[Go-diff] GO update 02/05/2009

[Remote CVS for Gene Ontology]

OBODIFF of gene_ontology_write.obo version 1.431 by 1.433

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* added secondary id GO:0030452 to GO:0000292
* Added general dbxref GOC:mah to synonym RNA fragment catabolism of GO:0000292
* Added synonym "group I intron catabolic process" to GO:0000292
* Changed synonym scope of GO:0000292 from "Related" to "Narrow"
* Added comment "This term was obsoleted because it refers to a non-existent molecular function term, 'calmodulin activity'. To update annotations, consider the molecular function term 'calmodulin binding ; GO:0005516'."
* Set definition of GO:0005517 to "OBSOLETE. This term was not defined before being made obsolete."
* Added definition dbxref GOC:tb to GO:0005517
* Deleted GO:0005517 --OBO_REL:is_a--> GO:0005516
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 1e8c82f
* Added general dbxref Wikipedia:Inner_mitochondrial_membrane to GO:0005743
* Added general dbxref Wikipedia:Mitochondrial_matrix to GO:0005759
* Added general dbxref Wikipedia:Lysosome to GO:0005764
* Added general dbxref Wikipedia:Endosome to GO:0005768
* Added general dbxref Wikipedia:Vacuole to GO:0005773
* Added general dbxref Wikipedia:Peroxisome to GO:0005777
* Added general dbxref Wikipedia:Endoplasmic_reticulum to GO:0005783
* Added general dbxref Wikipedia:Endoplasmic_reticulum#Smooth_endoplasmic_reticulum to GO:0005790
* Added general dbxref Wikipedia:Endoplasmic_reticulum#Rough_endoplasmic_reticulum to GO:0005791
* Added general dbxref Wikipedia:Microsome to GO:0005792
* Added general dbxref Wikipedia:Vesicular-tubular_cluster to GO:0005793
* Added synonym "vesicular-tubular cluster" to GO:0005793
* Added general dbxref Wikipedia:Vesicular-tubular_cluster to synonym vesicular-tubular cluster of GO:0005793
* Changed synonym scope of GO:0005793 from "Related" to "Exact"
* Added general dbxref Wikipedia:Golgi_apparatus to GO:0005794
* Added general dbxref Wikipedia:Centrosome to GO:0005813
* Added general dbxref Wikipedia:Centriole to GO:0005814
* Added general dbxref Wikipedia:Microtubule_organizing_center to GO:0005815
* Added general dbxref Wikipedia:Spindle_pole_body to GO:0005816
* Added general dbxref Wikipedia:Spindle_apparatus to GO:0005819
* Added general dbxref Wikipedia:Cytosol to GO:0005829
* Added general dbxref Wikipedia:Fatty_acid_synthetase_complex to GO:0005835
* Added general dbxref Wikipedia:Ribosome to GO:0005840
* Added general dbxref Wikipedia:Polysome to GO:0005844
* Added general dbxref Wikipedia:EIF-2 to GO:0005850
* Added general dbxref Wikipedia:Cytoskeleton to GO:0005856
* Added general dbxref Wikipedia:Microtubule to GO:0005874
* Added general dbxref Wikipedia:Intermediate_filament to GO:0005882
* Added general dbxref Wikipedia:Neurofilament to GO:0005883
* Added general dbxref Wikipedia:Actin to GO:0005884
* Added general dbxref Wikipedia:Cell_membrane to GO:0005886
* Added general dbxref Wikipedia:Caveolae to GO:0005901
* Added general dbxref Wikipedia:Microvillus to GO:0005902
* Added general dbxref Wikipedia:Brush_border to GO:0005903
* Added general dbxref Wikipedia:Fascia_adherens to GO:0005916
* Added general dbxref Wikipedia:Gap_junction to GO:0005921
* Added general dbxref Wikipedia:Tight_junction to GO:0005923
* Added general dbxref Wikipedia:Focal_adhesion to GO:0005925
