[Go-diff] GO update 09/29/2008

Remote CVS for Gene Ontology gocvs at genome.stanford.edu
Mon Sep 29 21:30:46 PDT 2008 

OBODIFF of gene_ontology_write.obo version 1.237 by 1.239

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0010735
* Created object of type obo:TERM with id GO:0010736
* Created object of type obo:TERM with id GO:0010737
* Created object of type obo:TERM with id GO:0010738
* Created object of type obo:TERM with id GO:0010739
* Created object of type obo:TERM with id GO:0010740
* Created object of type obo:TERM with id GO:0010741
* Created object of type obo:TERM with id GO:0010742
* Created object of type obo:TERM with id GO:0010743
* Created object of type obo:TERM with id GO:0010744
* Created object of type obo:TERM with id GO:0010745
* Created object of type obo:TERM with id GO:0010746
* Created object of type obo:TERM with id GO:0010747
* Created object of type obo:TERM with id GO:0010748
* Created object of type obo:TERM with id GO:0010749
* Created object of type obo:TERM with id GO:0010750
* Created object of type obo:TERM with id GO:0010751
* Created object of type obo:TERM with id GO:0010752
* Created object of type obo:TERM with id GO:0010753
* Created object of type obo:TERM with id GO:0010754
* Created object of type obo:TERM with id GO:0070050
* Created object of type obo:TERM with id GO:0070051
* Created object of type obo:TERM with id GO:0070052
* Created object of type obo:TERM with id GO:0070053
* Populated new object GO:0010735 (macro)
  * Changed name of GO:0010735 from "<new term>" to "positive regulation of transcription via serum response element binding"
  * Set definition of GO:0010735 to "Any process that increases the frequency, rate or extent of the specifically regulated synthesis of RNA from DNA encoding a specific set of genes as a result of a transcription factor interacting with a serum response element (SRE). A serum response element is a short sequence with dyad symmetry found in the promoters of some of the cellular immediate-early genes, regulated by serum."
  * Added definition dbxref GOC:dph to GO:0010735
  * Added definition dbxref GOC:rl to GO:0010735
  * Added definition dbxref GOC:tb to GO:0010735
  * Copied GO:0010735 to GO:0010552 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010735
* Populated new object GO:0010736 (macro)
  * Changed name of GO:0010736 from "<new term>" to "serum response element binding"
  * Set definition of GO:0010736 to "Interacting selectively with the serum response element (SRE), a short
sequence with dyad symmetry found in the promoters of some of the cellular
immediate-early genes, regulated by serum."
  * Added definition dbxref GOC:dph to GO:0010736
  * Added definition dbxref GOC:rl to GO:0010736
  * Added definition dbxref GOC:tb to GO:0010736
  * Copied GO:0010736 to GO:0043565 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0010736
* Populated new object GO:0010737 (macro)
  * Changed name of GO:0010737 from "<new term>" to "protein kinase A signaling cascade"
  * Set definition of GO:0010737 to "A series of reactions, mediated by the intracellular serine/threonine kinase protein kinase A, which occurs as a result of a single trigger reaction or compound."
  * Added definition dbxref GOC:dph to GO:0010737
  * Added definition dbxref GOC:tb to GO:0010737
  * Added synonym "PKA signaling cascade" to GO:0010737
  * Added general dbxref GOC:tb to synonym PKA signaling cascade of GO:0010737
  * Added general dbxref GOC:dph to synonym PKA signaling cascade of GO:0010737
  * Changed synonym scope of GO:0010737 from "Related" to "Exact"
  * Copied GO:0010737 to GO:0007243 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010737
* Populated new object GO:0010738 (macro)
  * Changed name of GO:0010738 from "<new term>" to "regulation of protein kinase A signaling cascade"
  * Set definition of GO:0010738 to "Any process that modulates the rate, frequency, or extent of the protein kinase A signaling cascade. The PKA signaling cascade is the series of reactions, mediated by the intracellular serine/threonine kinase protein kinase A, which occurs as a result of a single trigger reaction or compound."
