GO Monthly Release Notes for September 2007
========================
Generated on Mon Oct 1 16:55:43 2007
Files used:
gene_ontology.obo
OLD: version 4.309, 30:08:2007 19:30
NEW: version 4.322, 29:09:2007 19:30
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 GO-slim term(s) that new term was added under or "obs" if the term is obsolete.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 (3 new terms)
GO:0032581 GO:0006996 MAH D ER-dependent peroxisome biogenesis
GO:0032582 GO:0006350 MAH D negative regulation of gene-specific transcription
GO:0050789
GO:0032583 GO:0006350 MAH D regulation of gene-specific transcription
GO:0050789
Term name changes in biological_process ontology
GO:0006349: imprinting --> genetic imprinting
GO:0051460: negative regulation of adrenocorticotropin hormone secretion --> negative regulation of adrenocorticotropic hormone secretion
GO:0051461: positive regulation of adrenocorticotropin hormone secretion --> positive regulation of adrenocorticotropic hormone secretion
GO:0052548: regulation of protease activity --> regulation of endopeptidase activity
New term merges in biological_process ontology
GO:0000283 has been merged into GO:0030010, establishment of cell polarity
GO:0030012 has been merged into GO:0007163, establishment and/or maintenance of cell polarity
GO:0030013 has been merged into GO:0030011, maintenance of cell polarity
GO:0030467 has been merged into GO:0007163, establishment and/or maintenance of cell polarity
GO:0030468 has been merged into GO:0030010, establishment of cell polarity
GO:0030469 has been merged into GO:0030011, maintenance of cell polarity
Term movements in biological_process ontology:
Terms movements under GO Slim term 'mitochondrion organization and biogenesis ; GO:0007005'
+ GO:0032981, mitochondrial respiratory chain complex I assembly
+ GO:0033108, mitochondrial respiratory chain complex assembly
Terms movements under GO Slim term 'cell communication ; GO:0007154'
- GO:0000409, regulation of transcription by galactose
- GO:0000410, negative regulation of transcription by galactose
- GO:0000411, positive regulation of transcription by galactose
- GO:0000429, regulation of transcription from RNA polymerase II promoter by carbon catabolites
- GO:0000430, regulation of transcription from RNA polymerase II promoter by glucose
- GO:0000431, regulation of transcription from RNA polymerase II promoter by galactose
- GO:0000432, positive regulation of transcription from RNA polymerase II promoter by glucose
- GO:0000433, negative regulation of transcription from RNA polymerase II promoter by glucose
- GO:0000434, negative regulation of transcription from RNA polymerase II promoter by galactose
- GO:0000435, positive regulation of transcription from RNA polymerase II promoter by galactose
- GO:0000436, positive regulation of transcription from RNA polymerase II promoter by carbon catabolites
- GO:0000437, negative regulation of transcription from RNA polymerase II promoter by carbon catabolites
- GO:0007584, response to nutrient
- GO:0007637, proboscis extension reflex
- GO:0009594, detection of nutrient
- GO:0009991, response to extracellular stimulus
- GO:0010266, response to vitamin B1
- GO:0030587, fruiting body development (sensu Dictyosteliida)
- GO:0031149, stalk cell differentiation
- GO:0031150, stalk development (sensu Dictyosteliida)
- GO:0031152, aggregation during fruiting body development
- GO:0031153, slug development during fruiting body development
- GO:0031154, culmination during fruiting body development
- GO:0031156, regulation of fruiting body development (sensu Dictyosteliida)
- GO:0031157, regulation of aggregate size
- GO:0031158, negative regulation of aggregate size
