CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At3g44380

Gene name -

Module size 39 genes

NF 0.18

%ile 15.4

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
1.00 100.0 1.00 At3g44380 823563 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.45 58.3 0.90 At3g59840 825153 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast, chloroplast envelope;P O.I. H.G. S.X.
0.34 39.8 0.89 At5g55210 835614 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;P O.I. H.G. S.X.
0.31 33.8 0.90 At5g63670 836487 SPT42 (SPT4 HOMOLOG 2) F:positive transcription elongation factor activity, zinc ion binding;P:positive regulation of transcription, N-terminal protein myristoylation;C:nucleus;MFOP O.I. H.G. S.X.
0.30 32.1 0.89 At5g01650 831707 macrophage migration inhibitory factor family protein / MIF family protein F:molecular_function unknown;P:inflammatory response, response to other organism;C:chloroplast;MOBPF O.I. H.G. S.X.
0.26 24.4 0.89 At1g09660 837494 KH domain-containing quaking protein, putative F:RNA binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MPFO O.I. H.G. S.X.
0.26 24.4 0.89 At1g08880 837409 H2AXA Encodes HTA5, a histone H2A protein. H2AX is a meiosis-specific isoform of histone H2A. Upon DSB formation, rapid accumulation of phosphorylated H2AX (γ-H2AX) occurs around the break site. H2AX foci accumulate in early G2. Immunolocalization studies in spread preparations of wild-type meiocytes at G2/early leptotene revealed the accumulation of numerous rather diffuse γ-H2AX foci throughout the chromatin. However, their accumulation is not contemporaneous with that of AtSPO11-1. At 3 h post-S, no γ-H2AX foci are detected. During the 3- to 5-h window when AtSPO11-1 foci rapidly disappear, there is an equally swift accumulation of γ-H2AX to a maximum of >50 diffuse foci. The level of γH2AX then remains constant for a further 13 h before undergoing a gradual decrease to 10�20 foci in the 18- to 24-h post-S period. By 30 h the foci have disappeared from the chromatin. O.I. H.G. S.X.
0.25 22.6 0.89 At5g09995 830861 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPO O.I. H.G. S.X.
0.25 22.6 0.89 At5g01470 831788 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPBOA O.I. H.G. S.X.
0.24 20.7 0.89 At5g17070 831570 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFO O.I. H.G. S.X.
0.23 19.3 0.90 At1g71750 843505 phosphoribosyltransferase family protein F:transferase activity, hypoxanthine phosphoribosyltransferase activity;P:nucleoside metabolic process, purine ribonucleoside salvage;C:cytoplasm;BOMAPF O.I. H.G. S.X.
0.23 19.3 0.89 At5g48630 834920 cyclin family protein F:cyclin-dependent protein kinase activity;P:regulation of cell cycle;C:unknown;MFPO O.I. H.G. S.X.
0.23 19.3 0.89 At1g06960 837206 small nuclear ribonucleoprotein U2B, putative / spliceosomal protein, putative F:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MFOPBV O.I. H.G. S.X.
0.23 19.3 0.89 At3g49560 824118 mitochondrial import inner membrane translocase subunit Tim17/Tim22/Tim23 family protein F:protein transporter activity, P-P-bond-hydrolysis-driven protein transmembrane transporter activity;P:protein transport;C:in 6 components;PMO O.I. H.G. S.X.
0.23 19.3 0.90 At5g63440 836463 unknown protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOF O.I. H.G. S.X.
0.22 17.5 0.89 At4g28440 828961 DNA-binding protein-related F:molecular_function unknown;P:biological_process unknown;C:unknown;PAO O.I. H.G. S.X.
0.21 15.8 0.89 At2g11910 815665 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast envelope;BMOFPVA O.I. H.G. S.X.
0.20 14.4 0.89 At2g43950 819000 OEP37 Constitutes a peptide sensitive ion channel in chloroplast outer membranes. Accumulates in germinating seeds and developing embryos. O.I. H.G. S.X.
0.20 14.4 0.89 At2g47580 819371 U1A (SPLICEOSOMAL PROTEIN U1A) encodes spliceosomal protein U1A O.I. H.G. S.X.
