GO Monthly Release Notes for November 2005
========================
Generated on Fri Dec 2 11:23:00 2005
Files used:
gene_ontology.obo
OLD: version 3.1191, 28:10:2005 16:39
NEW: version 3.1219, 29:11:2005 11:55
goslim_generic
Key:
|----1----||----2-----||-3--||4||----5----||-----------6-----------|
GO:0009941 GO:0009536 TAIR D SF:575119 chloroplast envelope
(obs)
1. GO ID number
2. GO-slim term(s) that new term was added under or "obs" if the term is obsolete.
Terms with more than one GO-slim parent have further parents listed underneath the first parent.
3. Database that added term
4. indicates the existence of a definition for the term
5. the sourceforge request ID the term was added in response to
6. term name
Columns are tab-delimited and can be imported into Excel for ease of reading.
New terms in biological_process ontology (47 new terms)
GO:0001969 GO:0006950 MGI D regulation of activation of membrane attack complex
GO:0008219
GO:0009605
GO:0009607
GO:0001970 GO:0006950 MGI D positive regulation of activation of membrane attack complex
GO:0008219
GO:0009605
GO:0009607
GO:0001971 GO:0006950 MGI D negative regulation of activation of membrane attack complex
GO:0008219
GO:0009605
GO:0009607
GO:0010262 GO:0000003 TAIR D somatic embryogenesis
GO:0009790
GO:0031914 GO:0007267 MAH D 1307985 negative regulation of synaptic plasticity
GO:0007582
GO:0031915 GO:0007267 MAH D 1307985 positive regulation of synaptic plasticity
GO:0007582
GO:0031916 GO:0007267 MAH D 1307985 regulation of synaptic metaplasticity
GO:0007582
GO:0031917 GO:0007267 MAH D 1307985 negative regulation of synaptic metaplasticity
GO:0007582
GO:0031918 GO:0007267 MAH D 1307985 positive regulation of synaptic metaplasticity
GO:0007582
GO:0031919 GO:0006810 MAH D 1346097 vitamin B6 transport
GO:0031920 GO:0006810 MAH D 1346097 pyridoxal transport
GO:0031921 GO:0006810 MAH D 1346097 pyridoxal phosphate transport
GO:0031922 GO:0006810 MAH D 1346097 pyridoxamine transport
GO:0031923 GO:0006810 MAH D 1346097 pyridoxine transport
GO:0031929 GO:0007165 MAH D 1365473 TOR signaling pathway
GO:0031930 GO:0007165 MAH D 1344197 mitochondrial signaling pathway
GO:0031935 GO:0006259 MAH D 1337300 regulation of chromatin silencing
GO:0006350
GO:0006996
GO:0040029
GO:0031936 GO:0006259 MAH D 1337300 negative regulation of chromatin silencing
GO:0006350
GO:0006996
GO:0040029
GO:0031937 GO:0006259 MAH D 1337300 positive regulation of chromatin silencing
GO:0006350
GO:0006996
GO:0040029
GO:0031938 GO:0006259 MAH D 1337300 regulation of chromatin silencing at telomere
GO:0006350
GO:0006996
GO:0040029
GO:0031939 GO:0006259 MAH D 1337300 negative regulation of chromatin silencing at telomere
GO:0006350
GO:0006996
GO:0040029
GO:0031940 GO:0006259 MAH D 1337300 positive regulation of chromatin silencing at telomere
GO:0006350
GO:0006996
GO:0040029
GO:0031943 GO:0006629 MAH D 1359933 regulation of glucocorticoid metabolism
GO:0031944 GO:0006629 MAH D 1359933 negative regulation of glucocorticoid metabolism
GO:0031945 GO:0006629 MAH D 1359933 positive regulation of glucocorticoid metabolism
GO:0031946 GO:0006629 MAH D 1359933 regulation of glucocorticoid biosynthesis
GO:0009058
GO:0031947 GO:0006629 MAH D 1359933 negative regulation of glucocorticoid biosynthesis
GO:0009058
GO:0031948 GO:0006629 MAH D 1359933 positive regulation of glucocorticoid biosynthesis
GO:0009058
GO:0031949 GO:0006629 MAH D 1359933 regulation of glucocorticoid catabolism
GO:0009056
GO:0031950 GO:0006629 MAH D 1359933 negative regulation of glucocorticoid catabolism
