Gene Ontology: Ontology Comparison Report

Files used:

file 1 (old): go-2011-08-06.obo; date: 05:08:2011 14:39; CVS revision: 1.2155
file 2 (new): go-2011-08-13.obo; date: 12:08:2011 16:34; CVS revision: 1.2181

New terms
Obsoletions
Term merges
Term changes
File Stats

New terms

ID	name	namespace
GO:0002190	cap-independent translational initiation	biological_process
GO:0002191	cap-dependent translational initiation	biological_process
GO:0002192	IRES-dependent translational initiation	biological_process
GO:0002193	MAML1-RBP-Jkappa- ICN1 complex	cellular_component
GO:0035970	peptidyl-threonine dephosphorylation	biological_process
GO:0035971	peptidyl-histidine dephosphorylation	biological_process
GO:0035973	aggrephagy	biological_process
GO:0044350	micropinocytosis	biological_process
GO:0044351	macropinocytosis	biological_process
GO:0044352	pinosome	cellular_component
GO:0044353	micropinosome	cellular_component
GO:0044354	macropinosome	cellular_component
GO:0044355	clearance of foreign intracellular DNA	biological_process
GO:0044356	clearance of foreign intracellular DNA by conversion of DNA cytidine to uridine	biological_process
GO:0052711	ergothioneine biosynthesis from N-alpha,N-alpha,N-alpha-trimethyl-L-histidine	biological_process
GO:0052712	inositol phosphosphingolipid phospholipase activity	molecular_function
GO:0052713	inositol phosphorylceramide phospholipase activity	molecular_function
GO:0052714	mannosyl-inositol phosphorylceramide phospholipase activity	molecular_function
GO:0052715	mannosyl-diinositol phosphorylceramide phospholipase activity	molecular_function
GO:0052716	hydroquinone:oxygen oxidoreductase activity	molecular_function
GO:0052717	tRNA-specific adenosine-34 deaminase activity	molecular_function
GO:0052718	tRNA-specific adenosine-34 deaminase complex	cellular_component
GO:0072689	MCM complex assembly	biological_process
GO:0080181	lateral root branching	biological_process
GO:0080182	histone H3-K4 trimethylation	biological_process
GO:0080183	response to photooxidative stress	biological_process
GO:0080184	response to phenylpropanoid	biological_process
GO:0080185	effector dependent induction by symbiont of host immune response	biological_process
GO:0090411	brassinosteroid binding	molecular_function
GO:0097151	positive regulation of inhibitory postsynaptic membrane potential	biological_process
GO:2000986	negative regulation of behavioral fear response	biological_process
GO:2000987	positive regulation of behavioral fear response	biological_process
GO:2000988	regulation of hemicellulose catabolic process	biological_process
GO:2000989	negative regulation of hemicellulose catabolic process	biological_process
GO:2000990	positive regulation of hemicellulose catabolic process	biological_process
GO:2000991	regulation of galactomannan catabolic process	biological_process
GO:2000992	negative regulation of galactomannan catabolic process	biological_process
GO:2000993	positive regulation of galactomannan catabolic process	biological_process
GO:2000994	regulation of mannan catabolic process	biological_process
GO:2000995	negative regulation of mannan catabolic process	biological_process
GO:2000996	positive regulation of mannan catabolic process	biological_process
GO:2000997	regulation of cellulose catabolic process	biological_process
GO:2000998	negative regulation of cellulose catabolic process	biological_process
GO:2000999	positive regulation of cellulose catabolic process	biological_process
GO:2001000	regulation of xylan catabolic process	biological_process
GO:2001001	negative regulation of xylan catabolic process	biological_process
GO:2001002	positive regulation of xylan catabolic process	biological_process
GO:2001003	regulation of pectin catabolic process	biological_process
GO:2001004	negative regulation of pectin catabolic process	biological_process
GO:2001005	positive regulation of pectin catabolic process	biological_process
GO:2001006	regulation of cellulose biosynthetic process	biological_process
GO:2001007	negative regulation of cellulose biosynthetic process	biological_process
GO:2001008	positive regulation of cellulose biosynthetic process	biological_process
GO:2001009	regulation of plant-type cell wall cellulose biosynthetic process	biological_process
GO:2001010	negative regulation of plant-type cell wall cellulose biosynthetic process	biological_process
GO:2001011	positive regulation of plant-type cell wall cellulose biosynthetic process	biological_process
GO:2001012	mesenchymal cell differentiation involved in renal system development	biological_process
GO:2001014	regulation of skeletal muscle cell differentiation	biological_process
GO:2001015	negative regulation of skeletal muscle cell differentiation	biological_process
GO:2001016	positive regulation of skeletal muscle cell differentiation	biological_process