0.20 14.4 0.89 At4g32900 829426 aminoacyl-tRNA hydrolase F:aminoacyl-tRNA hydrolase activity;P:translation;C:unknown;MOAFPV O.I. H.G. S.X.
0.20 14.4 0.90 At2g33255 817888 catalytic/ hydrolase/ phosphoglycolate phosphatase F:hydrolase activity, catalytic activity, phosphoglycolate phosphatase activity;P:metabolic process;C:chloroplast;BOAFPM O.I. H.G. S.X.
0.19 12.7 0.90 At1g43190 840918 polypyrimidine tract-binding protein, putative / heterogeneous nuclear ribonucleoprotein, putative F:RNA binding, nucleotide binding, nucleic acid binding;P:mRNA processing;C:nucleus;MPOF O.I. H.G. S.X.
0.17 10.2 0.90 At5g20130 832135 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;PMOB O.I. H.G. S.X.
0.17 10.2 0.89 At1g54770 841918 - F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPO O.I. H.G. S.X.
0.17 10.2 0.90 At3g13570 820559 SCL30a encodes an SC35-like splicing factor of 30 kD that is localized to the nuclear specks. O.I. H.G. S.X.
0.17 10.2 0.89 At3g49470 824109 NACA2 (NASCENT POLYPEPTIDE-ASSOCIATED COMPLEX SUBUNIT ALPHA-LIKE PROTEIN 2) F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPAVB O.I. H.G. S.X.
0.16 8.8 0.89 At1g31160 840001 zinc-binding protein, putative / protein kinase C inhibitor, putative F:protein kinase C binding, zinc ion binding, catalytic activity;P:biological_process unknown;C:chloroplast;BOMAFP O.I. H.G. S.X.
0.15 7.8 0.89 At4g25550 828660 protein binding F:protein binding;P:biological_process unknown;C:cellular_component unknown;MOFP O.I. H.G. S.X.
0.15 7.8 0.90 At5g49230 834983 HRB1 (HYPERSENSITIVE TO RED AND BLUE) Identified in a screen for mutations hypersensitive to red and blue light. Mutants have shorter hypocotyls. Encodes a nuclear localized protein with similarity to drought induced proteins. Contains a ZZ zinc finger domain which is thought to mediate protein-protein interactions.May be involved in red and blue light signal transduction. O.I. H.G. S.X.
0.13 5.8 0.89 At1g52370 841667 ribosomal protein L22 family protein F:structural constituent of ribosome;P:translation;C:ribosome, intracellular, large ribosomal subunit;BOPMF O.I. H.G. S.X.
0.13 5.8 0.89 At1g17880 838367 nascent polypeptide-associated complex (NAC) domain-containing protein / BTF3b-like transcription factor, putative F:transcription factor activity;P:response to salt stress;C:cellular_component unknown;MFPO O.I. H.G. S.X.
0.12 4.9 0.90 At4g40030 830164 histone H3.2 F:DNA binding;P:nucleosome assembly;C:nucleus, nucleosome;MFPO O.I. H.G. S.X.
0.12 4.9 0.89 At1g19800 838568 TGD1 (TRIGALACTOSYLDIACYLGLYCEROL 1) Encodes a permease-Like protein involved in lipid transfer from the ER to the chloroplast, more specifically, transfer of phosphatidate across the chloroplast inner membrane. Mutant leaves accumulate trigalactosyldiacylglycerol, triacylglycerol and phosphatidate. Chloroplast lipids are altered in their fatty acid composition and as a consequence the development of chloroplasts in the mutants are impacted. The mutant seeds has a higher abortion rate. O.I. H.G. S.X.
0.11 4.1 0.89 At4g33250 829461 EIF3K (EUKARYOTIC TRANSLATION INITIATION FACTOR 3K) Encodes initiation factor 3k (EIF3k). O.I. H.G. S.X.
0.10 3.4 0.89 At3g11510 820324 40S ribosomal protein S14 (RPS14B) F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit, cytosolic ribosome, nucleolus;BOPMAF O.I. H.G. S.X.
0.10 3.4 0.89 At3g45030 823638 40S ribosomal protein S20 (RPS20A) F:structural constituent of ribosome, RNA binding;P:translation;C:cytosolic small ribosomal subunit, small ribosomal subunit;BOMAPF O.I. H.G. S.X.
0.09 2.8 0.89 At1g53120 841746 RNA-binding S4 domain-containing protein F:RNA binding;P:biological_process unknown;C:chloroplast;BOPM O.I. H.G. S.X.
0.09 2.8 0.89 At2g26770 817218 plectin-related F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAV O.I. H.G. S.X.
