CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At2g42440

Gene name -

Module size 5 genes

NF 0.76

%ile 92.6

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
0.73 85.5 1.00 At2g42440 818844 - F:unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.89 94.6 0.74 At2g14960 815985 GH3.1 encodes a protein similar to IAA-amido synthases. Lines carrying an insertion in this gene are hypersensitive to auxin. O.I. H.G. S.X.
0.75 86.9 0.74 At2g39370 818522 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBMO O.I. H.G. S.X.
0.73 85.5 0.71 At4g37295 829884 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.73 85.5 0.88 At5g06080 830495 LBD33 (LOB DOMAIN-CONTAINING PROTEIN 33) F:unknown;P:biological_process unknown;C:unknown;P O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.73	85.5	1.00	At2g42440	818844	-	F:unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.89	94.6	0.74	At2g14960	815985	GH3.1	encodes a protein similar to IAA-amido synthases. Lines carrying an insertion in this gene are hypersensitive to auxin.	O.I.	H.G.	S.X.
0.75	86.9	0.74	At2g39370	818522	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;PBMO	O.I.	H.G.	S.X.
0.73	85.5	0.71	At4g37295	829884	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.73	85.5	0.88	At5g06080	830495	LBD33 (LOB DOMAIN-CONTAINING PROTEIN 33)	F:unknown;P:biological_process unknown;C:unknown;P	O.I.	H.G.	S.X.