* Added general dbxref Wikipedia:Cilium to GO:0005929
* Added general dbxref Wikipedia:Axoneme to GO:0005930
* Added general dbxref Wikipedia:Cell_cortex to GO:0005938
* Added general dbxref Wikipedia:Septin_ring to GO:0005940
* Added general dbxref Wikipedia:Glycine_decarboxylase_complex to GO:0005960
* Added general dbxref Wikipedia:Lamina_lucida to GO:0008002
* Added general dbxref Wikipedia:Lamina_densa to GO:0008003
* Added general dbxref Wikipedia:Synaptic_vesicle to GO:0008021
* Added general dbxref Wikipedia:Spectrin to GO:0008091
* Added general dbxref Wikipedia:Pilus to GO:0009289
* Added general dbxref Wikipedia:Nucleoid to GO:0009295
* Added general dbxref Wikipedia:Amyloplast to GO:0009501
* Added general dbxref Wikipedia:Cell_plate to GO:0009504
* Added general dbxref Wikipedia:Plasmodesma to GO:0009506
* Added general dbxref Wikipedia:Chloroplast to GO:0009507
* Added general dbxref Wikipedia:Chromoplast to GO:0009509
* Added general dbxref Wikipedia:Cytochrome_b6f_complex to GO:0009512
* Added general dbxref Wikipedia:Etioplast to GO:0009513
* Added general dbxref Wikipedia:Glyoxysome to GO:0009514
* Added general dbxref Wikipedia:Leucoplast to GO:0009516
* Added general dbxref Wikipedia:Middle_lamella to GO:0009519
* Added general dbxref Wikipedia:Photosystem to GO:0009521
* Added general dbxref Wikipedia:Photosystem_II to GO:0009523
* Added general dbxref Wikipedia:Phragmoplast to GO:0009524
* Added general dbxref Wikipedia:Phragmosome to GO:0009525
* Added general dbxref Wikipedia:Secondary_cell_wall to GO:0009531
* Added general dbxref Wikipedia:Plastid to GO:0009536
* Added general dbxref Wikipedia:Elaioplast to GO:0009545
* Added general dbxref Wikipedia:Preprophase_band to GO:0009574
* Added general dbxref Wikipedia:Thylakoid to GO:0009579
* Added general dbxref Wikipedia:Oxygen_evolving_complex to GO:0009654
* Added general dbxref Wikipedia:Stromule to GO:0010319
* Added general dbxref Wikipedia:Stress_granule to GO:0010494
* Added general dbxref Wikipedia:Endomembrane_system to GO:0012505
* Added general dbxref Wikipedia:Oil_body to GO:0012511
* Added general dbxref Wikipedia:Postsynaptic_density to GO:0014069
* Added general dbxref Wikipedia:Intercalated_disc to GO:0014704
* Added general dbxref Wikipedia:Terminal_cisterna to GO:0014802
* Added general dbxref Wikipedia:Cajal_body to GO:0015030
* Added general dbxref Wikipedia:Biological_membrane to GO:0016020
* Added general dbxref Wikipedia:Transmembrane_protein to GO:0016021
* Added general dbxref Wikipedia:Inclusion_bodies to GO:0016234
* Added general dbxref Wikipedia:Aggresome to GO:0016235
* Added comment "This term was made obsolete because it refers to a combination of a function and a process. To update annotations, consider the biological process terms 'negative regulation of GTPase activity ; GO:0034260' and 'negative regulation of G-protein coupled receptor protein signaling pathway ; GO:0045744' and the molecular function term 'GTPase inhibitor activity ; GO:0005095'."
* Changed definition of GO:0016299 from "Inhibits signal transduction the GTPase activity of G-protein alpha subunits, thereby driving them into their inactive GDP-bound form." to "OBSOLETE. Inhibits signal transduction the GTPase activity of G-protein alpha subunits, thereby driving them into their inactive GDP-bound form."