0.08 2.3 0.89 At3g12130 820388 KH domain-containing protein / zinc finger (CCCH type) family protein F:transcription factor activity, nucleic acid binding;P:regulation of transcription;C:unknown;MPOFB O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
1.00	100.0	1.00	At3g44380	823563	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.45	58.3	0.90	At3g59840	825153	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast, chloroplast envelope;P	O.I.	H.G.	S.X.
0.34	39.8	0.89	At5g55210	835614	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;P	O.I.	H.G.	S.X.
0.31	33.8	0.90	At5g63670	836487	SPT42 (SPT4 HOMOLOG 2)	F:positive transcription elongation factor activity, zinc ion binding;P:positive regulation of transcription, N-terminal protein myristoylation;C:nucleus;MFOP	O.I.	H.G.	S.X.
0.30	32.1	0.89	At5g01650	831707	macrophage migration inhibitory factor family protein / MIF family protein	F:molecular_function unknown;P:inflammatory response, response to other organism;C:chloroplast;MOBPF	O.I.	H.G.	S.X.
0.26	24.4	0.89	At1g09660	837494	KH domain-containing quaking protein, putative	F:RNA binding, nucleic acid binding;P:biological_process unknown;C:cellular_component unknown;MPFO	O.I.	H.G.	S.X.
0.26	24.4	0.89	At1g08880	837409	H2AXA	Encodes HTA5, a histone H2A protein. H2AX is a meiosis-specific isoform of histone H2A. Upon DSB formation, rapid accumulation of phosphorylated H2AX (γ-H2AX) occurs around the break site. H2AX foci accumulate in early G2. Immunolocalization studies in spread preparations of wild-type meiocytes at G2/early leptotene revealed the accumulation of numerous rather diffuse γ-H2AX foci throughout the chromatin. However, their accumulation is not contemporaneous with that of AtSPO11-1. At 3 h post-S, no γ-H2AX foci are detected. During the 3- to 5-h window when AtSPO11-1 foci rapidly disappear, there is an equally swift accumulation of γ-H2AX to a maximum of >50 diffuse foci. The level of γH2AX then remains constant for a further 13 h before undergoing a gradual decrease to 10�20 foci in the 18- to 24-h post-S period. By 30 h the foci have disappeared from the chromatin.	O.I.	H.G.	S.X.
0.25	22.6	0.89	At5g09995	830861	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;BPO	O.I.	H.G.	S.X.
0.25	22.6	0.89	At5g01470	831788	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPBOA	O.I.	H.G.	S.X.
0.24	20.7	0.89	At5g17070	831570	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPFO	O.I.	H.G.	S.X.
0.23	19.3	0.90	At1g71750	843505	phosphoribosyltransferase family protein	F:transferase activity, hypoxanthine phosphoribosyltransferase activity;P:nucleoside metabolic process, purine ribonucleoside salvage;C:cytoplasm;BOMAPF	O.I.	H.G.	S.X.
0.23	19.3	0.89	At5g48630	834920	cyclin family protein	F:cyclin-dependent protein kinase activity;P:regulation of cell cycle;C:unknown;MFPO	O.I.	H.G.	S.X.
0.23	19.3	0.89	At1g06960	837206	small nuclear ribonucleoprotein U2B, putative / spliceosomal protein, putative	F:RNA binding, nucleotide binding, nucleic acid binding;P:unknown;C:unknown;MFOPBV	O.I.	H.G.	S.X.
0.23	19.3	0.89	At3g49560	824118	mitochondrial import inner membrane translocase subunit Tim17/Tim22/Tim23 family protein	F:protein transporter activity, P-P-bond-hydrolysis-driven protein transmembrane transporter activity;P:protein transport;C:in 6 components;PMO	O.I.	H.G.	S.X.
0.23	19.3	0.90	At5g63440	836463	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MPOF	O.I.	H.G.	S.X.
0.22	17.5	0.89	At4g28440	828961	DNA-binding protein-related	F:molecular_function unknown;P:biological_process unknown;C:unknown;PAO	O.I.	H.G.	S.X.
0.21	15.8	0.89	At2g11910	815665	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast envelope;BMOFPVA	O.I.	H.G.	S.X.
0.20	14.4	0.89	At2g43950	819000	OEP37	Constitutes a peptide sensitive ion channel in chloroplast outer membranes. Accumulates in germinating seeds and developing embryos.	O.I.	H.G.	S.X.
0.20	14.4	0.89	At2g47580	819371	U1A (SPLICEOSOMAL PROTEIN U1A)	encodes spliceosomal protein U1A	O.I.	H.G.	S.X.
