CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At5g02290

Gene name NAK

Module size 5 genes

NF 0.26

%ile 28.1

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
0.12 4.9 1.00 At5g02290 831880 NAK Encodes a candidate protein kinase NAK that is similar to the oncogenes met and abl. O.I. H.G. S.X.
0.57 73.8 0.87 At4g38550 830012 - F:unknown;P:unknown;C:chloroplast;MFPOBVA O.I. H.G. S.X.
0.40 50.8 0.85 At3g19010 821434 oxidoreductase, 2OG-Fe(II) oxygenase family protein F:flavonol synthase activity, oxidoreductase activity, iron ion binding;P:flavonoid biosynthetic process;C:cellular_component unknown;POBFM O.I. H.G. S.X.
0.31 33.8 0.88 At3g50950 824259 disease resistance protein (CC-NBS-LRR class), putative F:ATP binding;P:defense response, apoptosis;C:cellular_component unknown;PMBFOVA O.I. H.G. S.X.
0.20 14.4 0.87 At1g08930 837414 ERD6 (EARLY RESPONSE TO DEHYDRATION 6) encodes a putative sucrose transporter whose gene expression is induced by dehydration and cold. O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.12	4.9	1.00	At5g02290	831880	NAK	Encodes a candidate protein kinase NAK that is similar to the oncogenes met and abl.	O.I.	H.G.	S.X.
0.57	73.8	0.87	At4g38550	830012	-	F:unknown;P:unknown;C:chloroplast;MFPOBVA	O.I.	H.G.	S.X.
0.40	50.8	0.85	At3g19010	821434	oxidoreductase, 2OG-Fe(II) oxygenase family protein	F:flavonol synthase activity, oxidoreductase activity, iron ion binding;P:flavonoid biosynthetic process;C:cellular_component unknown;POBFM	O.I.	H.G.	S.X.
0.31	33.8	0.88	At3g50950	824259	disease resistance protein (CC-NBS-LRR class), putative	F:ATP binding;P:defense response, apoptosis;C:cellular_component unknown;PMBFOVA	O.I.	H.G.	S.X.
0.20	14.4	0.87	At1g08930	837414	ERD6 (EARLY RESPONSE TO DEHYDRATION 6)	encodes a putative sucrose transporter whose gene expression is induced by dehydration and cold.	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
38.2 99.8 GSM226539 L9SB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
35.2 99.7 GSM184492 Epidermis&Cortex root cells 2hr continuous KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
34.6 99.7 GSM184519 Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
24.1 99.6 GSM184517 Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
23.8 99.6 GSM184520 Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
17.1 99.5 GSM184489 Epidermis&Cortex root cells 2hr transitory KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
15.0 99.4 GSM184516 Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
14.7 99.4 GSM218585 Pericycle root cells 2hr continuous KNO3 and MSX and Gln treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
14.4 99.4 GSM226551 Slice9JW GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
14.2 99.4 GSM184518 Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
13.7 99.4 GSM184893 Arabidopsis, root cells, columella root cap, standard conditions, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
13.0 99.4 GSM184504 Pericycle root cells 2hr KCl control treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
12.1 99.3 GSM226540 L10SB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
11.5 99.3 GSM184486 Epidermis&Cortex root cells 2hr KCl control treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.5 99.3 GSM184493 Epidermis&Cortex root cells 2hr continuous KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.0 99.2 GSM184487 Epidermis&Cortex root cells 2hr KCl control treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.7 99.2 GSM184521 Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.6 99.2 GSM184485 Epidermis&Cortex root cells 2hr KCl control treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.6 99.2 GSM184918 Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
9.3 99.1 GSM184539 Whole roots 2hr KCl control treated then frozen, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.1 99.1 GSM184510 Pericycle root cells 2hr continuous KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
8.9 99.0 GSM184894 Arabidopsis, root cells, columella root cap, standard conditions, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
8.8 99.0 GSM266668 Arabidopsis, root cells, columella root cap, -Fe, replicate 3 GSE10501 Expression analysis of root cell-types after iron deficiency (-Fe) treatment
8.7 99.0 E-MEXP-807-raw-cel-1173273144

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
38.2	99.8	GSM226539	L9SB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
35.2	99.7	GSM184492	Epidermis&Cortex root cells 2hr continuous KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
34.6	99.7	GSM184519	Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
24.1	99.6	GSM184517	Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
23.8	99.6	GSM184520	Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
17.1	99.5	GSM184489	Epidermis&Cortex root cells 2hr transitory KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
15.0	99.4	GSM184516	Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
14.7	99.4	GSM218585	Pericycle root cells 2hr continuous KNO3 and MSX and Gln treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
14.4	99.4	GSM226551	Slice9JW	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
14.2	99.4	GSM184518	Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
13.7	99.4	GSM184893	Arabidopsis, root cells, columella root cap, standard conditions, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
13.0	99.4	GSM184504	Pericycle root cells 2hr KCl control treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
12.1	99.3	GSM226540	L10SB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
11.5	99.3	GSM184486	Epidermis&Cortex root cells 2hr KCl control treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.5	99.3	GSM184493	Epidermis&Cortex root cells 2hr continuous KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.0	99.2	GSM184487	Epidermis&Cortex root cells 2hr KCl control treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.7	99.2	GSM184521	Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.6	99.2	GSM184485	Epidermis&Cortex root cells 2hr KCl control treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.6	99.2	GSM184918	Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
9.3	99.1	GSM184539	Whole roots 2hr KCl control treated then frozen, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.1	99.1	GSM184510	Pericycle root cells 2hr continuous KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
8.9	99.0	GSM184894	Arabidopsis, root cells, columella root cap, standard conditions, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
8.8	99.0	GSM266668	Arabidopsis, root cells, columella root cap, -Fe, replicate 3	GSE10501	Expression analysis of root cell-types after iron deficiency (-Fe) treatment
8.7	99.0	E-MEXP-807-raw-cel-1173273144

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.059 1 GO:0009813 The chemical reactions and pathways resulting in the formation of flavonoids, a group of phenolic derivatives containing a flavan skeleton.
0.015 1 GO:0010200 A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chitin stimulus.
0.014 1 GO:0006915 A form of programmed cell death that begins when a cell receives internal or external signals that trigger the activity of proteolytic caspases, proceeds through a series of characteristic stages typically including rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), and plasma membrane blebbing (but maintenance of its integrity until the final stages of the process), and ends with the death of the cell.

SF	Genes	GO ID	Process Name
0.059	1	GO:0009813	The chemical reactions and pathways resulting in the formation of flavonoids, a group of phenolic derivatives containing a flavan skeleton.
0.015	1	GO:0010200	A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a chitin stimulus.
0.014	1	GO:0006915	A form of programmed cell death that begins when a cell receives internal or external signals that trigger the activity of proteolytic caspases, proceeds through a series of characteristic stages typically including rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), and plasma membrane blebbing (but maintenance of its integrity until the final stages of the process), and ends with the death of the cell.

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	At5g02290
Gene name	NAK
Module size	5 genes
NF	0.26
%ile	28.1

Co-expression analysis

Gene ID At5g02290 Gene name NAK Module size 5 genes NF 0.26 %ile 28.1

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

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 At5g02290

Gene name NAK

Module size 5 genes

NF 0.26

%ile 28.1

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

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