* Deleted GO:0016299 --OBO_REL:is_a--> GO:0005057
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 1b7dbb8
* Added general dbxref Wikipedia:Nuclear_matrix to GO:0016363
* Added general dbxref Wikipedia:RNA-induced_silencing_complex to GO:0016442
* Added general dbxref Wikipedia:Sarcoplasm to GO:0016528
* Added general dbxref Wikipedia:Endoplasmic_reticulum#Sarcoplasmic_reticulum to GO:0016529
* Added comment "This term was made obsolete because it refers to an obsolete molecular function term, 'activin'. To update annotations, consider the molecular function term 'signal transducer activity ; GO:0004871'."
* Changed definition of GO:0017106 from "Acts to negatively regulate the activity of activin, a nonsteroidal regulator synthesized in the pituitary gland and gonads that stimulates the secretion of follicle-stimulating hormone." to "OBSOLETE. Acts to negatively regulate the activity of activin, a nonsteroidal regulator synthesized in the pituitary gland and gonads that stimulates the secretion of follicle-stimulating hormone."
* Deleted GO:0017106 --OBO_REL:is_a--> GO:0004871
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 1ba4c7c
* Added general dbxref Wikipedia:Host_(biology) to GO:0018995
* Added general dbxref Wikipedia:SCF_complex to GO:0019005
* Added general dbxref Wikipedia:Virus to GO:0019012
* Added general dbxref Wikipedia:Capsid to GO:0019028
* Added general dbxref Wikipedia:Viral_envelope to GO:0019031
* Added general dbxref Wikipedia:Viral_tegument to GO:0019033
* Added general dbxref Wikipedia:Provirus to GO:0019038
* Added general dbxref Wikipedia:Synaptosome to GO:0019717
* Added general dbxref Wikipedia:Flagellum to GO:0019861
* Added general dbxref Wikipedia:Peripheral_membrane_protein to GO:0019898
* Added general dbxref Wikipedia:Rhoptry to GO:0020008
* Added general dbxref Wikipedia:Microneme to GO:0020009
* Added general dbxref Wikipedia:Apicoplast to GO:0020011
* Added general dbxref Wikipedia:Glycosome to GO:0020015
* Added general dbxref Wikipedia:Kinetoplast to GO:0020023
* Added general dbxref Wikipedia:TRAPP_complex to GO:0030008
* Added general dbxref Wikipedia:Myofibril to GO:0030016
* Added general dbxref Wikipedia:Sarcomere to GO:0030017
* Added general dbxref Wikipedia:Lamellipodia to GO:0030027
* Added general dbxref Wikipedia:Cell_junction to GO:0030054
* Added general dbxref Wikipedia:Hemidesmosome to GO:0030056
* Added general dbxref Wikipedia:Desmosome to GO:0030057
* Added general dbxref Wikipedia:Light-harvesting_complex to GO:0030076
* Added general dbxref Wikipedia:Phycobilisome to GO:0030089
* Added general dbxref Wikipedia:Glycocalyx to GO:0030112
* Added general dbxref Wikipedia:Slime_layer to GO:0030114
* Added general dbxref Wikipedia:S-layer to GO:0030115
* Added general dbxref Wikipedia:Clathrin to GO:0030118
* Added general dbxref Wikipedia:Filopodia to GO:0030175
* Added general dbxref Wikipedia:Cell_envelope to GO:0030313
* Added general dbxref Wikipedia:T-tubule to GO:0030315
* Added general dbxref Wikipedia:Axon to GO:0030424
* Added general dbxref Wikipedia:Dendrite to GO:0030425
* Added general dbxref Wikipedia:Growth_cone to GO:0030426
* Deleted GO:0030452 --OBO_REL:is_a--> GO:0000292
* Destroyed object GO:0030452
* Added general dbxref Wikipedia:Midbody_(cell_biology) to GO:0030496
* Added general dbxref Wikipedia:Ribonucleoprotein to GO:0030529
* Added general dbxref Wikipedia:Heterogeneous_ribonucleoprotein_particle to GO:0030530
* Added general dbxref Wikipedia:SnRNP to GO:0030532
* Added general dbxref Wikipedia:Axolemma to GO:0030673