GO:0009056
GO:0031951 GO:0006629 MAH D 1359933 positive regulation of glucocorticoid catabolism
GO:0009056
GO:0031952 GO:0006464 MAH D 1363668 regulation of protein amino acid autophosphorylation
GO:0031953 GO:0006464 MAH D 1363668 negative regulation of protein amino acid autophosphorylation
GO:0006519
GO:0031954 GO:0006464 MAH D 1363668 positive regulation of protein amino acid autophosphorylation
GO:0006519
GO:0031958 GO:0007165 MAH D corticosteroid receptor signaling pathway
GO:0031959 GO:0007165 MAH D mineralocorticoid receptor signaling pathway
GO:0031960 GO:0009628 MAH D response to corticosteroid stimulus
GO:0009719
GO:0043523 GO:0008219 JL D 1242965 regulation of neuron apoptosis
GO:0043524 GO:0008219 JL D 1242965 negative regulation of neuron apoptosis
GO:0043525 GO:0008219 JL D 1242965 positive regulation of neuron apoptosis
GO:0043526 GO:0008219 JL D 1363922 neuroprotection
GO:0043534 GO:0007582 JL D 1352332 blood vessel endothelial cell migration
GO:0007610
GO:0043535 GO:0007582 JL D 1352332 regulation of blood vessel endothelial cell migration
GO:0007610
GO:0043536 GO:0007582 JL D 1352332 positive regulation of blood vessel endothelial cell migration
GO:0007610
GO:0043537 GO:0007582 JL D 1352332 negative regulation of blood vessel endothelial cell migration
GO:0007610
GO:0043538 GO:0006464 JL D 1353217 regulation of actin phosphorylation
GO:0007010
GO:0043542 GO:0007582 JL D endothelial cell migration
GO:0007610
Term name changes in biological_process ontology
GO:0001781: programmed cell death, neutrophils --> neutrophil apoptosis
GO:0001783: programmed cell death, B cells --> B cell apoptosis
GO:0006924: programmed cell death, activated T cells --> activated T cell apoptosis
GO:0006925: programmed cell death, inflammatory cells --> inflammatory cell apoptosis
GO:0006926: programmed cell death, virus-infected cells --> virus-infected cell apoptosis
GO:0006927: programmed cell death, transformed cells --> transformed cell apoptosis
GO:0009765: photosynthesis light harvesting --> photosynthesis, light harvesting
GO:0009768: photosynthesis light harvesting in photosystem I --> photosynthesis, light harvesting in photosystem I
GO:0009769: photosynthesis light harvesting in photosystem II --> photosynthesis, light harvesting in photosystem II
GO:0012503: induction of non-apoptotic programmed cell death --> induction of nonapoptotic programmed cell death
GO:0016244: non-apoptotic programmed cell death --> nonapoptotic programmed cell death
GO:0035071: salivary gland cell death --> salivary gland cell autophagic cell death
GO:0035072: ecdysone-mediated induction of salivary gland cell death --> ecdysone-mediated induction of salivary gland cell autophagic cell death
GO:0035096: larval midgut cell death --> larval midgut cell programmed cell death
GO:0043070: regulation of non-apoptotic programmed cell death --> regulation of nonapoptotic programmed cell death
GO:0043071: positive regulation of non-apoptotic programmed cell death --> positive regulation of nonapoptotic programmed cell death
GO:0043072: negative regulation of non-apoptotic programmed cell death --> negative regulation of nonapoptotic programmed cell death
GO:0043154: negative regulation of caspase activation --> negative regulation of caspase activity
GO:0051402: programmed cell death, neurons --> neuron apoptosis
New term merges in biological_process ontology
GO:0001719 has been merged into GO:0043154, negative regulation of caspase activity
