PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: GO term
Identifier: GO:0071704
Description: organic substance metabolic process

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis lyrata	scaffold_4	2	CH_aly_302	29	45	0.000436483
Arabidopsis lyrata	scaffold_4	4	CH_aly_24	56	138	0.0000112698
Arabidopsis lyrata	scaffold_4	5	CH_aly_66	43	78	0.000169603
Citrullus lanatus	Chr10	5	CH_cla_34	35	62	0.000103566
Citrullus lanatus	Chr10	5	CH_cla_43	104	283	0.00028914
Citrullus lanatus	Chr3	6	CH_cla_42	127	289	0.0000118777
Cucumis melo	CM3.5_scaffold00068	3	CH_cme_299	30	46	0.000383419
Cucumis melo	CM3.5_scaffold00068	6	CH_cme_61	31	48	0.000312229
Eucalyptus grandis	scaffold_10	6	CH_egr_293	117	259	0.000195195
Eucalyptus grandis	scaffold_6	10	CH_egr_4	65	315	0.000863519
Eucalyptus grandis	scaffold_6	11	CH_egr_13	77	315	0.000888611
Eucalyptus grandis	scaffold_6	12	CH_egr_5	91	315	0.000116221
Medicago truncatula	chr8	2	CH_mtr_619	14	20	0.000404318
Medicago truncatula	chr8	3	CH_mtr_454	17	20	0.00000481493
Medicago truncatula	chr8	5	CH_mtr_209	14	20	0.000404318
Medicago truncatula	chr8	6	CH_mtr_168	17	20	0.00000481493
Medicago truncatula	chr4	12	CH_mtr_13	70	296	0.000166359
Populus trichocarpa	Chr19	4	CH_ptr_104	16	21	0.000233043
Solanum tuberosum	chr08	1	CH_stu_250	30	49	0.000000673525
Solanum tuberosum	chr08	2	CH_stu_371	30	46	0.0000298879
Solanum tuberosum	chr08	4	CH_stu_104	30	49	0.000000673525
Solanum tuberosum	chr08	5	CH_stu_122	32	49	0.00000775089
Solanum tuberosum	chr01	6	CH_stu_134	56	87	0.00000021538
Solanum tuberosum	chr08	6	CH_stu_235	33	49	0.000889938
Solanum tuberosum	chr12	9	CH_stu_18	29	51	0.000146408
Thellungiella parvula	ch4-6	2	CH_tpa_171	13	13	0.000276659
Thellungiella parvula	ch4-6	5	CH_tpa_28	13	13	0.000276659
Thellungiella parvula	ch6-6	5	CH_tpa_36	104	263	0.000945194
Theobroma cacao	scaffold_9	1	CH_tca_241	11	11	0.000163804
Theobroma cacao	scaffold_9	2	CH_tca_252	13	13	0.0000842766
Theobroma cacao	scaffold_9	4	CH_tca_69	11	11	0.000163804
Theobroma cacao	scaffold_9	5	CH_tca_65	13	13	0.0000842766

Available child term results

GO term	Description	Number of clusters
GO:0000012	single strand break repair	2
GO:0000024	maltose biosynthetic process	2
GO:0000025	maltose catabolic process	2
GO:0000079	regulation of cyclin-dependent protein serine/threonine kinase activity	6
GO:0000096	sulfur amino acid metabolic process	2
GO:0000122	negative regulation of transcription from RNA polymerase II promoter	2
GO:0000154	rRNA modification	42
GO:0000162	tryptophan biosynthetic process	1
GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	1
GO:0000244	spliceosomal tri-snRNP complex assembly	6
GO:0000245	spliceosomal complex assembly	6
GO:0000256	allantoin catabolic process	4
GO:0000289	nuclear-transcribed mRNA poly(A) tail shortening	6
GO:0000387	spliceosomal snRNP assembly	3
GO:0000712	resolution of meiotic recombination intermediates	5
GO:0000723	telomere maintenance	16
GO:0000724	double-strand break repair via homologous recombination	9
GO:0000966	RNA 5'-end processing	12
GO:0001510	RNA methylation	1
GO:0001561	fatty acid alpha-oxidation	13
GO:0001682	tRNA 5'-leader removal	4
GO:0001881	receptor recycling	2
GO:0002098	tRNA wobble uridine modification	1
GO:0005975	carbohydrate metabolic process	75
GO:0005985	sucrose metabolic process	2
GO:0005987	sucrose catabolic process	3
GO:0005992	trehalose biosynthetic process	1
GO:0005993	trehalose catabolic process	2
GO:0005997	xylulose metabolic process	2
GO:0006003	fructose 2,6-bisphosphate metabolic process	4
GO:0006006	glucose metabolic process	3
GO:0006013	mannose metabolic process	24
GO:0006032	chitin catabolic process	106
GO:0006040	amino sugar metabolic process	2
