PLAZA 3.0 Monocots : Functional Clustering

Functional clusters

Species	Chromosome	Experiment	Cluster id	Cluster size	Number of genes	E-value
Arabidopsis thaliana	1	13	CH_ath_138	5	6	0.00000000215491
Brachypodium distachyon	Bd3	13	CH_bdi_401	3	3	0.000352019
Brachypodium distachyon	Bd3	15	CH_bdi_17	3	3	0.000186723
Carica papaya	supercontig_18	13	CH_cpa_135	4	5	0.0000022363
Musa acuminata	chr3	13	CH_mac_11	8	12	0.00000000000000647726
Musa acuminata	chr9	13	CH_mac_388	3	3	0.000373016
Musa acuminata	chr3	14	CH_mac_6	10	229	0.00000304182
Oryza sativa ssp. japonica	2	13	CH_osa_246	6	23	0.00000000795837
Setaria italica	scaffold_5	13	CH_sit_169	5	5	0.000000000789781
Solanum lycopersicum	ch03	13	CH_sly_766	3	3	0.000683466
Solanum lycopersicum	ch08	13	CH_sly_6	17	18	3.45849e-39
Solanum lycopersicum	ch08	13	CH_sly_63	9	11	1.0716e-17
Solanum lycopersicum	ch08	14	CH_sly_65	10	188	0.00000385513
Solanum lycopersicum	ch08	14	CH_sly_7	17	18	3.45849e-39
Sorghum bicolor	chr_2	13	CH_sbi_407	4	8	0.0000214391
Vitis vinifera	chr16	13	CH_vvi_262	6	15	0.000000164672
Vitis vinifera	chr18	13	CH_vvi_700	3	3	0.000996849
Vitis vinifera	chr6	13	CH_vvi_357	4	4	0.0000032616

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