GO:0043026 has been merged into GO:0043281, regulation of caspase activity
GO:0046953 has been merged into GO:0042331, phototaxis
GO:0046954 has been merged into GO:0046956, positive phototaxis
GO:0046955 has been merged into GO:0046957, negative phototaxis
GO:0048062 has been merged into GO:0042332, gravitaxis
GO:0048063 has been merged into GO:0048060, negative gravitaxis
GO:0048064 has been merged into GO:0048061, positive gravitaxis
Term movements in biological_process ontology:
Terms movements under GO Slim term 'response to stress ; GO:0006950'
+ GO:0001905, activation of membrane attack complex
Terms movements under GO Slim term 'cell-cell signaling ; GO:0007267'
+ GO:0031637, regulation of neuronal synaptic plasticity in response to neurotrophin
+ GO:0048167, regulation of synaptic plasticity
+ GO:0048168, regulation of neuronal synaptic plasticity
+ GO:0048169, regulation of long-term neuronal synaptic plasticity
+ GO:0048170, positive regulation of long-term neuronal synaptic plasticity
+ GO:0048171, negative regulation of long-term neuronal synaptic plasticity
+ GO:0048172, regulation of short-term neuronal synaptic plasticity
+ GO:0048173, positive regulation of short-term neuronal synaptic plasticity
+ GO:0048174, negative regulation of short-term neuronal synaptic plasticity
Terms movements under GO Slim term 'development ; GO:0007275'
- GO:0031637, regulation of neuronal synaptic plasticity in response to neurotrophin
- GO:0048167, regulation of synaptic plasticity
- GO:0048168, regulation of neuronal synaptic plasticity
- GO:0048169, regulation of long-term neuronal synaptic plasticity
- GO:0048172, regulation of short-term neuronal synaptic plasticity
Terms movements under GO Slim term 'behavior ; GO:0007610'
+ GO:0006935, chemotaxis
+ GO:0009453, energy taxis
+ GO:0009454, aerotaxis
+ GO:0009455, redox taxis
+ GO:0009995, soluble molecule recognition
+ GO:0042330, taxis
+ GO:0042331, phototaxis
+ GO:0042332, gravitaxis
+ GO:0042333, chemotaxis to oxidizable substrate
+ GO:0042334, taxis to electron acceptor
+ GO:0043052, thermotaxis
+ GO:0043326, chemotaxis to folate
+ GO:0043327, chemotaxis to cAMP
+ GO:0046956, positive phototaxis
+ GO:0046957, negative phototaxis
+ GO:0048060, negative gravitaxis
+ GO:0048061, positive gravitaxis
+ GO:0050918, positive chemotaxis
+ GO:0050919, negative chemotaxis
+ GO:0050920, regulation of chemotaxis
+ GO:0050921, positive regulation of chemotaxis
+ GO:0050922, negative regulation of chemotaxis
+ GO:0050923, regulation of negative chemotaxis
+ GO:0050924, positive regulation of negative chemotaxis
+ GO:0050925, negative regulation of negative chemotaxis
+ GO:0050926, regulation of positive chemotaxis
+ GO:0050927, positive regulation of positive chemotaxis
+ GO:0050928, negative regulation of positive chemotaxis
+ GO:0050929, induction of negative chemotaxis
+ GO:0050930, induction of positive chemotaxis
Terms movements under GO Slim term 'biological_process ; GO:0008150'
- GO:0043280, positive regulation of caspase activity
- GO:0043281, regulation of caspase activity
Terms movements under GO Slim term 'cell death ; GO:0008219'
+ GO:0043280, positive regulation of caspase activity
+ GO:0043281, regulation of caspase activity
Terms movements under GO Slim term 'response to external stimulus ; GO:0009605'
+ GO:0001905, activation of membrane attack complex
Terms movements under GO Slim term 'response to biotic stimulus ; GO:0009607'
+ GO:0001905, activation of membrane attack complex