0.20	14.4	0.89	At4g32900	829426	aminoacyl-tRNA hydrolase	F:aminoacyl-tRNA hydrolase activity;P:translation;C:unknown;MOAFPV	O.I.	H.G.	S.X.
0.20	14.4	0.90	At2g33255	817888	catalytic/ hydrolase/ phosphoglycolate phosphatase	F:hydrolase activity, catalytic activity, phosphoglycolate phosphatase activity;P:metabolic process;C:chloroplast;BOAFPM	O.I.	H.G.	S.X.
0.19	12.7	0.90	At1g43190	840918	polypyrimidine tract-binding protein, putative / heterogeneous nuclear ribonucleoprotein, putative	F:RNA binding, nucleotide binding, nucleic acid binding;P:mRNA processing;C:nucleus;MPOF	O.I.	H.G.	S.X.
0.17	10.2	0.90	At5g20130	832135	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;PMOB	O.I.	H.G.	S.X.
0.17	10.2	0.89	At1g54770	841918	-	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFPO	O.I.	H.G.	S.X.
0.17	10.2	0.90	At3g13570	820559	SCL30a	encodes an SC35-like splicing factor of 30 kD that is localized to the nuclear specks.	O.I.	H.G.	S.X.
0.17	10.2	0.89	At3g49470	824109	NACA2 (NASCENT POLYPEPTIDE-ASSOCIATED COMPLEX SUBUNIT ALPHA-LIKE PROTEIN 2)	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MFOPAVB	O.I.	H.G.	S.X.
0.16	8.8	0.89	At1g31160	840001	zinc-binding protein, putative / protein kinase C inhibitor, putative	F:protein kinase C binding, zinc ion binding, catalytic activity;P:biological_process unknown;C:chloroplast;BOMAFP	O.I.	H.G.	S.X.
0.15	7.8	0.89	At4g25550	828660	protein binding	F:protein binding;P:biological_process unknown;C:cellular_component unknown;MOFP	O.I.	H.G.	S.X.
0.15	7.8	0.90	At5g49230	834983	HRB1 (HYPERSENSITIVE TO RED AND BLUE)	Identified in a screen for mutations hypersensitive to red and blue light. Mutants have shorter hypocotyls. Encodes a nuclear localized protein with similarity to drought induced proteins. Contains a ZZ zinc finger domain which is thought to mediate protein-protein interactions.May be involved in red and blue light signal transduction.	O.I.	H.G.	S.X.
0.13	5.8	0.89	At1g52370	841667	ribosomal protein L22 family protein	F:structural constituent of ribosome;P:translation;C:ribosome, intracellular, large ribosomal subunit;BOPMF	O.I.	H.G.	S.X.
0.13	5.8	0.89	At1g17880	838367	nascent polypeptide-associated complex (NAC) domain-containing protein / BTF3b-like transcription factor, putative	F:transcription factor activity;P:response to salt stress;C:cellular_component unknown;MFPO	O.I.	H.G.	S.X.
0.12	4.9	0.90	At4g40030	830164	histone H3.2	F:DNA binding;P:nucleosome assembly;C:nucleus, nucleosome;MFPO	O.I.	H.G.	S.X.
0.12	4.9	0.89	At1g19800	838568	TGD1 (TRIGALACTOSYLDIACYLGLYCEROL 1)	Encodes a permease-Like protein involved in lipid transfer from the ER to the chloroplast, more specifically, transfer of phosphatidate across the chloroplast inner membrane. Mutant leaves accumulate trigalactosyldiacylglycerol, triacylglycerol and phosphatidate. Chloroplast lipids are altered in their fatty acid composition and as a consequence the development of chloroplasts in the mutants are impacted. The mutant seeds has a higher abortion rate.	O.I.	H.G.	S.X.
0.11	4.1	0.89	At4g33250	829461	EIF3K (EUKARYOTIC TRANSLATION INITIATION FACTOR 3K)	Encodes initiation factor 3k (EIF3k).	O.I.	H.G.	S.X.
0.10	3.4	0.89	At3g11510	820324	40S ribosomal protein S14 (RPS14B)	F:structural constituent of ribosome;P:translation;C:cytosolic small ribosomal subunit, cytosolic ribosome, nucleolus;BOPMAF	O.I.	H.G.	S.X.
0.10	3.4	0.89	At3g45030	823638	40S ribosomal protein S20 (RPS20A)	F:structural constituent of ribosome, RNA binding;P:translation;C:cytosolic small ribosomal subunit, small ribosomal subunit;BOMAPF	O.I.	H.G.	S.X.
0.09	2.8	0.89	At1g53120	841746	RNA-binding S4 domain-containing protein	F:RNA binding;P:biological_process unknown;C:chloroplast;BOPM	O.I.	H.G.	S.X.
0.09	2.8	0.89	At2g26770	817218	plectin-related	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;MOBFPAV	O.I.	H.G.	S.X.
