CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At3g50660

Gene name DWF4 (DWARF 4)

Module size 6 genes

NF 0.09

%ile 5.7

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
0.21 15.8 1.00 At3g50660 824229 DWF4 (DWARF 4) Encodes a 22α hydroxylase whose reaction is a rate-limiting step in brassinosteroid biosynthetic pathway. The protein is a member of CYP90B gene family. CLM is an epi-allele with small, compressed rosette, reduced internode length, and reduced fertility, appears in selfed ddm mutant plants possibly due to loss of cytosine methylation. Transcripts accumulate in actively growing tissues, and GUS expression is negatively regulated by brassinosteroids. Localized in the endoplasmic reticulum. The in vitro expressed protein can perform the C-22 hydroxylation of a variety of C27-, C28- and C29-sterols. Cholesterol was the best substrate, followed by campesterol. Sitosterol was a poor substrate. O.I. H.G. S.X.
0.35 41.6 0.66 At1g32170 840109 XTR4 (XYLOGLUCAN ENDOTRANSGLYCOSYLASE 4) xyloglucan endotransglycosylase-related protein (XTR4) O.I. H.G. S.X.
0.33 38.1 0.70 At4g14380 827082 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;POM O.I. H.G. S.X.
0.15 7.8 0.69 At5g04470 830326 SIM (SIAMESE) Encodes a novel nuclear 14-kD protein containing a cyclin binding motif and a motif found in ICK/KRP cell cycle inhibitor proteins. It is required for coordinating cell division and cell differentiation during the development of Arabidopsis trichomes, playing a key role in the mitosis-to-endoreduplication transition. It interacts with D-type cyclins in vivo. O.I. H.G. S.X.
0.14 6.8 0.68 At1g70990 843438 proline-rich family protein F:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;MPOBFVA O.I. H.G. S.X.
0.02 0.4 0.67 At1g45130 841080 BGAL5 (beta-galactosidase 5) F:cation binding, beta-galactosidase activity, catalytic activity;P:lactose catabolic process, using glucoside 3-dehydrogenase, carbohydrate metabolic process, lactose catabolic process via UDP-galactose, lactose catabolic process;C:endomembrane system, beta-galactosidase complex;BPMFOA O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.21	15.8	1.00	At3g50660	824229	DWF4 (DWARF 4)	Encodes a 22α hydroxylase whose reaction is a rate-limiting step in brassinosteroid biosynthetic pathway. The protein is a member of CYP90B gene family. CLM is an epi-allele with small, compressed rosette, reduced internode length, and reduced fertility, appears in selfed ddm mutant plants possibly due to loss of cytosine methylation. Transcripts accumulate in actively growing tissues, and GUS expression is negatively regulated by brassinosteroids. Localized in the endoplasmic reticulum. The in vitro expressed protein can perform the C-22 hydroxylation of a variety of C27-, C28- and C29-sterols. Cholesterol was the best substrate, followed by campesterol. Sitosterol was a poor substrate.	O.I.	H.G.	S.X.
0.35	41.6	0.66	At1g32170	840109	XTR4 (XYLOGLUCAN ENDOTRANSGLYCOSYLASE 4)	xyloglucan endotransglycosylase-related protein (XTR4)	O.I.	H.G.	S.X.
0.33	38.1	0.70	At4g14380	827082	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;POM	O.I.	H.G.	S.X.
0.15	7.8	0.69	At5g04470	830326	SIM (SIAMESE)	Encodes a novel nuclear 14-kD protein containing a cyclin binding motif and a motif found in ICK/KRP cell cycle inhibitor proteins. It is required for coordinating cell division and cell differentiation during the development of Arabidopsis trichomes, playing a key role in the mitosis-to-endoreduplication transition. It interacts with D-type cyclins in vivo.	O.I.	H.G.	S.X.
0.14	6.8	0.68	At1g70990	843438	proline-rich family protein	F:molecular_function unknown;P:biological_process unknown;C:anchored to membrane;MPOBFVA	O.I.	H.G.	S.X.
0.02	0.4	0.67	At1g45130	841080	BGAL5 (beta-galactosidase 5)	F:cation binding, beta-galactosidase activity, catalytic activity;P:lactose catabolic process, using glucoside 3-dehydrogenase, carbohydrate metabolic process, lactose catabolic process via UDP-galactose, lactose catabolic process;C:endomembrane system, beta-galactosidase complex;BPMFOA	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
119.1 99.9 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
102.4 99.9 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
80.5 99.9 E-MEXP-1138-raw-cel-1432773290
76.6 99.9 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
73.2 99.9 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
68.2 99.9 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
66.6 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
63.4 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
63.0 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
54.9 99.8 E-MEXP-1138-raw-cel-1432773258
52.3 99.8 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
52.2 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
46.9 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
45.2 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.8 99.8 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
44.8 99.8 E-MEXP-1138-raw-cel-1432773322
42.6 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
42.5 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.9 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.3 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.9 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
39.1 99.8 E-MEXP-1138-raw-cel-1432773066
38.6 99.8 GSM184556 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
37.8 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
35.8 99.7 GSM184538 Whole roots 2hr KCl control treated then frozen, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