GO:0006042	glucosamine biosynthetic process	1
GO:0006065	UDP-glucuronate biosynthetic process	5
GO:0006066	alcohol metabolic process	5
GO:0006069	ethanol oxidation	3
GO:0006073	cellular glucan metabolic process	2
GO:0006075	(1->3)-beta-D-glucan biosynthetic process	36
GO:0006083	acetate metabolic process	2
GO:0006086	acetyl-CoA biosynthetic process from pyruvate	3
GO:0006096	glycolysis	6
GO:0006097	glyoxylate cycle	3
GO:0006101	citrate metabolic process	3
GO:0006102	isocitrate metabolic process	2
GO:0006106	fumarate metabolic process	11
GO:0006108	malate metabolic process	2
GO:0006110	regulation of glycolysis	2
GO:0006139	nucleobase-containing compound metabolic process	3
GO:0006145	purine nucleobase catabolic process	4
GO:0006148	inosine catabolic process	2
GO:0006154	adenosine catabolic process	18
GO:0006164	purine nucleotide biosynthetic process	1
GO:0006169	adenosine salvage	4
GO:0006177	GMP biosynthetic process	2
GO:0006182	cGMP biosynthetic process	27
GO:0006183	GTP biosynthetic process	11
GO:0006184	GTP catabolic process	6
GO:0006200	ATP catabolic process	7
GO:0006208	pyrimidine nucleobase catabolic process	2
GO:0006223	uracil salvage	2
GO:0006231	dTMP biosynthetic process	7
GO:0006233	dTDP biosynthetic process	3
GO:0006259	DNA metabolic process	85
GO:0006260	DNA replication	4
GO:0006269	DNA replication, synthesis of RNA primer	8
GO:0006271	DNA strand elongation involved in DNA replication	2
GO:0006278	RNA-dependent DNA replication	14
GO:0006279	premeiotic DNA replication	2
GO:0006281	DNA repair	5
GO:0006282	regulation of DNA repair	5
GO:0006284	base-excision repair	8
GO:0006294	nucleotide-excision repair, preincision complex assembly	2
GO:0006298	mismatch repair	7
GO:0006302	double-strand break repair	1
GO:0006303	double-strand break repair via nonhomologous end joining	12
GO:0006306	DNA methylation	5
GO:0006308	DNA catabolic process	16
GO:0006310	DNA recombination	48
GO:0006312	mitotic recombination	2
GO:0006323	DNA packaging	11
GO:0006351	transcription, DNA-templated	38
GO:0006352	DNA-dependent transcription, initiation	11
GO:0006353	DNA-dependent transcription, termination	6
GO:0006354	DNA-dependent transcription, elongation	12
GO:0006355	regulation of transcription, DNA-dependent	118
GO:0006357	regulation of transcription from RNA polymerase II promoter	4
GO:0006364	rRNA processing	6
GO:0006366	transcription from RNA polymerase II promoter	3
GO:0006367	transcription initiation from RNA polymerase II promoter	12
GO:0006370	7-methylguanosine mRNA capping	5
GO:0006376	mRNA splice site selection	1
GO:0006378	mRNA polyadenylation	2
GO:0006383	transcription from RNA polymerase III promoter	7
GO:0006388	tRNA splicing, via endonucleolytic cleavage and ligation	3
GO:0006396	RNA processing	12
GO:0006397	mRNA processing	1
GO:0006412	translation	6
GO:0006413	translational initiation	3
GO:0006414	translational elongation	11
GO:0006418	tRNA aminoacylation for protein translation	4
GO:0006419	alanyl-tRNA aminoacylation	9
GO:0006420	arginyl-tRNA aminoacylation	11
GO:0006421	asparaginyl-tRNA aminoacylation	6
GO:0006423	cysteinyl-tRNA aminoacylation	12
GO:0006426	glycyl-tRNA aminoacylation	15
GO:0006428	isoleucyl-tRNA aminoacylation	5
GO:0006429	leucyl-tRNA aminoacylation	8
GO:0006430	lysyl-tRNA aminoacylation	11
GO:0006431	methionyl-tRNA aminoacylation	4
GO:0006432	phenylalanyl-tRNA aminoacylation	2
GO:0006433	prolyl-tRNA aminoacylation	7
GO:0006434	seryl-tRNA aminoacylation	16
GO:0006435	threonyl-tRNA aminoacylation	5
GO:0006436	tryptophanyl-tRNA aminoacylation	6
GO:0006438	valyl-tRNA aminoacylation	29
GO:0006450	regulation of translational fidelity	4
GO:0006457	protein folding	11
GO:0006464	cellular protein modification process	69
GO:0006465	signal peptide processing	3