* Added general dbxref Wikipedia:Autosome to GO:0030849
* Added general dbxref Wikipedia:Replisome to GO:0030894
* Added general dbxref Wikipedia:NADH_dehydrogenase to GO:0030964
* Added general dbxref Wikipedia:Extracellular_matrix to GO:0031012
* Added general dbxref Wikipedia:Macronucleus to GO:0031039
* Added general dbxref Wikipedia:Micronucleus to GO:0031040
* Added general dbxref Wikipedia:Platelet_alpha-granule to GO:0031091
* Added general dbxref Wikipedia:Pseudopod to GO:0031143
* Added general dbxref Wikipedia:Death-inducing_signaling_complex to GO:0031264
* Added general dbxref Wikipedia:Sarcomere#bands to GO:0031430
* Added general dbxref Wikipedia:Carboxysome to GO:0031470
* Added general dbxref Wikipedia:TRAMP_complex to GO:0031499
* Added general dbxref Wikipedia:Neuromuscular_junction to GO:0031594
* Added general dbxref Wikipedia:Sarcomere#bands to GO:0031672
* Added general dbxref Wikipedia:Sarcomere#bands to GO:0031673
* Added general dbxref Wikipedia:Sarcomere#bands to GO:0031674
* Added general dbxref Wikipedia:Cytostome to GO:0031910
* Added general dbxref Wikipedia:Actin to GO:0031941
* Added general dbxref Wikipedia:Chloroplast_membrane to GO:0031969
* Added general dbxref Wikipedia:Vesicle_(biology) to GO:0031982
* Added general dbxref Wikipedia:Proteinoplast to GO:0031986
* Added general dbxref Wikipedia:Phagolysosome to GO:0032010
* Added general dbxref Wikipedia:Mitosome to GO:0032047
* Added general dbxref Wikipedia:Bleb_(cell_biology) to GO:0032059
* Added general dbxref Wikipedia:Eisosome to GO:0032126
* Added general dbxref Wikipedia:Cleavage_furrow to GO:0032154
* Added general dbxref Wikipedia:Germ_tube to GO:0032179
* Added general dbxref Wikipedia:Nucleomorph to GO:0033009
* Added general dbxref Wikipedia:Porosome to GO:0033012
* Added general dbxref Wikipedia:Weibel-Palade_body to GO:0033093
* Added general dbxref Wikipedia:Nodes_of_Ranvier to GO:0033268
* Added general dbxref Wikipedia:Enhanceosome to GO:0034206
* Changed definition of GO:0035230 from "A long, thin and polarized actin-based extension that projects from a cell and can extend for distances many times the diameter of the cell. Cytonemes represent extensions of cell cytoplasm and typically have a diameter of approximately 0.2um." to "A long, thin, polarized cell projection that contains actin and can extend for distances many times the diameter of the cell. Cytonemes represent extensions of cell cytoplasm and typically have a diameter of approximately 0.2um."
* Added general dbxref Wikipedia:Membrane_nanotube to GO:0035230
* Added synonym "membrane nanotube" to GO:0035230
* Added general dbxref Wikipedia:Membrane_nanotube to synonym membrane nanotube of GO:0035230
* Changed synonym scope of GO:0035230 from "Related" to "Exact"
* Deleted GO:0048316 --part_of--> GO:0007275
* Copied GO:0048316 to GO:0010154 with type part_of
* Deleted GO:0048354 --part_of--> GO:0048359
* Copied GO:0048354 to GO:0048359 with type OBO_REL:is_a
* Added comment "This term was made obsolete because it refers to a non-existent molecular function term, 'glycerophosphate activity', which also cannot be found in the literature."
* Changed definition of GO:0055101 from "Stops, prevents or reduces the activity of a glycerophospholipase, an enzyme that catalyzes of the hydrolysis of a glycerophospholipid." to "OBSOLETE. Stops, prevents or reduces the activity of a glycerophospholipase, an enzyme that catalyzes of the hydrolysis of a glycerophospholipid."
* Deleted GO:0055101 --OBO_REL:is_a--> GO:0004859
* org.geneontology.oboedit.datamodel.history.ObsoleteObjectHistoryItem at 1f3940a