Terms movements under GO Slim term 'morphogenesis ; GO:0009653'
+ GO:0000078, cell morphogenesis checkpoint
Terms movements under GO Slim term 'cell organization and biogenesis ; GO:0016043'
+ GO:0000078, cell morphogenesis checkpoint
New terms in cellular_component ontology (11 new terms)
GO:0031931 GO:0005622 MAH D 1344197 TORC 1 complex
GO:0031932 GO:0005622 MAH D 1344197 TORC 2 complex
GO:0031933 GO:0005694 MAH D 1337300 telomeric heterochromatin
GO:0031934 GO:0005694 MAH D 1337300 mating-type region heterochromatin
GO:0031941 GO:0005856 MAH D 1363147 filamentous actin
GO:0031942 GO:0005739 MAH D 1361875 i-AAA complex
GO:0043527 GO:0005737 JL D 1254824 tRNA methyltransferase complex
GO:0043528 GO:0005737 JL D 1254824 tRNA (m2G10) methyltransferase complex
GO:0043529 GO:0005783 JL D 1350833 GET complex
GO:0043540 GO:0005829 JL D 1358097 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex
GO:0043541 GO:0005783 JL D 1365149 UDP-N-acetylglucosamine transferase complex
Term movements in cellular_component ontology:
Terms movements under GO Slim term 'nucleus ; GO:0005634'
- GO:0031515, tRNA (m1A) methyltransferase complex
Terms movements under GO Slim term 'cytoplasm ; GO:0005737'
+ GO:0031515, tRNA (m1A) methyltransferase complex
New terms in molecular_function ontology (18 new terms)
GO:0001972 GO:0005488 MGI D retinoic acid binding
GO:0031924 GO:0005215 MAH D 1346097 vitamin B6 transporter activity
GO:0031925 GO:0005215 MAH D 1346097 pyridoxal transporter activity
GO:0031926 GO:0005215 MAH D 1346097 pyridoxal phosphate transporter activity
GO:0031927 GO:0005215 MAH D 1346097 pyridoxamine transporter activity
GO:0031928 GO:0005215 MAH D 1346097 pyridoxine transporter activity
GO:0031955 GO:0003824 MAH D 1363719 short-chain-fatty-acid-CoA ligase activity
GO:0031956 GO:0003824 MAH D 1363719 medium-chain-fatty-acid-CoA ligase activity
GO:0031957 GO:0003824 MAH D 1363719 very-long-chain-fatty-acid-CoA ligase activity
GO:0031961 GO:0005102 MAH D cortisol receptor binding
GO:0031962 GO:0005102 MAH D mineralocorticoid receptor binding
GO:0031963 GO:0004872 MAH D cortisol receptor activity
GO:0031964 GO:0016787 MAH D 1365477 beta-alanyl-histamine hydrolase activity
GO:0043530 GO:0016787 JL D 1351159 adenosine 5'-monophosphoramidase activity
GO:0043531 GO:0000166 JL D 1352082 ADP binding
GO:0043532 GO:0005515 JL D 1353077 angiostatin binding
GO:0043533 GO:0008289 JL D 1353837 inositol 1,3,4,5 tetrakisphosphate binding
GO:0043539 GO:0030234 JL D 1356723 protein serine/threonine kinase activator activity
Term name changes in molecular_function ontology
GO:0008489: UDP-galactose-glucosylceramide beta-1,4-galactosyltransferase activity --> UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity
GO:0008499: UDP-galactose beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity --> UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity
GO:0015346: ferric triacetylfusarinine [TC:hydrogen symporter activity --> ferric triacetylfusarinine C:hydrogen symporter activity
GO:0031559: oxidosqualene cyclase --> oxidosqualene cyclase activity
New definitions for molecular_function ontology terms (4 new definitions)
GO:0003980, UDP-glucose:glycoprotein glucosyltransferase activity
GO:0008489, UDP-galactose:glucosylceramide beta-1,4-galactosyltransferase activity
GO:0008499, UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity
GO:0015645, fatty-acid ligase activity
SourceForge items closed this month:
SF id Resolution SF item title GO ids added, if any