GO:0006468	protein phosphorylation	374
GO:0006470	protein dephosphorylation	3
GO:0006471	protein ADP-ribosylation	9
GO:0006486	protein glycosylation	5
GO:0006499	N-terminal protein myristoylation	4
GO:0006505	GPI anchor metabolic process	2
GO:0006508	proteolysis	27
GO:0006511	ubiquitin-dependent protein catabolic process	84
GO:0006515	misfolded or incompletely synthesized protein catabolic process	5
GO:0006516	glycoprotein catabolic process	2
GO:0006517	protein deglycosylation	14
GO:0006520	cellular amino acid metabolic process	5
GO:0006527	arginine catabolic process	1
GO:0006529	asparagine biosynthetic process	4
GO:0006535	cysteine biosynthetic process from serine	12
GO:0006536	glutamate metabolic process	2
GO:0006540	glutamate decarboxylation to succinate	2
GO:0006541	glutamine metabolic process	3
GO:0006542	glutamine biosynthetic process	8
GO:0006552	leucine catabolic process	1
GO:0006556	S-adenosylmethionine biosynthetic process	3
GO:0006557	S-adenosylmethioninamine biosynthetic process	3
GO:0006559	L-phenylalanine catabolic process	26
GO:0006560	proline metabolic process	2
GO:0006562	proline catabolic process	3
GO:0006567	threonine catabolic process	2
GO:0006568	tryptophan metabolic process	1
GO:0006569	tryptophan catabolic process	20
GO:0006571	tyrosine biosynthetic process	9
GO:0006572	tyrosine catabolic process	4
GO:0006574	valine catabolic process	3
GO:0006575	cellular modified amino acid metabolic process	2
GO:0006576	cellular biogenic amine metabolic process	2
GO:0006580	ethanolamine metabolic process	2
GO:0006591	ornithine metabolic process	12
GO:0006596	polyamine biosynthetic process	8
GO:0006597	spermine biosynthetic process	10
GO:0006598	polyamine catabolic process	5
GO:0006627	protein processing involved in protein targeting to mitochondrion	3
GO:0006629	lipid metabolic process	230
GO:0006631	fatty acid metabolic process	8
GO:0006633	fatty acid biosynthetic process	40
GO:0006635	fatty acid beta-oxidation	3
GO:0006636	unsaturated fatty acid biosynthetic process	3
GO:0006651	diacylglycerol biosynthetic process	6
GO:0006656	phosphatidylcholine biosynthetic process	4
GO:0006662	glycerol ether metabolic process	33
GO:0006672	ceramide metabolic process	1
GO:0006694	steroid biosynthetic process	6
GO:0006720	isoprenoid metabolic process	8
GO:0006721	terpenoid metabolic process	5
GO:0006722	triterpenoid metabolic process	2
GO:0006741	NADP biosynthetic process	20
GO:0006744	ubiquinone biosynthetic process	1
GO:0006760	folic acid-containing compound metabolic process	6
GO:0006784	heme a biosynthetic process	3
GO:0006788	heme oxidation	1
GO:0007076	mitotic chromosome condensation	4
GO:0008033	tRNA processing	40
GO:0008202	steroid metabolic process	6
GO:0008213	protein alkylation	1
GO:0008299	isoprenoid biosynthetic process	11
GO:0008380	RNA splicing	1
GO:0008610	lipid biosynthetic process	18
GO:0008612	peptidyl-lysine modification to hypusine	3
GO:0008615	pyridoxine biosynthetic process	1
GO:0008616	queuosine biosynthetic process	8
GO:0008652	cellular amino acid biosynthetic process	5
GO:0009051	pentose-phosphate shunt, oxidative branch	2
GO:0009052	pentose-phosphate shunt, non-oxidative branch	3
GO:0009057	macromolecule catabolic process	14
GO:0009067	aspartate family amino acid biosynthetic process	1
GO:0009072	aromatic amino acid family metabolic process	1
GO:0009098	leucine biosynthetic process	1
GO:0009101	glycoprotein biosynthetic process	13
GO:0009116	nucleoside metabolic process	16
GO:0009117	nucleotide metabolic process	1
GO:0009166	nucleotide catabolic process	1
GO:0009190	cyclic nucleotide biosynthetic process	1
GO:0009205	purine ribonucleoside triphosphate metabolic process	2
GO:0009225	nucleotide-sugar metabolic process	6