0.08	2.3	0.89	At3g12130	820388	KH domain-containing protein / zinc finger (CCCH type) family protein	F:transcription factor activity, nucleic acid binding;P:regulation of transcription;C:unknown;MPOFB	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
34.6 99.7 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
34.5 99.7 GSM133778 Lindsey_1-2_globular-apical_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
31.6 99.7 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
29.7 99.7 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
29.6 99.7 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.4 99.7 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.4 99.7 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.4 99.7 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
26.8 99.7 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.8 99.7 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.2 99.7 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.1 99.7 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
25.9 99.7 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.3 99.6 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.0 99.6 GSM184923 Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
23.1 99.6 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
22.2 99.6 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
21.2 99.6 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.1 99.6 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.6 99.6 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
19.4 99.6 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
17.0 99.5 GSM133776 Lindsey_1-1_globular-apical_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.5 99.5 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
16.5 99.5 GSM133962 Fukuda_1-7_6A_Rep1_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
15.5 99.5 GSM133963 Fukuda_1-8_6B_Rep2_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
14.2 99.4 GSM184904 Arabidopsis, root cells, protophloem, standard conditions, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
13.5 99.4 E-MEXP-1443-raw-cel-1581869515
13.4 99.4 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
12.0 99.3 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
11.8 99.3 E-MEXP-1451-raw-cel-1585200362
11.1 99.2 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
10.8 99.2 GSM131655 ATGE_27_A GSE5633 AtGenExpress: Developmental series (shoots and stems)
10.5 99.2 GSM184906 Arabidopsis, root cells, protophloem, standard conditions, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
10.0 99.2 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.7 99.1 GSM184912 Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
9.1 99.1 GSM131656 ATGE_27_B GSE5633 AtGenExpress: Developmental series (shoots and stems)
8.7 99.0 GSM131657 ATGE_27_C GSE5633 AtGenExpress: Developmental series (shoots and stems)
8.7 99.0 E-MEXP-1443-raw-cel-1581869573
8.6 99.0 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
8.6 99.0 GSM133961 Fukuda_1-6_4B_Rep2_ATH1 GSE5748 In vitro tracheary element transdifferentiation of Col-0 suspension cells.
8.6 99.0 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
34.6	99.7	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
34.5	99.7	GSM133778	Lindsey_1-2_globular-apical_Rep2_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
31.6	99.7	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
29.7	99.7	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
29.6	99.7	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
29.4	99.7	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.4	99.7	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
28.4	99.7	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
26.8	99.7	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.8	99.7	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.2	99.7	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.1	99.7	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
