion" to "agglutination involved in conjugation without cellular fusion"
* Changed name of GO:0000771 from "agglutination" to "agglutination involved in conjugation"
* Deleted general dbxref Wikipedia:Agglutination from GO:0000771
* Changed definition of GO:0002139 from "A structure involved in coupling stereocilia to one another in sensory hair cells There are 4 morphologically distinct types:tip links, horizontal top connectors, shaft connectors and ankle links. Tip links and horizontal top connectors are the only inter-stereocilia links associated with mature cochlea, whereas ankle links appear during development of the auditory hair bundle." to "A structure involved in coupling stereocilia to one another in sensory hair cells There are four morphologically distinct types: tip links, horizontal top connectors, shaft connectors and ankle links. Tip links and horizontal top connectors are the only inter-stereocilia links associated with mature cochlea, whereas ankle links appear during development of the auditory hair bundle."
* Added synonym "tRNA wobble uridine thiolation" to GO:0002143
* Added general dbxref GOC:mah to synonym tRNA wobble uridine thiolation of GO:0002143
* Changed synonym scope of GO:0002143 from "Related" to "Exact"
* Copied GO:0002143 to GO:0034227 with type OBO_REL:is_a
* Changed definition of GO:0006213 from "The chemical reactions and pathways involving any pyrimidine nucleoside, one of a family of organic molecules consisting of a pyrimidine base covalently bonded to a sugar ribose (a ribonucleoside) or deoxyribose (a deoxyribonucleoside)." to "The chemical reactions and pathways involving any pyrimidine nucleoside, one of a family of organic molecules consisting of a pyrimidine base covalently bonded to ribose (a ribonucleoside) or deoxyribose (a deoxyribonucleoside)."
* Deleted GO:0006738 --OBO_REL:is_a--> GO:0006734
* Deleted GO:0006738 --OBO_REL:is_a--> GO:0019364
* Copied GO:0006738 to GO:0070638 with type OBO_REL:is_a
* Added synonym "agglutination" to GO:0007157
* Added general dbxref GOC:mah to synonym agglutination of GO:0007157
* Copied GO:0019350 to GO:0044038 with type OBO_REL:is_a
* Deleted GO:0021521 --part_of--> GO:0021514
* Copied GO:0021521 to GO:0060579 with type part_of
* Changed name of GO:0043689 from "cell-cell adhesion during flocculation" to "cell-cell adhesion involved in flocculation"
* Changed name of GO:0043690 from "cell-cell adhesion during flocculation via cell wall protein-carbohydrate interaction" to "cell-cell adhesion involved in flocculation via cell wall protein-carbohydrate interaction"
* Changed name of GO:0043706 from "heterophilic cell adhesion during cytoadherence to microvasculature, mediated by parasite protein" to "heterophilic cell adhesion involved in cytoadherence to microvasculature, mediated by parasite protein"
* Deleted GO:0046374 --OBO_REL:is_a--> GO:0019752
* Copied GO:0046374 to GO:0005976 with type OBO_REL:is_a
* Deleted GO:0046495 --OBO_REL:is_a--> GO:0019362
* Copied GO:0046495 to GO:0070637 with type OBO_REL:is_a
* Copied GO:0050845 to GO:0044038 with type OBO_REL:is_a
* Deleted GO:0060573 --part_of--> GO:0007389
* Copied GO:0060573 to GO:0060581 with type part_of
* Copied GO:0070393 to GO:0000272 with type OBO_REL:is_a
* Copied GO:0070396 to GO:0070393 with type OBO_REL:is_a
* Deleted definition dbxref GOC:DHL from GO:0080087
* Added definition dbxref GOC:dhl to GO:0080087
* Deleted definition dbxref GOC:DHL from GO:0080112
* Added definition dbxref GOC:dhl to GO:0080112
* Deleted definition dbxref GOC:DHL from GO:0080125
* Added definition dbxref GOC:dhl to GO:0080125
* Deleted definition dbxref GOC:DHL from GO:0080127
* Added definition dbxref GOC:dhl to GO:0080127
* Deleted definition dbxref GOC:DHL from GO:0080128
* Added definition dbxref GOC:dhl to GO:0080128
* Deleted definition dbxref GOC:DHL from GO:0080134
* Added definition dbxref GOC:dhl to GO:0080134
* Changed definition of GO:0080135 from "Any process that modulates the frequency, rate or extent of a cellular response to stress.  Cellular response to stress is a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)." to "Any process that modulates the frequency, rate or extent of a cellular response to stress. Cellular response to stress is a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation)."
* Deleted definition dbxref GOC:DHL from GO:0080135
* Added definition dbxref GOC:dhl to GO:0080135