Obsoletions

ID	name	namespace
GO:0018853	perillyl-CoA synthetase activity	molecular_function

Term merges

Old ID	Old name	Merged into	Merged term name
GO:0006345	loss of chromatin silencing	GO:0031936	negative regulation of chromatin silencing
GO:0051768	nitric-oxide synthase 2 biosynthetic process	GO:0051767	nitric-oxide synthase biosynthetic process
GO:0051772	regulation of nitric-oxide synthase 2 biosynthetic process	GO:0051769	regulation of nitric-oxide synthase biosynthetic process
GO:0051773	positive regulation of nitric-oxide synthase 2 biosynthetic process	GO:0051770	positive regulation of nitric-oxide synthase biosynthetic process
GO:0051774	negative regulation of nitric-oxide synthase 2 biosynthetic process	GO:0051771	negative regulation of nitric-oxide synthase biosynthetic process

Term changes

KEY: 'A' : added, 'D' : deleted, 'C' : changed (for properties with only one value)

Changes in term-related data
Term ID	name	alt_id	def	comment	subset	synonym	xref	is_a	intersection_of	relationship	is_obsolete	consider
Term ID	name	alt_id	def	comment	subset	synonym	xref	is_a	intersection_of	relationship	is_obsolete	consider
GO:0000050 urea cycle										1 D
GO:0000054 ribosomal subunit export from nucleus					1 A
GO:0000127 transcription factor TFIIIC complex			C
GO:0000278 mitotic cell cycle					1 A
GO:0000902 cell morphogenesis					1 A
GO:0000988 protein binding transcription factor activity					1 A
GO:0001071 nucleic acid binding transcription factor activity					1 A
GO:0001308 negative regulation of chromatin silencing involved in replicative cell aging	C					1 A		1 D, 1 A	1 D, 2 A
GO:0001403 invasive growth in response to glucose limitation					1 A
GO:0002181 cytoplasmic translation					1 A
GO:0003729 mRNA binding					1 A
GO:0003735 structural constituent of ribosome					1 A
GO:0003774 motor activity					1 D
GO:0003918 DNA topoisomerase (ATP-hydrolyzing) activity								1 A
GO:0003924 GTPase activity					1 A
GO:0003990 acetylcholinesterase activity								1 D, 1 A
GO:0004518 nuclease activity					1 A
GO:0004672 protein kinase activity					1 D
GO:0004721 phosphoprotein phosphatase activity					1 D
GO:0005215 transporter activity					1 D
GO:0005515 protein binding					1 D
GO:0005643 nuclear pore						1 A
GO:0005975 carbohydrate metabolic process					1 A
GO:0006259 DNA metabolic process					1 D
GO:0006260 DNA replication					1 A
GO:0006281 DNA repair					1 A
GO:0006310 DNA recombination					1 A
GO:0006325 chromatin organization					1 A
GO:0006352 transcription initiation, DNA-dependent					1 A
GO:0006353 transcription termination, DNA-dependent					1 A
GO:0006354 transcription elongation, DNA-dependent					1 A
GO:0006360 transcription from RNA polymerase I promoter					1 A
GO:0006364 rRNA processing					1 A
GO:0006366 transcription from RNA polymerase II promoter					1 A
GO:0006383 transcription from RNA polymerase III promoter					1 A
GO:0006397 mRNA processing					1 A
GO:0006401 RNA catabolic process					1 A
GO:0006412 translation					1 D
GO:0006413 translational initiation					1 A
GO:0006414 translational elongation					1 A
GO:0006417 regulation of translation					1 A
GO:0006418 tRNA aminoacylation for protein translation					1 A
GO:0006464 protein modification process					1 D