  * Added definition dbxref GOC:dph to GO:0010738
  * Added definition dbxref GOC:tb to GO:0010738
  * Added synonym "regulation of PKA signaling cascade" to GO:0010738
  * Added general dbxref GOC:tb to synonym regulation of PKA signaling cascade of GO:0010738
  * Added general dbxref GOC:dph to synonym regulation of PKA signaling cascade of GO:0010738
  * Changed synonym scope of GO:0010738 from "Related" to "Exact"
  * Copied GO:0010738 to GO:0010627 with type OBO_REL:is_a
  * Copied GO:0010738 to GO:0010737 with type regulates
  * Assigned namespace "biological_process" to GO:0010738
* Populated new object GO:0010739 (macro)
  * Changed name of GO:0010739 from "<new term>" to "positive regulation of protein kinase A signaling cascade"
  * Set definition of GO:0010739 to "Any process that increases the rate, frequency, or extent of the protein kinase A signaling cascade. The PKA signaling cascade is the series of reactions, mediated by the intracellular serine/threonine kinase protein kinase A, which occurs as a result of a single trigger reaction or compound."
  * Added definition dbxref GOC:dph to GO:0010739
  * Added definition dbxref GOC:tb to GO:0010739
  * Added synonym "positive regulation of PKA signaling cascade" to GO:0010739
  * Added general dbxref GOC:tb to synonym positive regulation of PKA signaling cascade of GO:0010739
  * Added general dbxref GOC:dph to synonym positive regulation of PKA signaling cascade of GO:0010739
  * Changed synonym scope of GO:0010739 from "Related" to "Exact"
  * Copied GO:0010739 to GO:0010737 with type positively_regulates
  * Copied GO:0010739 to GO:0010738 with type OBO_REL:is_a
  * Copied GO:0010739 to GO:0010740 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010739
* Populated new object GO:0010740 (macro)
  * Changed name of GO:0010740 from "<new term>" to "positive regulation of protein kinase cascade"
  * Set definition of GO:0010740 to "Any process that increases the rate, frequency or extent of a series of reactions, mediated by protein kinases, which occurs as a result of a single trigger reaction or compound."
  * Added definition dbxref GOC:dph to GO:0010740
  * Added definition dbxref GOC:tb to GO:0010740
  * Copied GO:0010740 to GO:0010627 with type OBO_REL:is_a
  * Copied GO:0010740 to GO:0009967 with type OBO_REL:is_a
  * Copied GO:0010740 to GO:0007243 with type positively_regulates
  * Assigned namespace "biological_process" to GO:0010740
* Populated new object GO:0010741 (macro)
  * Changed name of GO:0010741 from "<new term>" to "negative regulation of protein kinase cascade"
  * Set definition of GO:0010741 to "Any process that decreases the rate, frequency or extent of a series of reactions, mediated by protein kinases, which occurs as a result of a single trigger reaction or compound."
  * Added definition dbxref GOC:dph to GO:0010741
  * Added definition dbxref GOC:tb to GO:0010741
  * Copied GO:0010741 to GO:0007243 with type negatively_regulates
  * Copied GO:0010741 to GO:0010627 with type OBO_REL:is_a
  * Copied GO:0010741 to GO:0009968 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010741
* Populated new object GO:0010742 (macro)
  * Changed name of GO:0010742 from "<new term>" to "foam cell differentiation"
  * Set definition of GO:0010742 to "The process whereby a relatively unspecialized monocyte acquires the specialized features of a foam cell. A foam cell is a macrophage containing lipid in small vacuoles."
  * Added definition dbxref GOC:add to GO:0010742
  * Added definition dbxref GOC:dph to GO:0010742
  * Added definition dbxref GOC:tb to GO:0010742
  * Copied GO:0010742 to GO:0030225 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010742
* Populated new object GO:0010743 (macro)
  * Changed name of GO:0010743 from "<new term>" to "regulation of foam cell differentiation"
  * Set definition of GO:0010743 to "Any process that modulates the rate, frequency or extent of foam cell differentiation. Foam cell differentiation is the process whereby a relatively unspecialized monocyte acquires the specialized features of a foam cell. A foam cell is a macrophage containing lipid in small vacuoles."
  * Added definition dbxref GOC:add to GO:0010743
  * Added definition dbxref GOC:dph to GO:0010743
  * Added definition dbxref GOC:tb to GO:0010743
  * Copied GO:0010743 to GO:0010742 with type regulates
  * Copied GO:0010743 to GO:0045649 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010743
* Populated new object GO:0010744 (macro)
  * Changed name of GO:0010744 from "<new term>" to "positive regulation of foam cell differentiation"
  * Set definition of GO:0010744 to "Any process that increases the rate, frequency or extent of foam cell differentiation. Foam cell differentiation is the process whereby a relatively unspecialized monocyte acquires the specialized features of a foam cell. A foam cell is a macrophage containing lipid in small vacuoles."