1124304 Works For Me compatible solute biosynthesis GO:0051470 GO:0051471 GO:0051472 GO:0051473 GO:0051474 GO:0051475 GO:0051476 GO:0051477 GO:0051478 GO:0051479
1242965 Accepted child of "regulation of programmed cell death, neurons" GO:0043523 GO:0043524 GO:0043525 GO:0043526
1254824 Accepted ntr: tRNA (m2G10) methyltransferase complex GO:0043527 GO:0043528
1288597 Later interactions between organisms (symbiosis, etc.) [none]
1307985 Accepted new child of synaptogenesis GO:0031914 GO:0031915 GO:0031916 GO:0031917 GO:0031918
1325754 Fixed Term name changes - programmed cell death terms [none]
1337300 Accepted new terms chromatin related GO:0031933 GO:0031934 GO:0031935 GO:0031936 GO:0031937 GO:0031938 GO:0031939 GO:0031940
1340742 Accepted update cell morphogenesis checkpoint [none]
1343828 Works For Me difference intrinsic/integral [none]
1343844 Works For Me possible term merge? [none]
1344197 Accepted ntr: TOR complexes and mitochondrial signaling GO:0031930 GO:0031931 GO:0031932
1344896 Accepted synonym for sphingosine N-acyltransferase activity [none]
1344943 Duplicate apoptosis/programmed cell death term names [none]
1345003 Fixed alpha-1,3-galactosyltransferase [none]
1345941 Fixed update def Cul4A-RING ubiquitin ligase complex [none]
1346097 Accepted pyridoxine/pyridoxal/pyridoxamine GO:0031919 GO:0031920 GO:0031921 GO:0031922 GO:0031923 GO:0031924 GO:0031925 GO:0031926 GO:0031927 GO:0031928
1346291 Fixed exact synonym change for MF GPCR binding [none]
1348617 Fixed wrong parent: hyperphosphorylation of RNA polymerase II? [none]
1348741 Fixed oxidosqualene cyclase [none]
1350833 Accepted GET complex GO:0043529
1351159 Accepted ntr: Adenosine 5'- monophosphoramidase GO:0043530
1352082 Accepted ntr: ADP binding GO:0043531
1352332 Accepted ntr: endothelial cell migration GO:0043534 GO:0043535 GO:0043536 GO:0043537
1353077 Accepted ntr: Angiostatin Binding GO:0043532
1353102 Works For Me NTR: Pos. Reg. of Caspase Activation [none]
1353217 Accepted regulation of actin phosphorylation GO:0043538
1353232 Rejected NTR: response to adriamycin [none]
1353837 Accepted ntr: Inositol 1,3,4,5 tetrakisphosphate binding GO:0043533
1356723 Accepted NTR: protein ser/thr kinase activation activity GO:0043539
1358097 Accepted 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 homodi GO:0043540
1359933 Accepted 'negative regulation of glucocorticoid catabolism' GO:0031943 GO:0031944 GO:0031945 GO:0031946 GO:0031947 GO:0031948 GO:0031949 GO:0031950 GO:0031951
1361875 Accepted NTR: i-AAA complex GO:0031942
1363147 Fixed Actin cytoskeleton: def changes, term moves, and synonyms GO:0031941
1363668 Accepted positive regulation of GO:0046777 GO:0031952 GO:0031953 GO:0031954
1363719 Accepted acyl-CoA ligase activity GO:0031955 GO:0031956 GO:0031957
1363794 Duplicate child of neuroprotection [none]
1364196 Duplicate incorrect definition GO:0042351 ' L-fucose biosynth [none]
1364198 Fixed incorrect definition GO:0042351 de novo GDP-L-fucose biosyn [none]
1365149 Accepted UDP-N-acetylglucosamine transferase complex GO:0043541
1365473 Accepted ntr: TOR signaling pathway GO:0031929
1365477 Accepted NTR: beta-alanyl-histimine hydrolase activity GO:0031964
1368487 Fixed odd def in component term GO:0000214 [none]
Statistics:
biological_process: 10436 terms, 97.8% defined (10206 terms defined)
cellular_component: 1771 terms, 95.3% defined (1687 terms defined)
molecular_function: 7862 terms, 91.8% defined (7218 terms defined)
Total: 20069 terms, 95.2% defined (19111 terms defined)
Term errors
none