35.4 99.7 E-MEXP-1138-raw-cel-1432773034
34.0 99.7 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
33.0 99.7 GSM184539 Whole roots 2hr KCl control treated then frozen, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
33.0 99.7 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
32.7 99.7 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.3 99.7 GSM184533 Protoplasted root cells 2hr KCl control treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
32.0 99.7 GSM184545 Whole roots 2hr KNO3 treated then frozen, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
31.4 99.7 E-MEXP-1138-raw-cel-1432773354
27.1 99.7 GSM239253 CaMV::DME pollen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
26.8 99.7 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
26.7 99.7 GSM131636 ATGE_73_A GSE5632 AtGenExpress: Developmental series (flowers and pollen)
24.5 99.6 E-MEXP-1138-raw-cel-1432772682
24.2 99.6 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.1 99.6 E-MEXP-1138-raw-cel-1432773226
24.1 99.6 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
23.8 99.6 GSM131637 ATGE_73_B GSE5632 AtGenExpress: Developmental series (flowers and pollen)
23.6 99.6 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
23.5 99.6 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
23.4 99.6 GSM154504 Arabidopsis desiccated mature pollen grains rep2 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
22.2 99.6 GSM131638 ATGE_73_C GSE5632 AtGenExpress: Developmental series (flowers and pollen)
21.8 99.6 GSM239251 Columbia glabrous (C24) wild type pollen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
21.7 99.6 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
21.7 99.6 E-MEXP-1138-raw-cel-1432773162
20.3 99.6 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
19.5 99.6 GSM184536 Protoplasted root cells 2hr continuous KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
19.5 99.6 E-MEXP-1138-raw-cel-1432772938
17.9 99.5 GSM184535 Protoplasted root cells 2hr continuous KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
17.9 99.5 GSM184505 Pericycle root cells 2hr KCl control treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
17.7 99.5 GSM218590 Protoplasted root cells 2hr transitory KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
17.7 99.5 GSM218589 Protoplasted root cells 2hr transitory KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
17.1 99.5 GSM239254 CaMV::DME stamen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
16.6 99.5 E-MEXP-1138-raw-cel-1432772650
15.8 99.5 E-MEXP-1138-raw-cel-1432773386
15.7 99.5 GSM184509 Pericycle root cells 2hr continuous KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
15.7 99.5 GSM184507 Pericycle root cells 2hr transitory KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
15.7 99.5 GSM184503 Pericycle root cells 2hr KCl control treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
15.4 99.5 E-MEXP-1138-raw-cel-1432772618
15.3 99.4 GSM184559 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes with KNO3, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
15.2 99.4 E-MEXP-1138-raw-cel-1432773194
15.1 99.4 E-MEXP-1138-raw-cel-1432772970
15.0 99.4 E-MEXP-1138-raw-cel-1432772554
14.5 99.4 E-MEXP-1138-raw-cel-1432773002
13.6 99.4 GSM154506 Arabidopsis hydrated pollen grains rep2 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
13.3 99.4 GSM184516 Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
12.7 99.3 GSM218594 Whole roots 3.5hr KNO3 treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
12.5 99.3 GSM154503 Arabidopsis desiccated mature pollen grains rep1 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
12.4 99.3 E-MEXP-1138-raw-cel-1432772778
12.3 99.3 GSM184520 Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
12.3 99.3 GSM184517 Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
12.2 99.3 GSM184502 Endodermis&Pericycle root cells 2hr continuous KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
12.1 99.3 GSM184543 Whole roots 2hr KNO3 treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.3 99.3 GSM218588 Protoplasted root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.2 99.2 GSM184519 Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.2 99.2 GSM184506 Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.0 99.2 GSM184496 Endodermis&Pericycle root cells 2hr KCl control treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.9 99.2 E-MEXP-1138-raw-cel-1432773130
10.6 99.2 GSM218587 Pericycle root cells 2hr continuous KNO3 and MSX and Gln treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.6 99.2 GSM184557 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.5 99.2 GSM184497 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.4 99.2 GSM184498 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.3 99.2 E-MEXP-1138-raw-cel-1432772586
10.1 99.2 GSM184489 Epidermis&Cortex root cells 2hr transitory KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.1 99.2 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
9.9 99.1 GSM184511 Pericycle root cells 2hr continuous KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.7 99.1 E-MEXP-1138-raw-cel-1432772906
9.6 99.1 GSM239252 Columbia glabrous (C24) wild type stamen GSE9408 Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
9.5 99.1 GSM184526 Stele root cells 2hr transitory KNO3 treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.3 99.1 E-MEXP-1138-raw-cel-1432772714
9.1 99.1 GSM218591 Whole roots 3.5hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
8.8 99.0 E-MEXP-1138-raw-cel-1432772522