GO:0009234	menaquinone biosynthetic process	2
GO:0009236	cobalamin biosynthetic process	5
GO:0009244	lipopolysaccharide core region biosynthetic process	3
GO:0009247	glycolipid biosynthetic process	1
GO:0009250	glucan biosynthetic process	6
GO:0009252	peptidoglycan biosynthetic process	5
GO:0009301	snRNA transcription	4
GO:0009308	amine metabolic process	6
GO:0009423	chorismate biosynthetic process	1
GO:0009435	NAD biosynthetic process	1
GO:0009445	putrescine metabolic process	1
GO:0009446	putrescine biosynthetic process	1
GO:0009452	7-methylguanosine RNA capping	1
GO:0009690	cytokinin metabolic process	4
GO:0009696	salicylic acid metabolic process	2
GO:0009697	salicylic acid biosynthetic process	42
GO:0009698	phenylpropanoid metabolic process	3
GO:0009715	chalcone biosynthetic process	14
GO:0009717	isoflavonoid biosynthetic process	2
GO:0009759	indole glucosinolate biosynthetic process	55
GO:0009807	lignan biosynthetic process	23
GO:0009808	lignin metabolic process	5
GO:0009809	lignin biosynthetic process	15
GO:0009813	flavonoid biosynthetic process	1
GO:0009821	alkaloid biosynthetic process	6
GO:0009823	cytokinin catabolic process	4
GO:0009963	positive regulation of flavonoid biosynthetic process	2
GO:0009972	cytidine deamination	15
GO:0010023	proanthocyanidin biosynthetic process	4
GO:0010024	phytochromobilin biosynthetic process	2
GO:0010028	xanthophyll cycle	2
GO:0010032	meiotic chromosome condensation	3
GO:0010241	ent-kaurene oxidation to kaurenoic acid	3
GO:0010246	rhamnogalacturonan I biosynthetic process	4
GO:0010263	tricyclic triterpenoid biosynthetic process	5
GO:0010322	regulation of isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway	2
GO:0010345	suberin biosynthetic process	4
GO:0010371	regulation of gibberellin biosynthetic process	2
GO:0010373	negative regulation of gibberellin biosynthetic process	2
GO:0010398	xylogalacturonan metabolic process	12
GO:0010411	xyloglucan metabolic process	8
GO:0010422	regulation of brassinosteroid biosynthetic process	2
GO:0010423	negative regulation of brassinosteroid biosynthetic process	1
GO:0010424	DNA methylation on cytosine within a CG sequence	4
GO:0010430	fatty acid omega-oxidation	4
GO:0010439	regulation of glucosinolate biosynthetic process	2
GO:0010452	histone H3-K36 methylation	2
GO:0010467	gene expression	44
GO:0010468	regulation of gene expression	23
GO:0010495	long-distance posttranscriptional gene silencing	4
GO:0010597	green leaf volatile biosynthetic process	32
GO:0010605	negative regulation of macromolecule metabolic process	3
GO:0010608	posttranscriptional regulation of gene expression	2
GO:0010683	tricyclic triterpenoid metabolic process	6
GO:0010686	tetracyclic triterpenoid biosynthetic process	12
GO:0010731	protein glutathionylation	16
GO:0010867	positive regulation of triglyceride biosynthetic process	5
GO:0015074	DNA integration	46
GO:0015965	diadenosine tetraphosphate metabolic process	3
GO:0015969	guanosine tetraphosphate metabolic process	1
GO:0015986	ATP synthesis coupled proton transport	7
GO:0015996	chlorophyll catabolic process	10
GO:0016042	lipid catabolic process	7
GO:0016052	carbohydrate catabolic process	6
GO:0016070	RNA metabolic process	3
GO:0016072	rRNA metabolic process	1
GO:0016075	rRNA catabolic process	1
GO:0016099	monoterpenoid biosynthetic process	2
GO:0016101	diterpenoid metabolic process	3
GO:0016103	diterpenoid catabolic process	4
GO:0016114	terpenoid biosynthetic process	2
GO:0016117	carotenoid biosynthetic process	3
GO:0016121	carotene catabolic process	1
GO:0016124	xanthophyll catabolic process	16
GO:0016127	sterol catabolic process	51
GO:0016128	phytosteroid metabolic process	6
GO:0016131	brassinosteroid metabolic process	53