- GO:0031159, positive regulation of aggregate size
- GO:0031285, regulation of stalk cell differentiation
- GO:0031286, negative regulation of stalk cell differentiation
- GO:0031287, positive regulation of stalk cell differentiation
- GO:0031288, fruiting body morphogenesis (sensu Dictyosteliida)
- GO:0031667, response to nutrient levels
- GO:0032094, response to food
- GO:0032095, regulation of response to food
- GO:0032096, negative regulation of response to food
- GO:0032097, positive regulation of response to food
- GO:0032098, regulation of appetite
- GO:0032099, negative regulation of appetite
- GO:0032100, positive regulation of appetite
- GO:0032104, regulation of response to extracellular stimulus
- GO:0032105, negative regulation of response to extracellular stimulus
- GO:0032106, positive regulation of response to extracellular stimulus
- GO:0032107, regulation of response to nutrient levels
- GO:0032108, negative regulation of response to nutrient levels
- GO:0032109, positive regulation of response to nutrient levels
- GO:0032526, response to retinoic acid
- GO:0032571, response to vitamin K
- GO:0032572, response to menaquinone
- GO:0032573, response to phylloquinone
- GO:0033189, response to vitamin A
- GO:0033197, response to vitamin E
- GO:0033273, response to vitamin
- GO:0033274, response to vitamin B2
- GO:0033280, response to vitamin D
- GO:0033552, response to vitamin B3
- GO:0033590, response to cobalamin
- GO:0033591, response to L-ascorbic acid
- GO:0042594, response to starvation
- GO:0042595, behavioral response to starvation
- GO:0045013, negative regulation of transcription by carbon catabolites
- GO:0045014, negative regulation of transcription by glucose
- GO:0045990, regulation of transcription by carbon catabolites
- GO:0045991, positive regulation of transcription by carbon catabolites
- GO:0046015, regulation of transcription by glucose
- GO:0046016, positive regulation of transcription by glucose
- GO:0048837, sorus development
- GO:0051780, behavioral response to nutrient
Terms movements under GO Slim term 'cellular component organization and biogenesis ; GO:0016043'
- GO:0032981, mitochondrial respiratory chain complex I assembly
- GO:0033108, mitochondrial respiratory chain complex assembly
New terms in cellular_component ontology (12 new terms)
GO:0032578 GO:0016023 MAH D aleurone grain membrane
GO:0032579 GO:0005578 MAH D apical lamina of hyaline layer
GO:0032580 GO:0005794 MAH D Golgi cisterna membrane
GO:0032584 GO:0005886 MAH D growth cone membrane
GO:0032585 GO:0005768 MAH D multivesicular body membrane
GO:0032586 GO:0005773 MAH D protein storage vacuole membrane
GO:0032587 GO:0005886 MAH D ruffle membrane
GO:0032588 GO:0005794 MAH D trans-Golgi network membrane
GO:0032589 GO:0005886 MAH D neuron projection membrane
GO:0032590 GO:0005886 MAH D dendrite membrane
GO:0032591 GO:0005886 MAH D dendritic spine membrane
GO:0032592 GO:0005794 MAH D integral to mitochodrial membrane
Term name changes in cellular_component ontology
GO:0002111: BRAC2-BRAF35 complex --> BRCA2-BRAF35 complex
Term movements in cellular_component ontology:
Terms movements under GO Slim term 'cell ; GO:0005623'
- GO:0030673, axolemma
Terms movements under GO Slim term 'Golgi apparatus ; GO:0005794'
+ GO:0031305, integral to mitochondrial inner membrane
+ GO:0031307, integral to mitochondrial outer membrane
Terms movements under GO Slim term 'plasma membrane ; GO:0005886'
+ GO:0030673, axolemma
New terms in molecular_function ontology (2 new terms)
GO:0032576 GO:0016740 MAH D O-linoleoyltransferase activity
GO:0032577 GO:0016740 MAH D phosphatidylcholine:cardiolipin O-linoleoyltransferase
Term name changes in molecular_function ontology