GO:0006468 protein phosphorylation					1 A
GO:0006470 protein dephosphorylation					1 A
GO:0006486 protein glycosylation					1 A
GO:0006497 protein lipidation					1 A
GO:0006520 cellular amino acid metabolic process					1 A
GO:0006605 protein targeting					1 A
GO:0006629 lipid metabolic process					1 A
GO:0006725 cellular aromatic compound metabolic process					1 D
GO:0006810 transport					1 D
GO:0006811 ion transport					1 A
GO:0006865 amino acid transport					1 A
GO:0006869 lipid transport					1 A
GO:0006873 cellular ion homeostasis					1 A
GO:0006887 exocytosis					1 A
GO:0006897 endocytosis					1 A
GO:0006907 pinocytosis			C			1 D, 1 A
GO:0006950 response to stress					1 D
GO:0006970 response to osmotic stress					1 A
GO:0006974 response to DNA damage stimulus					1 A
GO:0006979 response to oxidative stress					1 A
GO:0007018 microtubule-based movement								1 A
GO:0007049 cell cycle					1 D
GO:0007126 meiosis					1 D
GO:0007165 signal transduction					1 D
GO:0008033 tRNA processing					1 A
GO:0008090 retrograde axon cargo transport						1 D, 1 A
GO:0008092 cytoskeletal protein binding					1 A
GO:0008134 transcription factor binding					1 A
GO:0008135 translation factor activity, nucleic acid binding					1 A
GO:0008168 methyltransferase activity					1 A
GO:0008213 protein alkylation					1 A
GO:0008380 RNA splicing					1 A
GO:0008565 protein transporter activity					1 A
GO:0008643 carbohydrate transport					1 A
GO:0008657 DNA topoisomerase (ATP-hydrolyzing) inhibitor activity								1 D, 2 A		2 A
GO:0008886 glyceraldehyde-3-phosphate dehydrogenase (NADP+) (non-phosphorylating) activity	C
GO:0009307 DNA restriction-modification system			C					1 A
GO:0009311 oligosaccharide metabolic process					1 A
GO:0009408 response to heat					1 A
GO:0009451 RNA modification					1 A
GO:0010324 membrane invagination					1 A
GO:0010830 regulation of myotube differentiation								1 A
GO:0010831 positive regulation of myotube differentiation								1 D, 1 A
GO:0010832 negative regulation of myotube differentiation								1 D, 1 A
GO:0015931 nucleobase, nucleoside, nucleotide and nucleic acid transport					1 A
GO:0016044 cellular membrane organization					1 D
GO:0016070 RNA metabolic process					1 D
GO:0016192 vesicle-mediated transport					1 D
GO:0016197 endosome transport					1 A
GO:0016301 kinase activity					1 A
GO:0016570 histone modification					1 A
GO:0016740 transferase activity					1 D
GO:0016746 transferase activity, transferring acyl groups					1 A
GO:0016757 transferase activity, transferring glycosyl groups					1 A
GO:0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups					1 A
GO:0016787 hydrolase activity					1 D
GO:0016791 phosphatase activity					1 A
GO:0016798 hydrolase activity, acting on glycosyl bonds					1 A
GO:0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds					1 A
GO:0016887 ATPase activity					1 A
GO:0018193 peptidyl-amino acid modification					1 A
GO:0018853 perillyl-CoA synthetase activity			C	A				2 D			A	2 A
GO:0019725 cellular homeostasis					1 D
GO:0019843 rRNA binding					1 A
GO:0019899 enzyme binding					1 A
GO:0022857 transmembrane transporter activity					1 A
GO:0023052 signaling					1 A
GO:0030048 actin filament-based movement								1 A
GO:0030144 alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase activity	C					1 A
