PLAZA 3.0 Dicots : Functional Clustering

Functional clusters

Information

Type: GO term
Identifier: GO:0006996
Description: organelle organization

Cluster overview

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Malus domestica	7	6	CH_mdo_46	13	81	0.000119502
Physcomitrella patens	scaffold_3	1	CH_ppa_53	6	23	0.000370019
Prunus persica	scaffold_2	3	CH_ppe_389	7	13	0.000177353
Vitis vinifera	chr16	6	CH_vvi_97	13	53	0.00000865374

Available child term results

GO term	Description	Number of clusters
GO:0000045	autophagic vacuole assembly	2
GO:0000212	meiotic spindle organization	2
GO:0000266	mitochondrial fission	5
GO:0000723	telomere maintenance	16
GO:0006325	chromatin organization	9
GO:0006333	chromatin assembly or disassembly	2
GO:0006625	protein targeting to peroxisome	2
GO:0006627	protein processing involved in protein targeting to mitochondrion	3
GO:0006997	nucleus organization	2
GO:0007005	mitochondrion organization	10
GO:0007026	negative regulation of microtubule depolymerization	2
GO:0007029	endoplasmic reticulum organization	2
GO:0007030	Golgi organization	4
GO:0007031	peroxisome organization	2
GO:0007032	endosome organization	1
GO:0007033	vacuole organization	2
GO:0007062	sister chromatid cohesion	2
GO:0007065	male meiosis sister chromatid cohesion	3
GO:0007067	mitosis	2
GO:0007076	mitotic chromosome condensation	4
GO:0007091	metaphase/anaphase transition of mitotic cell cycle	2
GO:0007094	mitotic spindle assembly checkpoint	6
GO:0007129	synapsis	2
GO:0009660	amyloplast organization	2
GO:0010027	thylakoid membrane organization	1
GO:0010032	meiotic chromosome condensation	3
GO:0010111	glyoxysome organization	2
GO:0010197	polar nucleus fusion	7
GO:0010452	histone H3-K36 methylation	2
GO:0016558	protein import into peroxisome matrix	1
GO:0016559	peroxisome fission	3
GO:0016569	covalent chromatin modification	2
GO:0016572	histone phosphorylation	3
GO:0016575	histone deacetylation	1
GO:0017126	nucleologenesis	2
GO:0030036	actin cytoskeleton organization	2
GO:0030041	actin filament polymerization	7
GO:0030042	actin filament depolymerization	11
GO:0031023	microtubule organizing center organization	5
GO:0031117	positive regulation of microtubule depolymerization	2
GO:0031122	cytoplasmic microtubule organization	2
GO:0031497	chromatin assembly	23
GO:0031507	heterochromatin assembly	1
GO:0033043	regulation of organelle organization	6
GO:0033615	mitochondrial proton-transporting ATP synthase complex assembly	3
GO:0033962	cytoplasmic mRNA processing body assembly	2
GO:0034314	Arp2/3 complex-mediated actin nucleation	3
GO:0034508	centromere complex assembly	5
GO:0034968	histone lysine methylation	1
GO:0035067	negative regulation of histone acetylation	8
GO:0042256	mature ribosome assembly	9
GO:0043247	telomere maintenance in response to DNA damage	8
GO:0043967	histone H4 acetylation	6
GO:0043968	histone H2A acetylation	4
GO:0045010	actin nucleation	1
GO:0045039	protein import into mitochondrial inner membrane	5
GO:0045040	protein import into mitochondrial outer membrane	9
GO:0045841	negative regulation of mitotic metaphase/anaphase transition	2
GO:0046785	microtubule polymerization	2
GO:0048208	COPII vesicle coating	18
GO:0048268	clathrin coat assembly	2
GO:0048280	vesicle fusion with Golgi apparatus	5
GO:0051127	positive regulation of actin nucleation	1
GO:0051225	spindle assembly	1
GO:0051276	chromosome organization	4
GO:0051297	centrosome organization	1
GO:0055047	generative cell mitosis	1
GO:0060236	regulation of mitotic spindle organization	2
GO:0070734	histone H3-K27 methylation	4
GO:0070932	histone H3 deacetylation	1
GO:0080119	ER body organization	6
GO:0090114	COPII-coated vesicle budding	13
GO:0090296	regulation of mitochondrial DNA replication	3
GO:0090306	spindle assembly involved in meiosis	2
GO:0090309	positive regulation of methylation-dependent chromatin silencing	8
GO:0090391	granum assembly	2
GO:0090435	protein localization to nuclear envelope	2

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