CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At4g16670

Gene name phosphoinositide binding

Module size 5 genes

NF 0.46

%ile 65.3

Co-expression network

: Transcription factor, : Binding protein, : Enzyme protein, : Other protein
: VF over 0.50, : over 0.25, : below 0.25

Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. O.I. H.G. S.X. Other DB
0.40 50.8 1.00 At4g16670 827369 phosphoinositide binding F:phosphoinositide binding;P:signal transduction;C:cellular_component unknown;PFO O.I. H.G. S.X.
0.50 65.3 0.71 At1g27670 839659 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.50 65.3 0.78 At5g09440 830803 EXL4 (EXORDIUM LIKE 4) F:molecular_function unknown;P:biological_process unknown;C:membrane;PB O.I. H.G. S.X.
0.40 50.8 0.71 At2g19660 816485 DC1 domain-containing protein F:molecular_function unknown;P:intracellular signaling cascade;C:cellular_component unknown;PMO O.I. H.G. S.X.
0.40 50.8 0.72 At4g01680 826853 MYB55 (myb domain protein 55) Encodes a putative transcription factor (MYB55). O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.	Other DB
0.60	75.7	0.66	At4g23030	828402	MATE efflux protein-related	F:antiporter activity, drug transporter activity, transporter activity;P:multidrug transport;C:membrane;BOPFAM	O.I.	H.G.	S.X.
0.57	73.8	0.68	At5g67020	836837	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;PB	O.I.	H.G.	S.X.
0.44	57.2	0.68	At1g06980	837208	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.43	55.3	0.68	At5g37790	833757	protein kinase family protein	F:protein serine/threonine kinase activity, protein kinase activity, kinase activity, ATP binding;P:protein amino acid phosphorylation;C:cellular_component unknown;MPOBFVA	O.I.	H.G.	S.X.
0.40	50.8	0.67	At1g62770	842576	invertase/pectin methylesterase inhibitor family protein	F:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.31	33.8	0.66	At4g23870	828486	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.31	33.8	0.69	At5g22500	832311	FAR1 (FATTY ACID REDUCTASE 1)	F:oxidoreductase activity, acting on the CH-CH group of donors, fatty acyl-CoA reductase (alcohol-forming) activity;P:microsporogenesis, metabolic process;C:chloroplast;MBFOP	O.I.	H.G.	S.X.
0.27	26.2	0.66	At2g37130	818289	peroxidase 21 (PER21) (P21) (PRXR5)	F:electron carrier activity, peroxidase activity, heme binding;P:defense response to fungus;C:endomembrane system;PFO	O.I.	H.G.	S.X.
0.26	24.4	0.71	At4g25260	828629	invertase/pectin methylesterase inhibitor family protein	F:enzyme inhibitor activity, pectinesterase inhibitor activity, pectinesterase activity;P:shade avoidance;C:endomembrane system;P	O.I.	H.G.	S.X.
0.12	4.9	0.65	At5g63650	836485	SNRK2.5 (SNF1-RELATED PROTEIN KINASE 2.5)	encodes a member of SNF1-related protein kinases (SnRK2) whose activity is activated by ionic (salt) and non-ionic (mannitol) osmotic stress.	O.I.	H.G.	S.X.

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
53.7 99.8 GSM184551 Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
21.3 99.6 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
13.1 99.4 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.7 99.2 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.4 99.2 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.3 99.2 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
10.1 99.2 GSM133952 Murray_2-8_T14-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
9.9 99.1 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
9.6 99.1 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.2 99.1 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
9.0 99.1 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
8.9 99.0 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
8.8 99.0 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
8.6 99.0 GSM133953 Murray_2-9_T16-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.019 1 GO:0007242 A series of reactions within the cell that occur as a result of a single trigger reaction or compound.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG

Inter-species module comparison

Select a plant to compare co-expressed genes between species.
Glycine_max
Hordeum_vulgare
Oryza_sativa
Populus_trichocarpa
Triticum_aestivum
Vitis_vinifera
Zea_mays

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