GO:0030435 sporulation resulting in formation of a cellular spore					1 D
GO:0030528 transcription regulator activity					1 D
GO:0030555 RNA modification guide activity					1 A
GO:0030674 protein binding, bridging					1 A
GO:0031399 regulation of protein modification process					1 A
GO:0031505 fungal-type cell wall organization					1 D
GO:0031936 negative regulation of chromatin silencing		1 A				1 A
GO:0032182 small conjugating protein binding					1 A
GO:0032200 telomere organization					1 A
GO:0032542 sulfiredoxin activity								1 A
GO:0032543 mitochondrial translation					1 A
GO:0032989 cellular component morphogenesis					1 D
GO:0033043 regulation of organelle organization					1 A
GO:0042254 ribosome biogenesis					1 D
GO:0042255 ribosome assembly					1 A
GO:0042273 ribosomal large subunit biogenesis					1 A
GO:0042274 ribosomal small subunit biogenesis					1 A
GO:0042393 histone binding					1 A
GO:0042594 response to starvation					1 A
GO:0043144 snoRNA processing					1 A
GO:0043167 ion binding					1 A
GO:0043543 protein acylation					1 A
GO:0043934 sporulation					1 A
GO:0044005 induction by symbiont in host of tumor, nodule, or growth			C
GO:0044006 induction by symbiont in host of tumor, nodule, or growth containing transformed cells			C
GO:0044255 cellular lipid metabolic process					1 D
GO:0044257 cellular protein catabolic process					1 D
GO:0044262 cellular carbohydrate metabolic process					1 D
GO:0045182 translation regulator activity					1 D
GO:0046483 heterocycle metabolic process					1 D
GO:0047253 alpha-1,6-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity	C					1 A
GO:0048193 Golgi vesicle transport					1 A
GO:0048284 organelle fusion					1 A
GO:0048285 organelle fission					1 A
GO:0048308 organelle inheritance					1 A
GO:0051037 regulation of transcription during meiosis										1 A
GO:0051049 regulation of transport					1 A
GO:0051052 regulation of DNA metabolic process					1 A
GO:0051082 unfolded protein binding					1 A
GO:0051169 nuclear transport					1 A
GO:0051276 chromosome organization					1 D
GO:0051321 meiotic cell cycle					1 A
GO:0051603 proteolysis involved in cellular protein catabolic process					1 A
GO:0051604 protein maturation					1 A
GO:0051726 regulation of cell cycle					1 A
GO:0051767 nitric-oxide synthase biosynthetic process		1 A	C			16 A
GO:0051769 regulation of nitric-oxide synthase biosynthetic process		1 A	C			7 A
GO:0051770 positive regulation of nitric-oxide synthase biosynthetic process		1 A	C			12 A
GO:0051771 negative regulation of nitric-oxide synthase biosynthetic process		1 A	C			11 A
GO:0051819 induction of tumor, nodule, or growth in other organism involved in symbiotic interaction			C
GO:0051820 induction of tumor, nodule, or growth containing transformed cells in other organism involved in symbiotic interaction			C
GO:0052707 N-alpha,N-alpha,N-alpha-trimethyl-L-histidine biosynthesis from histidine	C					2 A				1 A
GO:0055085 transmembrane transport					1 A
GO:0055086 nucleobase, nucleoside and nucleotide metabolic process					1 A
GO:0060080 regulation of inhibitory postsynaptic membrane potential			C
GO:0061025 membrane fusion					1 A
GO:0070647 protein modification by small protein conjugation or removal					1 A