  * Added definition dbxref GOC:dph to GO:0010744
  * Added definition dbxref GOC:tb to GO:0010744
  * Copied GO:0010744 to GO:0045651 with type OBO_REL:is_a
  * Copied GO:0010744 to GO:0010742 with type positively_regulates
  * Copied GO:0010744 to GO:0010743 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010744
* Populated new object GO:0010745 (macro)
  * Changed name of GO:0010745 from "<new term>" to "negative regulation of foam cell differentiation"
  * Set definition of GO:0010745 to "Any process that decreases the rate, frequency or extent of foam cell differentiation. Foam cell differentiation is the process whereby a relatively unspecialized monocyte acquires the specialized features of a foam cell. A foam cell is a macrophage containing lipid in small vacuoles."
  * Added definition dbxref GOC:add to GO:0010745
  * Added definition dbxref GOC:dph to GO:0010745
  * Added definition dbxref GOC:tb to GO:0010745
  * Copied GO:0010745 to GO:0010742 with type negatively_regulates
  * Copied GO:0010745 to GO:0045650 with type OBO_REL:is_a
  * Copied GO:0010745 to GO:0010743 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010745
* Populated new object GO:0010746 (macro)
  * Changed name of GO:0010746 from "<new term>" to "regulation of plasma membrane long-chain fatty acid transport"
  * Set definition of GO:0010746 to "Any process that modulates the rate, frequency or extent of plasma membrane long-chain fatty acid transport. Plasma membrane long-chain fatty acid transport is the directed movement of long-chain fatty acids across the plasma membrane."
  * Added definition dbxref GOC:dph to GO:0010746
  * Added definition dbxref GOC:tb to GO:0010746
  * Copied GO:0010746 to GO:0015911 with type regulates
  * Copied GO:0010746 to GO:0032368 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010746
* Populated new object GO:0010747 (macro)
  * Changed name of GO:0010747 from "<new term>" to "positive regulation of plasma membrane long-chain fatty acid transport"
  * Set definition of GO:0010747 to "Any process that increases the rate, frequency or extent of plasma membrane long-chain fatty acid transport. Plasma membrane long-chain fatty acid transport is the directed movement of long-chain fatty acids across the plasma membrane."
  * Added definition dbxref GOC:dph to GO:0010747
  * Added definition dbxref GOC:tb to GO:0010747
  * Copied GO:0010747 to GO:0032370 with type OBO_REL:is_a
  * Copied GO:0010747 to GO:0015911 with type positively_regulates
  * Copied GO:0010747 to GO:0010746 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010747
* Populated new object GO:0010748 (macro)
  * Changed name of GO:0010748 from "<new term>" to "negative regulation of plasma membrane long-chain fatty acid transport"
  * Set definition of GO:0010748 to "Any process that decreases the rate, frequency or extent of plasma membrane long-chain fatty acid transport. Plasma membrane long-chain fatty acid transport is the directed movement of long-chain fatty acids across the plasma membrane."
  * Added definition dbxref GOC:dph to GO:0010748
  * Added definition dbxref GOC:tb to GO:0010748
  * Copied GO:0010748 to GO:0032369 with type OBO_REL:is_a
  * Copied GO:0010748 to GO:0010746 with type OBO_REL:is_a
  * Copied GO:0010748 to GO:0015911 with type negatively_regulates
  * Assigned namespace "biological_process" to GO:0010748
* Populated new object GO:0010749 (macro)
  * Changed name of GO:0010749 from "<new term>" to "regulation of nitric oxide mediated signal transduction"
  * Set definition of GO:0010749 to "Any process that modulates the rate, frequency or extent of nitric oxide mediated signal transduction. Nitric oxide mediated signal transduction is a series of molecular signals mediated by the detection of nitric oxide (NO)."
  * Added definition dbxref GOC:dph to GO:0010749
  * Added definition dbxref GOC:tb to GO:0010749
  * Copied GO:0010749 to GO:0009966 with type OBO_REL:is_a
  * Copied GO:0010749 to GO:0007263 with type regulates
  * Assigned namespace "biological_process" to GO:0010749
* Populated new object GO:0010750 (macro)
  * Changed name of GO:0010750 from "<new term>" to "positive regulation of nitric oxide mediated signal transduction"
  * Set definition of GO:0010750 to "Any process that increases the rate, frequency or extent of nitric oxide mediated signal transduction. Nitric oxide mediated signal transduction is a series of molecular signals mediated by the detection of nitric oxide (NO)."