GO:0004198: calpain activity --> calcium-dependent cysteine-type endopeptidase activity
GO:0004712: protein threonine/tyrosine kinase activity --> protein serine/threonine/tyrosine kinase activity
GO:0043138: 3' to 5' DNA helicase activity --> 3'-5' DNA helicase activity
GO:0043139: 5' to 3' DNA helicase activity --> 5'-3' DNA helicase activity
GO:0043140: ATP-dependent 3' to 5' DNA helicase activity --> ATP-dependent 3'-5' DNA helicase activity
GO:0043141: ATP-dependent 5' to 3' DNA helicase activity --> ATP-dependent 5'-3' DNA helicase activity
New definitions for molecular_function ontology terms (5 new definitions)
GO:0004677, DNA-dependent protein kinase activity
GO:0004697, protein kinase C activity
GO:0004698, calcium-dependent protein kinase C activity
GO:0004699, calcium-independent protein kinase C activity
GO:0004714, transmembrane receptor protein tyrosine kinase activity
New term merges in molecular_function ontology
GO:0004701 has been merged into GO:0004697, protein kinase C activity
SourceForge items closed this month:
SF id Resolution SF item title GO ids added, if any
1073073 Out of Date morphogenesis is_a development
1081679 Accepted updates for gap junction terms
1428209 Fixed sensu syntax
1711143 Accepted mosquito - human behaviour
1723526 Accepted ntr: cysteine export terms
1724459 Fixed neuroblast division term defs need tweaks
1743484 Fixed Protein-serine/threonine kinases
1768067 Fixed fruiting body development / sensus
1775791 Accepted RG: BRAC2-BRAF35 Complex
1778812 Accepted regulation of smooth muscle cell migration
1779479 Fixed response to extracellular stimulus GO:0009991
1785486 Accepted Polysemy of "imprinting" (GO:0006349)
1786600 Accepted add synonym calcium ion transport
1787119 Fixed helicase consistency (quick)
1787600 Works For Me primary metabolic process meaning....
1787665 Accepted NTR: new type of transacylase
1787995 Rejected electron-transferring-flavoprotein dehydrogenase
1788310 Duplicate electron-transferring-flavoprotein dehydrogenase
1789569 Fixed GO:0052548 regulation of protease activity
1790209 Fixed update EC numbers
1790293 Accepted di/tri oligo peptide transport
1791458 Fixed synonym for narrow pore, gated channel activity (GO:0022831)
1792358 Accepted aleurone grain membrane
1792396 Accepted apical lamina of hyaline layer
1792470 Accepted Golgi stack membrane
1793816 Accepted synonym for sulfuric ester hydrolase activity (GO:0008484)
1794791 Works For Me mp : iron sufur cluster assembly
1795419 Works For Me q secretory pathway
1796071 Accepted sensu /cell polarity suggestion
1797146 Accepted NTR: ER-dependent peroxisome biogenesis
1797848 Accepted rg: NTR: -ve reg gene-specific transcription
1798477 Fixed hemolysis definitions
1798777 Fixed mp: pyridoxamine transmembrane
1798779 Fixed mp: nicotinamide mononucleotide transmembrane trans
1801003 Accepted rg: add synonym to GO:0008611
1801213 Accepted NTR: Growth cone membrane
1801237 Accepted NTR: Multivesicular body membrane
1801286 Accepted NTR: Protein storage vacuole membrane
1802550 Accepted NTR: Ruffle membrane
1802598 Accepted NTR: trans-Golgi network membrane
1802599 Accepted Add synonym to Uropod
1803144 Accepted add parentage to GO:0033108
1803376 Accepted NTR: Dendritic spine membrane
1804141 Accepted add parentage to GO:0031307
1804300 Accepted new mito membrane term
703326 Accepted Transporter Ontology Revamp
923627 Out of Date GO:0010196 : nonphotochemical quenching
Statistics:
biological_process: 14375 terms, 98.9% defined (14216 terms defined)
cellular_component: 2133 terms, 100.0% defined (2133 terms defined)
molecular_function: 8435 terms, 95.4% defined (8048 terms defined)
Total: 24943 terms, 97.8% defined (24397 terms defined)
Term errors
none