GO:0016180	snRNA processing	1
GO:0016246	RNA interference	2
GO:0016255	attachment of GPI anchor to protein	38
GO:0016444	somatic cell DNA recombination	6
GO:0016487	farnesol metabolic process	2
GO:0016540	protein autoprocessing	10
GO:0016556	mRNA modification	2
GO:0016567	protein ubiquitination	32
GO:0016572	histone phosphorylation	3
GO:0016575	histone deacetylation	1
GO:0016579	protein deubiquitination	1
GO:0016598	protein arginylation	3
GO:0016998	cell wall macromolecule catabolic process	29
GO:0017148	negative regulation of translation	1
GO:0017182	peptidyl-diphthamide metabolic process	3
GO:0017186	peptidyl-pyroglutamic acid biosynthetic process, using glutaminyl-peptide cyclotransferase	2
GO:0018023	peptidyl-lysine trimethylation	3
GO:0018149	peptide cross-linking	25
GO:0018279	protein N-linked glycosylation via asparagine	2
GO:0018282	metal incorporation into metallo-sulfur cluster	2
GO:0018298	protein-chromophore linkage	5
GO:0018343	protein farnesylation	6
GO:0018874	benzoate metabolic process	4
GO:0018920	glyphosate metabolic process	1
GO:0019219	regulation of nucleobase-containing compound metabolic process	3
GO:0019277	UDP-N-acetylgalactosamine biosynthetic process	1
GO:0019281	L-methionine biosynthetic process from homoserine via O-succinyl-L-homoserine and cystathionine	1
GO:0019288	isopentenyl diphosphate biosynthetic process, methylerythritol 4-phosphate pathway	9
GO:0019295	coenzyme M biosynthetic process	1
GO:0019305	dTDP-rhamnose biosynthetic process	2
GO:0019307	mannose biosynthetic process	5
GO:0019310	inositol catabolic process	8
GO:0019318	hexose metabolic process	5
GO:0019354	siroheme biosynthetic process	1
GO:0019358	nicotinate nucleotide salvage	2
GO:0019370	leukotriene biosynthetic process	7
GO:0019375	galactolipid biosynthetic process	2
GO:0019408	dolichol biosynthetic process	10
GO:0019428	allantoin biosynthetic process	2
GO:0019432	triglyceride biosynthetic process	2
GO:0019447	D-cysteine catabolic process	1
GO:0019450	L-cysteine catabolic process to pyruvate	6
GO:0019464	glycine decarboxylation via glycine cleavage system	3
GO:0019500	cyanide catabolic process	2
GO:0019509	L-methionine salvage from methylthioadenosine	14
GO:0019538	protein metabolic process	25
GO:0019593	mannitol biosynthetic process	2
GO:0019605	butyrate metabolic process	6
GO:0019632	shikimate metabolic process	2
GO:0019637	organophosphate metabolic process	2
GO:0019745	pentacyclic triterpenoid biosynthetic process	8
GO:0019752	carboxylic acid metabolic process	12
GO:0019756	cyanogenic glycoside biosynthetic process	1
GO:0019760	glucosinolate metabolic process	1
GO:0019762	glucosinolate catabolic process	1
GO:0030163	protein catabolic process	2
GO:0030244	cellulose biosynthetic process	2
GO:0030245	cellulose catabolic process	3
GO:0030259	lipid glycosylation	4
GO:0030328	prenylcysteine catabolic process	4
GO:0030418	nicotianamine biosynthetic process	11
GO:0030497	fatty acid elongation	4
GO:0031047	gene silencing by RNA	12
GO:0031054	pre-miRNA processing	2
GO:0031123	RNA 3'-end processing	2
GO:0031145	anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process	8
GO:0031167	rRNA methylation	5
GO:0031222	arabinan catabolic process	4
GO:0031336	negative regulation of sulfur amino acid metabolic process	4
GO:0031365	N-terminal protein amino acid modification	6
GO:0031408	oxylipin biosynthetic process	12
GO:0031425	chloroplast RNA processing	2
GO:0031497	chromatin assembly	23
GO:0031507	heterochromatin assembly	1
GO:0031564	transcription antitermination	2
GO:0031935	regulation of chromatin silencing	6
GO:0032312	regulation of ARF GTPase activity	3
GO:0032313	regulation of Rab GTPase activity	3
GO:0032508	DNA duplex unwinding	3