  * Added definition dbxref GOC:dph to GO:0010750
  * Added definition dbxref GOC:tb to GO:0010750
  * Copied GO:0010750 to GO:0010749 with type OBO_REL:is_a
  * Copied GO:0010750 to GO:0007263 with type positively_regulates
  * Copied GO:0010750 to GO:0009967 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010750
* Populated new object GO:0010751 (macro)
  * Changed name of GO:0010751 from "<new term>" to "negative regulation of nitric oxide mediated signal transduction"
  * Set definition of GO:0010751 to "Any process that decreases the rate, frequency or extent of nitric oxide mediated signal transduction. Nitric oxide mediated signal transduction is a series of molecular signals mediated by the detection of nitric oxide (NO)."
  * Added definition dbxref GOC:dph to GO:0010751
  * Added definition dbxref GOC:tb to GO:0010751
  * Copied GO:0010751 to GO:0007263 with type negatively_regulates
  * Copied GO:0010751 to GO:0009968 with type OBO_REL:is_a
  * Copied GO:0010751 to GO:0010749 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010751
* Populated new object GO:0010752 (macro)
  * Changed name of GO:0010752 from "<new term>" to "regulation of cGMP-mediated signaling"
  * Set definition of GO:0010752 to "Any process that modulates the rate, frequency or extent of cGMP-mediated signaling. cGMP-mediated signaling is a series of molecular signals in which a cell uses cyclic GMP to convert an extracellular signal into a response."
  * Added definition dbxref GOC:dph to GO:0010752
  * Added definition dbxref GOC:tb to GO:0010752
  * Copied GO:0010752 to GO:0019934 with type regulates
  * Copied GO:0010752 to GO:0009966 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010752
* Populated new object GO:0010753 (macro)
  * Changed name of GO:0010753 from "<new term>" to "positive regulation of cGMP-mediated signaling"
  * Set definition of GO:0010753 to "Any process that increases the rate, frequency or extent of cGMP-mediated signaling. cGMP-mediated signaling is a series of molecular signals in which a cell uses cyclic GMP to convert an extracellular signal into a response."
  * Added definition dbxref GOC:dph to GO:0010753
  * Added definition dbxref GOC:tb to GO:0010753
  * Copied GO:0010753 to GO:0010752 with type OBO_REL:is_a
  * Copied GO:0010753 to GO:0019934 with type positively_regulates
  * Copied GO:0010753 to GO:0009967 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0010753
* Populated new object GO:0010754 (macro)
  * Changed name of GO:0010754 from "<new term>" to "negative regulation of cGMP-mediated signaling"
  * Set definition of GO:0010754 to "Any process that decreases the rate, frequency or extent of cGMP-mediated signaling. cGMP-mediated signaling is a series of molecular signals in which a cell uses cyclic GMP to convert an extracellular signal into a response."
  * Added definition dbxref GOC:dph to GO:0010754
  * Added definition dbxref GOC:tb to GO:0010754
  * Copied GO:0010754 to GO:0019934 with type negatively_regulates
  * Copied GO:0010754 to GO:0010752 with type OBO_REL:is_a
  * Copied GO:0010754 to GO:0009968 with type negatively_regulates
  * Assigned namespace "biological_process" to GO:0010754
* Populated new object GO:0070050 (macro)
  * Changed name of GO:0070050 from "<new term>" to "neuron maintenance"
  * Set definition of GO:0070050 to "The cellular homeostatic process by which a neuron is preserved in a stable, differentiated functional and structural state."
  * Added definition dbxref GOC:mah to GO:0070050
  * Copied GO:0070050 to GO:0019725 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0070050
* Populated new object GO:0070051 (macro)
  * Changed name of GO:0070051 from "<new term>" to "fibrinogen binding"
  * Set definition of GO:0070051 to "Interacting selectively with fibrinogen, a highly soluble hexameric glycoprotein complex that is found in blood plasma and is converted to fibrin by thrombin in the coagulation cascade."