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
119.1	99.9	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
102.4	99.9	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
80.5	99.9	E-MEXP-1138-raw-cel-1432773290
76.6	99.9	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
73.2	99.9	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
68.2	99.9	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
66.6	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
63.4	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
63.0	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
54.9	99.8	E-MEXP-1138-raw-cel-1432773258
52.3	99.8	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
52.2	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
46.9	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
45.2	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.8	99.8	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
44.8	99.8	E-MEXP-1138-raw-cel-1432773322
42.6	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
42.5	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.9	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.3	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.9	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
39.1	99.8	E-MEXP-1138-raw-cel-1432773066
38.6	99.8	GSM184556	Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
37.8	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
35.8	99.7	GSM184538	Whole roots 2hr KCl control treated then frozen, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
35.4	99.7	E-MEXP-1138-raw-cel-1432773034
34.0	99.7	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
33.0	99.7	GSM184539	Whole roots 2hr KCl control treated then frozen, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
33.0	99.7	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
32.7	99.7	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.3	99.7	GSM184533	Protoplasted root cells 2hr KCl control treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
32.0	99.7	GSM184545	Whole roots 2hr KNO3 treated then frozen, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
31.4	99.7	E-MEXP-1138-raw-cel-1432773354
27.1	99.7	GSM239253	CaMV::DME pollen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
26.8	99.7	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
26.7	99.7	GSM131636	ATGE_73_A	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
24.5	99.6	E-MEXP-1138-raw-cel-1432772682
24.2	99.6	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.1	99.6	E-MEXP-1138-raw-cel-1432773226
24.1	99.6	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
23.8	99.6	GSM131637	ATGE_73_B	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
23.6	99.6	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
23.5	99.6	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
23.4	99.6	GSM154504	Arabidopsis desiccated mature pollen grains rep2	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
22.2	99.6	GSM131638	ATGE_73_C	GSE5632	AtGenExpress: Developmental series (flowers and pollen)
21.8	99.6	GSM239251	Columbia glabrous (C24) wild type pollen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
21.7	99.6	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
21.7	99.6	E-MEXP-1138-raw-cel-1432773162
20.3	99.6	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
19.5	99.6	GSM184536	Protoplasted root cells 2hr continuous KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
19.5	99.6	E-MEXP-1138-raw-cel-1432772938
17.9	99.5	GSM184535	Protoplasted root cells 2hr continuous KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
17.9	99.5	GSM184505	Pericycle root cells 2hr KCl control treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
17.7	99.5	GSM218590	Protoplasted root cells 2hr transitory KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
17.7	99.5	GSM218589	Protoplasted root cells 2hr transitory KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
17.1	99.5	GSM239254	CaMV::DME stamen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
16.6	99.5	E-MEXP-1138-raw-cel-1432772650
15.8	99.5	E-MEXP-1138-raw-cel-1432773386
15.7	99.5	GSM184509	Pericycle root cells 2hr continuous KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
15.7	99.5	GSM184507	Pericycle root cells 2hr transitory KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
15.7	99.5	GSM184503	Pericycle root cells 2hr KCl control treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
15.4	99.5	E-MEXP-1138-raw-cel-1432772618
15.3	99.4	GSM184559	Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes with KNO3, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
15.2	99.4	E-MEXP-1138-raw-cel-1432773194
15.1	99.4	E-MEXP-1138-raw-cel-1432772970
15.0	99.4	E-MEXP-1138-raw-cel-1432772554
14.5	99.4	E-MEXP-1138-raw-cel-1432773002
13.6	99.4	GSM154506	Arabidopsis hydrated pollen grains rep2	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
13.3	99.4	GSM184516	Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
12.7	99.3	GSM218594	Whole roots 3.5hr KNO3 treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
12.5	99.3	GSM154503	Arabidopsis desiccated mature pollen grains rep1	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis
12.4	99.3	E-MEXP-1138-raw-cel-1432772778
12.3	99.3	GSM184520	Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
12.3	99.3	GSM184517	Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
12.2	99.3	GSM184502	Endodermis&Pericycle root cells 2hr continuous KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
12.1	99.3	GSM184543	Whole roots 2hr KNO3 treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.3	99.3	GSM218588	Protoplasted root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.2	99.2	GSM184519	Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.2	99.2	GSM184506	Pericycle root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.0	99.2	GSM184496	Endodermis&Pericycle root cells 2hr KCl control treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.9	99.2	E-MEXP-1138-raw-cel-1432773130
10.6	99.2	GSM218587	Pericycle root cells 2hr continuous KNO3 and MSX and Gln treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.6	99.2	GSM184557	Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.5	99.2	GSM184497	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.4	99.2	GSM184498	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.3	99.2	E-MEXP-1138-raw-cel-1432772586
10.1	99.2	GSM184489	Epidermis&Cortex root cells 2hr transitory KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.1	99.2	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
9.9	99.1	GSM184511	Pericycle root cells 2hr continuous KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.7	99.1	E-MEXP-1138-raw-cel-1432772906
9.6	99.1	GSM239252	Columbia glabrous (C24) wild type stamen	GSE9408	Identification of putative Arabidopsis DEMETER target genes by GeneChip Analysis
9.5	99.1	GSM184526	Stele root cells 2hr transitory KNO3 treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.3	99.1	E-MEXP-1138-raw-cel-1432772714
9.1	99.1	GSM218591	Whole roots 3.5hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
8.8	99.0	E-MEXP-1138-raw-cel-1432772522