Click More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
55.4 99.8 GSM184923 Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
50.5 99.8 GSM284389 Arabidopsis GMPE2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
40.2 99.8 GSM184906 Arabidopsis, root cells, protophloem, standard conditions, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
38.9 99.8 GSM184905 Arabidopsis, root cells, protophloem, standard conditions, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
36.4 99.7 GSM142592 DB001_ATH1_A2-Brown-cal GSE6148 The trans-differentiation of cultured Arabidopsis cells
34.0 99.7 GSM245472 2 hr Hypoxia Stress IP RNA Rep 1 GSE9719 Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
33.4 99.7 GSM184904 Arabidopsis, root cells, protophloem, standard conditions, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
30.3 99.7 GSM245482 2 hr Hypoxia Stress IP RNA Rep 2 GSE9719 Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
29.3 99.7 GSM245492 2 hr Hypoxia Stress IP RNA Rep 3 GSE9719 Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
28.8 99.7 GSM142593 DB001_ATH1_A3-Brown-cal GSE6148 The trans-differentiation of cultured Arabidopsis cells
27.5 99.7 GSM142594 DB001_ATH1_A4-Brown-cal GSE6148 The trans-differentiation of cultured Arabidopsis cells
25.8 99.7 GSM142591 DB001_ATH1_A1-Brown-cal GSE6148 The trans-differentiation of cultured Arabidopsis cells
25.5 99.7 GSM284388 Arabidopsis GMPE1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
20.6 99.6 GSM142596 DB001_ATH1_A6-Brown-cal GSE6148 The trans-differentiation of cultured Arabidopsis cells
19.0 99.5 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
18.8 99.5 GSM245474 9 hr Hypoxia Stress IP RNA Rep 1 GSE9719 Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
17.4 99.5 GSM133719 Deeken_A-1-Deeke-Tum_SLD_REP1 GSE5725 Agrobacterium tumefaciens-induced tumour development of Arabidopsis thaliana
17.2 99.5 GSM245484 9 hr Hypoxia Stress IP RNA Rep 2 GSE9719 Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
15.9 99.5 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.8 99.4 E-MEXP-1797-raw-cel-1669768075
14.0 99.4 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.7 99.4 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.6 99.4 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
13.2 99.4 GSM184553 Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
13.1 99.4 E-ATMX-31-raw-cel-1516947916
12.8 99.3 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.5 99.3 GSM218592 Whole roots 3.5hr KCl control treated then frozen, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
12.3 99.3 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.8 99.3 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.6 99.3 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.5 99.3 GSM142629 MC002_ATH1_A3.1-dubos-6kx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
11.5 99.3 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
11.4 99.3 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.0 99.2 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.8 99.2 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
10.7 99.2 E-ATMX-31-raw-cel-1516947882
10.6 99.2 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.5 99.2 GSM245487 2 hr Hypoxia Stress Total RNA Rep 3 GSE9719 Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
10.4 99.2 GSM311294 Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
10.4 99.2 E-ATMX-31-raw-cel-1516947899
10.1 99.2 GSM142623 MC002_ATH1_A1.1-dubos-wtx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.1 99.2 GSM245494 9 hr Hypoxia Stress IP RNA Rep 3 GSE9719 Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
10.1 99.2 GSM245477 2 hr Hypoxia Stress Total RNA Rep 2 GSE9719 Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
10.0 99.2 GSM133894 Schroeder_1-12_JS44-starve-96h_Rep1_ATH1 GSE5744 Response to potassium starvation in roots
9.8 99.1 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
9.7 99.1 E-MEXP-1784-raw-cel-1661573074
9.5 99.1 GSM40555 Polysomal mRNA - Hypoxia stress GSE2218 Changes in transcript abundance and association with large polysomes in response to hypoxia stress
9.5 99.1 GSM290753 root - 01% oxygen - 2h - E GSE11558 transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
9.1 99.1 GSM133721 Deeken_A-1-Deeke-Tum_SLD_REP2 GSE5725 Agrobacterium tumefaciens-induced tumour development of Arabidopsis thaliana
9.1 99.1 GSM142624 MC002_ATH1_A1.2-dubos-wtx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.0 99.1 GSM128693 Heinekamp_1-2_control-root_Rep1_ATH1 GSE5522 Low chronic exposure of Arabidopsis thaliana to Caesium-137
9.0 99.1 GSM311293 Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 1 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
8.9 99.0 GSM284395 Arabidopsis GPSc1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
8.8 99.0 GSM142625 MC002_ATH1_A1.3-dubos-wtx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
8.8 99.0 E-MEXP-1797-raw-cel-1669768021
8.6 99.0 GSM142642 MC002_ATH1_A7.2-dubos-wLh GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
55.4	99.8	GSM184923	Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
50.5	99.8	GSM284389	Arabidopsis GMPE2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
40.2	99.8	GSM184906	Arabidopsis, root cells, protophloem, standard conditions, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
38.9	99.8	GSM184905	Arabidopsis, root cells, protophloem, standard conditions, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
36.4	99.7	GSM142592	DB001_ATH1_A2-Brown-cal	GSE6148	The trans-differentiation of cultured Arabidopsis cells