  * Added definition dbxref GOC:mah to GO:0070051
  * Added definition dbxref GOC:vk to GO:0070051
  * Copied GO:0070051 to GO:0032403 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070051
* Populated new object GO:0070052 (macro)
  * Changed name of GO:0070052 from "<new term>" to "collagen V binding"
  * Set definition of GO:0070052 to "Interacting selectively with a type V collagen."
  * Added definition dbxref GOC:mah to GO:0070052
  * Copied GO:0070052 to GO:0005518 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070052
* Populated new object GO:0070053 (macro)
  * Changed name of GO:0070053 from "<new term>" to "thrombospondin receptor activity"
  * Set definition of GO:0070053 to "Combining with thrombospondin to initiate a change in cell activity."
  * Added definition dbxref GOC:vk to GO:0070053
  * Copied GO:0070053 to GO:0004872 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0070053
* Deleted GO:0010310 --OBO_REL:is_a--> GO:0031323
* Changed definition of GO:0010627 from "Any process that modulates a series of reactions, mediated by protein kinases, which occurs as a result of a single trigger reaction or compound." to "Any process that modulates the rate, frequency or extent of a series of reactions, mediated by protein kinases, which occurs as a result of a single trigger reaction or compound."
* Deleted GO:0014067 --OBO_REL:is_a--> GO:0009968
* Copied GO:0014067 to GO:0010741 with type OBO_REL:is_a
* Deleted GO:0014068 --OBO_REL:is_a--> GO:0009967
* Copied GO:0014068 to GO:0010740 with type OBO_REL:is_a
* Changed definition of GO:0031049 from "Removal of micronuclear-limited sequences, internal eliminated sequences (IES) and breakage eliminated sequences (BES), from the developing macronucleus (anlage) of a ciliate." to "The DNA metabolic process by which micronuclear-limited sequences, internal eliminated sequences (IES) and breakage eliminated sequences (BES) are removed from the developing macronucleus (anlage) of a ciliate."
* Added definition dbxref GOC:mah to GO:0031049
* Deleted GO:0031049 --OBO_REL:is_a--> GO:0006139
* Copied GO:0031049 to GO:0006259 with type OBO_REL:is_a
* Changed name of GO:0035104 from "positive regulation of sterol regulatory element binding protein target gene transcription" to "positive regulation of transcription via sterol regulatory element binding"
* Added general dbxref XX:<new dbxref> to GO:0035104
* Added synonym "positive regulation of sterol regulatory element binding protein target gene transcription" to GO:0035104
* Added general dbxref GOC:tb to synonym positive regulation of sterol regulatory element binding protein target gene transcription of GO:0035104
* Added general dbxref GOC:dph to synonym positive regulation of sterol regulatory element binding protein target gene transcription of GO:0035104
* Changed synonym scope of GO:0035104 from "Related" to "Exact"
* Deleted GO:0043123 --OBO_REL:is_a--> GO:0009967
* Copied GO:0043123 to GO:0010740 with type OBO_REL:is_a
* Deleted GO:0043124 --OBO_REL:is_a--> GO:0009968
* Copied GO:0043124 to GO:0010741 with type OBO_REL:is_a
* Deleted GO:0043409 --OBO_REL:is_a--> GO:0009968
* Copied GO:0043409 to GO:0010741 with type OBO_REL:is_a
* Deleted GO:0043410 --OBO_REL:is_a--> GO:0009967
* Copied GO:0043410 to GO:0010740 with type OBO_REL:is_a
* Deleted GO:0046426 --OBO_REL:is_a--> GO:0009968
* Copied GO:0046426 to GO:0010741 with type OBO_REL:is_a
* Deleted GO:0046427 --OBO_REL:is_a--> GO:0009967
* Copied GO:0046427 to GO:0010740 with type OBO_REL:is_a
* Changed definition of GO:0046716 from "The maintenance of muscle fibers after their formation to allow normal functioning." to "The cellular homeostatic process by which a muscle fiber is preserved in a stable functional or structural state."
* Added definition dbxref GOC:mah to GO:0046716
* Deleted GO:0051897 --OBO_REL:is_a--> GO:0009967
* Copied GO:0051897 to GO:0010740 with type OBO_REL:is_a
* Deleted GO:0051898 --OBO_REL:is_a--> GO:0009968
* Copied GO:0051898 to GO:0010741 with type OBO_REL:is_a
* Copied GO:0060073 to GO:0007588 with type OBO_REL:is_a
* Deleted GO:0060321 --part_of--> GO:0009856

More information about the Go-diff mailing list