GO:0032774	RNA biosynthetic process	11
GO:0032784	regulation of DNA-dependent transcription, elongation	11
GO:0032786	positive regulation of DNA-dependent transcription, elongation	1
GO:0032787	monocarboxylic acid metabolic process	3
GO:0032877	positive regulation of DNA endoreduplication	2
GO:0032951	regulation of beta-glucan biosynthetic process	6
GO:0032953	regulation of (1->3)-beta-D-glucan biosynthetic process	2
GO:0033306	phytol metabolic process	46
GO:0033356	UDP-L-arabinose metabolic process	2
GO:0033387	putrescine biosynthetic process from ornithine	8
GO:0033388	putrescine biosynthetic process from arginine	2
GO:0033466	trans-zeatin biosynthetic process	4
GO:0033473	indoleacetic acid conjugate metabolic process	2
GO:0033506	glucosinolate biosynthetic process from homomethionine	4
GO:0033567	DNA replication, Okazaki fragment processing	6
GO:0033587	shikimate biosynthetic process	4
GO:0033692	cellular polysaccharide biosynthetic process	1
GO:0034227	tRNA thio-modification	4
GO:0034312	diol biosynthetic process	6
GO:0034470	ncRNA processing	4
GO:0034645	cellular macromolecule biosynthetic process	23
GO:0034654	nucleobase-containing compound biosynthetic process	7
GO:0034660	ncRNA metabolic process	3
GO:0034968	histone lysine methylation	1
GO:0034975	protein folding in endoplasmic reticulum	8
GO:0035067	negative regulation of histone acetylation	8
GO:0035196	production of miRNAs involved in gene silencing by miRNA	2
GO:0035278	negative regulation of translation involved in gene silencing by miRNA	18
GO:0035279	mRNA cleavage involved in gene silencing by miRNA	6
GO:0035335	peptidyl-tyrosine dephosphorylation	2
GO:0035884	arabinan biosynthetic process	2
GO:0036092	phosphatidylinositol-3-phosphate biosynthetic process	6
GO:0036172	thiamine salvage	2
GO:0042026	protein refolding	5
GO:0042128	nitrate assimilation	1
GO:0042138	meiotic DNA double-strand break formation	2
GO:0042157	lipoprotein metabolic process	2
GO:0042176	regulation of protein catabolic process	6
GO:0042177	negative regulation of protein catabolic process	2
GO:0042181	ketone biosynthetic process	2
GO:0042214	terpene metabolic process	2
GO:0042318	penicillin biosynthetic process	2
GO:0042343	indole glucosinolate metabolic process	4
GO:0042351	'de novo' GDP-L-fucose biosynthetic process	2
GO:0042372	phylloquinone biosynthetic process	2
GO:0042439	ethanolamine-containing compound metabolic process	1
GO:0042450	arginine biosynthetic process via ornithine	1
GO:0042732	D-xylose metabolic process	8
GO:0042779	tRNA 3'-trailer cleavage	1
GO:0042817	pyridoxal metabolic process	3
GO:0042964	thioredoxin biosynthetic process	6
GO:0043100	pyrimidine nucleobase salvage	4
GO:0043144	snoRNA processing	1
GO:0043161	proteasome-mediated ubiquitin-dependent protein catabolic process	3
GO:0043170	macromolecule metabolic process	21
GO:0043247	telomere maintenance in response to DNA damage	8
GO:0043335	protein unfolding	2
GO:0043412	macromolecule modification	15
GO:0043419	urea catabolic process	4
GO:0043436	oxoacid metabolic process	2
GO:0043647	inositol phosphate metabolic process	2
GO:0043693	monoterpene biosynthetic process	2
GO:0043967	histone H4 acetylation	6
GO:0043968	histone H2A acetylation	4
GO:0044030	regulation of DNA methylation	11
GO:0044036	cell wall macromolecule metabolic process	3
GO:0044205	'de novo' UMP biosynthetic process	8
GO:0044242	cellular lipid catabolic process	1
GO:0044255	cellular lipid metabolic process	15
GO:0044257	cellular protein catabolic process	35
GO:0044260	cellular macromolecule metabolic process	44
GO:0044262	cellular carbohydrate metabolic process	12
GO:0044264	cellular polysaccharide metabolic process	5
GO:0044265	cellular macromolecule catabolic process	2