34.0	99.7	GSM245472	2 hr Hypoxia Stress IP RNA Rep 1	GSE9719	Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
33.4	99.7	GSM184904	Arabidopsis, root cells, protophloem, standard conditions, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
30.3	99.7	GSM245482	2 hr Hypoxia Stress IP RNA Rep 2	GSE9719	Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
29.3	99.7	GSM245492	2 hr Hypoxia Stress IP RNA Rep 3	GSE9719	Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
28.8	99.7	GSM142593	DB001_ATH1_A3-Brown-cal	GSE6148	The trans-differentiation of cultured Arabidopsis cells
27.5	99.7	GSM142594	DB001_ATH1_A4-Brown-cal	GSE6148	The trans-differentiation of cultured Arabidopsis cells
25.8	99.7	GSM142591	DB001_ATH1_A1-Brown-cal	GSE6148	The trans-differentiation of cultured Arabidopsis cells
25.5	99.7	GSM284388	Arabidopsis GMPE1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
20.6	99.6	GSM142596	DB001_ATH1_A6-Brown-cal	GSE6148	The trans-differentiation of cultured Arabidopsis cells
19.0	99.5	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
18.8	99.5	GSM245474	9 hr Hypoxia Stress IP RNA Rep 1	GSE9719	Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
17.4	99.5	GSM133719	Deeken_A-1-Deeke-Tum_SLD_REP1	GSE5725	Agrobacterium tumefaciens-induced tumour development of Arabidopsis thaliana
17.2	99.5	GSM245484	9 hr Hypoxia Stress IP RNA Rep 2	GSE9719	Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
15.9	99.5	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
14.8	99.4	E-MEXP-1797-raw-cel-1669768075
14.0	99.4	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.7	99.4	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
13.6	99.4	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
13.2	99.4	GSM184553	Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
13.1	99.4	E-ATMX-31-raw-cel-1516947916
12.8	99.3	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
12.5	99.3	GSM218592	Whole roots 3.5hr KCl control treated then frozen, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
12.3	99.3	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.8	99.3	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.6	99.3	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
11.5	99.3	GSM142629	MC002_ATH1_A3.1-dubos-6kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
11.5	99.3	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
11.4	99.3	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.0	99.2	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.8	99.2	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
10.7	99.2	E-ATMX-31-raw-cel-1516947882
10.6	99.2	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
10.5	99.2	GSM245487	2 hr Hypoxia Stress Total RNA Rep 3	GSE9719	Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
10.4	99.2	GSM311294	Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 2	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
10.4	99.2	E-ATMX-31-raw-cel-1516947899
10.1	99.2	GSM142623	MC002_ATH1_A1.1-dubos-wtx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
10.1	99.2	GSM245494	9 hr Hypoxia Stress IP RNA Rep 3	GSE9719	Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
10.1	99.2	GSM245477	2 hr Hypoxia Stress Total RNA Rep 2	GSE9719	Dynamics of mRNA abundance and translation in response to short and prolonged hypoxia and reoxygenation
10.0	99.2	GSM133894	Schroeder_1-12_JS44-starve-96h_Rep1_ATH1	GSE5744	Response to potassium starvation in roots
9.8	99.1	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
9.7	99.1	E-MEXP-1784-raw-cel-1661573074
9.5	99.1	GSM40555	Polysomal mRNA - Hypoxia stress	GSE2218	Changes in transcript abundance and association with large polysomes in response to hypoxia stress
9.5	99.1	GSM290753	root - 01% oxygen - 2h - E	GSE11558	transcript profiling of the adaptive response to decreases in oxygen concentration in the roots of Arabidopsis plants
9.1	99.1	GSM133721	Deeken_A-1-Deeke-Tum_SLD_REP2	GSE5725	Agrobacterium tumefaciens-induced tumour development of Arabidopsis thaliana
9.1	99.1	GSM142624	MC002_ATH1_A1.2-dubos-wtx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.0	99.1	GSM128693	Heinekamp_1-2_control-root_Rep1_ATH1	GSE5522	Low chronic exposure of Arabidopsis thaliana to Caesium-137
9.0	99.1	GSM311293	Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
8.9	99.0	GSM284395	Arabidopsis GPSc1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
8.8	99.0	GSM142625	MC002_ATH1_A1.3-dubos-wtx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
8.8	99.0	E-MEXP-1797-raw-cel-1669768021
8.6	99.0	GSM142642	MC002_ATH1_A7.2-dubos-wLh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO

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

Back to the CoP portal site

Back to the KAGIANA project homepage

Gene ID	At2g42440
Gene name	-
Module size	5 genes
NF	0.76
%ile	92.6

Co-expression analysis

Gene ID At2g42440 Gene name - Module size 5 genes NF 0.76 %ile 92.6

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 More genes

Link to AtGenExpress Visualization Tool

Specific experiments for the module

Biological processes inferred to relate to the module

SFGenesGO IDProcess NameLink to AmiGO

KEGG PATHWAY inferred to related to the module

SFGenesKEGG IDPathway nameLink to KEGG

Inter-species module comparison

Select a plant to compare co-expressed genes between species.Glycine_maxHordeum_vulgareOryza_sativaPopulus_trichocarpaTriticum_aestivumVitis_viniferaZea_mays

Gene ID At2g42440

Gene name -

Module size 5 genes

NF 0.76

%ile 92.6

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

SF Genes GO ID Process Name Link to AmiGO

SF Genes KEGG ID Pathway name Link to KEGG

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