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.286 1 GO:0045839 Any process that stops, prevents or reduces the rate or extent of mitosis. Mitosis is the division of the eukaryotic cell nucleus to produce two daughter nuclei that, usually, contain the identical chromosome complement to their mother.
0.182 1 GO:0010358 The developmental process that pertains to the organization of a leaf in three-dimensional space once the structure has initially formed.
0.143 1 GO:0045736 Any process that stops, prevents or reduces the frequency, rate or extent of CDK activity.

SF	Genes	GO ID	Process Name
0.286	1	GO:0045839	Any process that stops, prevents or reduces the rate or extent of mitosis. Mitosis is the division of the eukaryotic cell nucleus to produce two daughter nuclei that, usually, contain the identical chromosome complement to their mother.
0.182	1	GO:0010358	The developmental process that pertains to the organization of a leaf in three-dimensional space once the structure has initially formed.
0.143	1	GO:0045736	Any process that stops, prevents or reduces the frequency, rate or extent of CDK activity.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.167 1 00905 Brassinosteroid biosynthesis
0.010 1 01062 Biosynthesis of terpenoids and steroids
0.006 1 01070 Biosynthesis of plant hormones

SF	Genes	KEGG ID	Pathway name
0.167	1	00905	Brassinosteroid biosynthesis
0.010	1	01062	Biosynthesis of terpenoids and steroids
0.006	1	01070	Biosynthesis of plant hormones

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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Gene ID	At3g50660
Gene name	DWF4 (DWARF 4)
Module size	6 genes
NF	0.09
%ile	5.7

Co-expression analysis

Gene ID At3g50660 Gene name DWF4 (DWARF 4) Module size 6 genes NF 0.09 %ile 5.7

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 KEGG0.167100905Brassinosteroid biosynthesis0.010101062Biosynthesis of terpenoids and steroids0.006101070Biosynthesis of plant hormones

Inter-species module comparison

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

Gene ID At3g50660

Gene name DWF4 (DWARF 4)

Module size 6 genes

NF 0.09

%ile 5.7

: 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
0.167 1 00905 Brassinosteroid biosynthesis
0.010 1 01062 Biosynthesis of terpenoids and steroids
0.006 1 01070 Biosynthesis of plant hormones

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