GO:0044267	cellular protein metabolic process	22
GO:0044723	single-organism carbohydrate metabolic process	8
GO:0045014	negative regulation of transcription by glucose	2
GO:0045116	protein neddylation	4
GO:0045128	negative regulation of reciprocal meiotic recombination	4
GO:0045226	extracellular polysaccharide biosynthetic process	2
GO:0045292	mRNA cis splicing, via spliceosome	8
GO:0045337	farnesyl diphosphate biosynthetic process	6
GO:0045493	xylan catabolic process	2
GO:0045739	positive regulation of DNA repair	2
GO:0045814	negative regulation of gene expression, epigenetic	2
GO:0045892	negative regulation of transcription, DNA-dependent	2
GO:0045893	positive regulation of transcription, DNA-dependent	4
GO:0045900	negative regulation of translational elongation	3
GO:0045901	positive regulation of translational elongation	3
GO:0045910	negative regulation of DNA recombination	2
GO:0045980	negative regulation of nucleotide metabolic process	3
GO:0046033	AMP metabolic process	4
GO:0046034	ATP metabolic process	4
GO:0046084	adenine biosynthetic process	1
GO:0046098	guanine metabolic process	2
GO:0046110	xanthine metabolic process	1
GO:0046246	terpene biosynthetic process	4
GO:0046274	lignin catabolic process	20
GO:0046283	anthocyanin-containing compound metabolic process	12
GO:0046292	formaldehyde metabolic process	4
GO:0046340	diacylglycerol catabolic process	6
GO:0046345	abscisic acid catabolic process	28
GO:0046373	L-arabinose metabolic process	34
GO:0046394	carboxylic acid biosynthetic process	2
GO:0046417	chorismate metabolic process	2
GO:0046443	FAD metabolic process	1
GO:0046459	short-chain fatty acid metabolic process	2
GO:0046466	membrane lipid catabolic process	8
GO:0046473	phosphatidic acid metabolic process	2
GO:0046477	glycosylceramide catabolic process	3
GO:0046488	phosphatidylinositol metabolic process	2
GO:0046496	nicotinamide nucleotide metabolic process	3
GO:0046854	phosphatidylinositol phosphorylation	3
GO:0046856	phosphatidylinositol dephosphorylation	4
GO:0046900	tetrahydrofolylpolyglutamate metabolic process	6
GO:0046901	tetrahydrofolylpolyglutamate biosynthetic process	4
GO:0046938	phytochelatin biosynthetic process	22
GO:0046939	nucleotide phosphorylation	2
GO:0048024	regulation of mRNA splicing, via spliceosome	2
GO:0048034	heme O biosynthetic process	5
GO:0048358	mucilage pectin biosynthetic process	2
GO:0050821	protein stabilization	2
GO:0050994	regulation of lipid catabolic process	2
GO:0051085	chaperone mediated protein folding requiring cofactor	2
GO:0051090	regulation of sequence-specific DNA binding transcription factor activity	7
GO:0051103	DNA ligation involved in DNA repair	11
GO:0051254	positive regulation of RNA metabolic process	1
GO:0051274	beta-glucan biosynthetic process	2
GO:0051444	negative regulation of ubiquitin-protein ligase activity	4
GO:0051603	proteolysis involved in cellular protein catabolic process	6
GO:0051762	sesquiterpene biosynthetic process	2
GO:0051791	medium-chain fatty acid metabolic process	4
GO:0051973	positive regulation of telomerase activity	4
GO:0052541	plant-type cell wall cellulose metabolic process	2
GO:0052746	inositol phosphorylation	4
GO:0055086	nucleobase-containing small molecule metabolic process	3
GO:0060148	positive regulation of posttranscriptional gene silencing	4
GO:0061077	chaperone-mediated protein folding	2
GO:0070291	N-acylethanolamine metabolic process	3
GO:0070526	threonylcarbamoyladenosine biosynthetic process	2
GO:0070647	protein modification by small protein conjugation or removal	1
GO:0070734	histone H3-K27 methylation	4
GO:0070932	histone H3 deacetylation	1
GO:0071076	RNA 3' uridylation	4
GO:0071103	DNA conformation change	7
GO:0071266	'de novo' L-methionine biosynthetic process	9