GO:0070925 organelle assembly					1 A
GO:0071554 cell wall organization or biogenesis					1 A
GO:0072161 mesenchymal cell differentiation involved in kidney development								1 D, 1 A
GO:0072583 clathrin-mediated endocytosis								1 D, 1 A
GO:0072584 caveolin-mediated endocytosis								1 D, 1 A
GO:0072586 DNA topoisomerase (ATP-hydrolyzing) regulator activity								1 D, 1 A
GO:0072587 DNA topoisomerase (ATP-hydrolyzing) activator activity								1 D, 1 A
GO:0080066 3-methylthiopropyl-desulfoglucosinolate sulfotransferase activity							1 A
GO:0080067 4-methylthiobutyl-desulfoglucosinolate sulfotransferase activity							1 A
GO:0080068 5-methylthiopentyl-desulfoglucosinolate sulfotransferase activity							1 A
GO:0080069 7-methylthioheptyl-desulfoglucosinolate sulfotransferase activity							1 A
GO:0080070 8-methylthiooctyl-desulfoglucosinolate sulfotransferase activity							1 A
GO:0080071 indol-3-yl-methyl-desulfoglucosinolate sulfotransferase activity							1 A
GO:0090404 pollen tube tip
GO:0090406 pollen tube
GO:2000371 regulation of DNA topoisomerase (ATP-hydrolyzing) activity								1 A
GO:2000372 negative regulation of DNA topoisomerase (ATP-hydrolyzing) activity								1 D, 1 A
GO:2000373 positive regulation of DNA topoisomerase (ATP-hydrolyzing) activity								1 A
GO:2000898 regulation of glucomannan catabolic process								3 D, 1 A
GO:2000907 negative regulation of glucomannan catabolic process								3 D, 1 A
GO:2000908 positive regulation of glucomannan catabolic process								3 D, 1 A
GO:2000912 regulation of galactoglucomannan catabolic process								3 D, 1 A
GO:2000913 negative regulation of galactoglucomannan catabolic process								3 D, 1 A
GO:2000914 positive regulation of galactoglucomannan catabolic process								3 D, 1 A
GO:2000915 regulation of glucuronoxylan catabolic process								2 D, 1 A
GO:2000916 negative regulation of glucuronoxylan catabolic process								1 D, 1 A
GO:2000917 positive regulation of glucuronoxylan catabolic process								1 D, 1 A
GO:2000918 regulation of glucuronoarabinoxylan catabolic process								2 D, 1 A
GO:2000919 negative regulation of glucuronoarabinoxylan catabolic process								1 D, 1 A
GO:2000920 positive regulation of glucuronoarabinoxylan catabolic process								1 D, 1 A
GO:2000921 regulation of arabinoxylan catabolic process								2 D, 1 A
GO:2000922 negative regulation of arabinoxylan catabolic process								1 D, 1 A
GO:2000923 positive regulation of arabinoxylan catabolic process								1 D, 1 A
GO:2000930 regulation of cellobiose metabolic process						1 D, 1 A
GO:2000931 negative regulation of cellobiose metabolic process						1 D, 1 A
GO:2000932 positive regulation of cellobiose metabolic process						1 D, 1 A

File Stats

Term counts for the old and new files
Ontology	Old file	New file	Change
molecular function	9037 9037 (100.0%) defined	9043 9043 (100.0%) defined	+6
cellular component	2887 2887 (100.0%) defined	2892 2892 (100.0%) defined	+5
biological process	21274 21274 (100.0%) defined	21317 21317 (100.0%) defined	+43
Obsolete	1563 (4.5% of total)	1564 (4.5% of total)	+1 (+0.1%)
Totals	33198 33198 (100.0%) defined 34761 inc. obsoletes	33252 33252 (100.0%) defined 34816 inc. obsoletes	+55 (+0.2%)

Ontology report info