GO:0071586	CAAX-box protein processing	3
GO:0071900	regulation of protein serine/threonine kinase activity	2
GO:0072521	purine-containing compound metabolic process	1
GO:0072524	pyridine-containing compound metabolic process	3
GO:0080003	thalianol metabolic process	16
GO:0080024	indolebutyric acid metabolic process	3
GO:0080028	nitrile biosynthetic process	33
GO:0080142	regulation of salicylic acid biosynthetic process	7
GO:0080156	mitochondrial mRNA modification	2
GO:0080178	5-carbamoylmethyluridine metabolic process	2
GO:0080180	2-methylguanosine metabolic process	2
GO:0090042	tubulin deacetylation	2
GO:0090296	regulation of mitochondrial DNA replication	3
GO:0090304	nucleic acid metabolic process	17
GO:0090305	nucleic acid phosphodiester bond hydrolysis	1
GO:0090309	positive regulation of methylation-dependent chromatin silencing	8
GO:0090352	regulation of nitrate assimilation	3
GO:0090359	negative regulation of abscisic acid biosynthetic process	6
GO:1900363	regulation of mRNA polyadenylation	2
GO:1900865	chloroplast RNA modification	1
GO:1901038	cyanidin 3-O-glucoside metabolic process	20
GO:1901135	carbohydrate derivative metabolic process	7
GO:1901136	carbohydrate derivative catabolic process	18
GO:1901137	carbohydrate derivative biosynthetic process	3
GO:1901183	positive regulation of camalexin biosynthetic process	2
GO:1901360	organic cyclic compound metabolic process	11
GO:1901361	organic cyclic compound catabolic process	2
GO:1901362	organic cyclic compound biosynthetic process	12
GO:1901564	organonitrogen compound metabolic process	33
GO:1901575	organic substance catabolic process	17
GO:1901576	organic substance biosynthetic process	8
GO:1901598	(-)-pinoresinol metabolic process	8
GO:1901601	strigolactone biosynthetic process	2
GO:1901605	alpha-amino acid metabolic process	4
GO:1901607	alpha-amino acid biosynthetic process	11
GO:1901615	organic hydroxy compound metabolic process	9
GO:1901616	organic hydroxy compound catabolic process	6
GO:1901617	organic hydroxy compound biosynthetic process	2
GO:1901657	glycosyl compound metabolic process	1
GO:1901695	tyramine biosynthetic process	3
GO:2000029	regulation of proanthocyanidin biosynthetic process	4
GO:2000082	regulation of L-ascorbic acid biosynthetic process	2
GO:2000083	negative regulation of L-ascorbic acid biosynthetic process	40
GO:2000112	regulation of cellular macromolecule biosynthetic process	8
GO:2000113	negative regulation of cellular macromolecule biosynthetic process	2
GO:2000762	regulation of phenylpropanoid metabolic process	2
GO:2001295	malonyl-CoA biosynthetic process	3

Functional clusters experiments

Exp id	Data type	Data filter	Min genes cluster	Max genes cluster	Max cluster size	E-value	Tandems removal
1	GO	Primary GO data only.	2	30	80	0.001	X
2	GO	Primary and orthology projected GO data.	2	30	80	0.001	X
3	GO	All GO data.	2	30	80	0.001	X
4	GO	Primary GO data only.	10	150	300	0.001	X
5	GO	Primary and orthology projected GO data.	10	150	300	0.001	X
6	GO	All GO data.	10	150	300	0.001	X
7	GO	Primary GO data only.	2	30	80	0.001	V
8	GO	Primary and orthology projected GO data.	2	30	80	0.001	V
9	GO	All GO data.	2	30	80	0.001	V
10	GO	Primary GO data only.	10	150	300	0.001	V
11	GO	Primary and orthology projected GO data.	10	150	300	0.001	V
12	GO	All GO data.	10	150	300	0.001	V
13	InterPro	No filter applied.	2	30	80	0.001	X
14	InterPro	No filter applied.	10	150	300	0.001	X
15	InterPro	No filter applied.	2	30	80	0.001	V
16	InterPro	No filter applied.	10	150	300	0.001	V
17	MapMan	No filter applied.	2	30	80	0.001	X
18	MapMan	No filter applied.	10	150	300	0.001	X
19	MapMan	No filter applied.	2	30	80	0.001	V
20	MapMan	No filter applied.	10	150	300	0.001	V