25.9	99.7	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.3	99.6	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.0	99.6	GSM184923	Arabidopsis, root cells, protophloem, 140 mM NaCl, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
23.1	99.6	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
22.2	99.6	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
21.2	99.6	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.1	99.6	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
19.6	99.6	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
19.4	99.6	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
17.0	99.5	GSM133776	Lindsey_1-1_globular-apical_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.5	99.5	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
16.5	99.5	GSM133962	Fukuda_1-7_6A_Rep1_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
15.5	99.5	GSM133963	Fukuda_1-8_6B_Rep2_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
14.2	99.4	GSM184904	Arabidopsis, root cells, protophloem, standard conditions, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
13.5	99.4	E-MEXP-1443-raw-cel-1581869515
13.4	99.4	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
12.0	99.3	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
11.8	99.3	E-MEXP-1451-raw-cel-1585200362
11.1	99.2	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
10.8	99.2	GSM131655	ATGE_27_A	GSE5633	AtGenExpress: Developmental series (shoots and stems)
10.5	99.2	GSM184906	Arabidopsis, root cells, protophloem, standard conditions, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
10.0	99.2	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.7	99.1	GSM184912	Arabidopsis, root cells, columella root cap, 140 mM NaCl, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
9.1	99.1	GSM131656	ATGE_27_B	GSE5633	AtGenExpress: Developmental series (shoots and stems)
8.7	99.0	GSM131657	ATGE_27_C	GSE5633	AtGenExpress: Developmental series (shoots and stems)
8.7	99.0	E-MEXP-1443-raw-cel-1581869573
8.6	99.0	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
8.6	99.0	GSM133961	Fukuda_1-6_4B_Rep2_ATH1	GSE5748	In vitro tracheary element transdifferentiation of Col-0 suspension cells.
8.6	99.0	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.054 2 GO:0000398 The joining together of exons from one or more primary transcripts of nuclear messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.
0.050 1 GO:0006166 Any process which produces a purine nucleoside from derivatives of it, without de novo synthesis.
0.047 1 GO:0006954 The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages.

SF	Genes	GO ID	Process Name
0.054	2	GO:0000398	The joining together of exons from one or more primary transcripts of nuclear messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.
0.050	1	GO:0006166	Any process which produces a purine nucleoside from derivatives of it, without de novo synthesis.
0.047	1	GO:0006954	The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.014 1 00230 Purine metabolism
0.007 1 03010 Ribosome
0.002 1 01100 Metabolic pathways

SF	Genes	KEGG ID	Pathway name
0.014	1	00230	Purine metabolism
0.007	1	03010	Ribosome
0.002	1	01100	Metabolic pathways

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	At3g44380
Gene name	-
Module size	39 genes
NF	0.18
%ile	15.4

Co-expression analysis

Gene ID At3g44380 Gene name - Module size 39 genes NF 0.18 %ile 15.4

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 KEGG0.014100230Purine metabolism0.007103010Ribosome0.002101100Metabolic pathways

Inter-species module comparison

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

Gene ID At3g44380

Gene name -

Module size 39 genes

NF 0.18

%ile 15.4

: 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
0.014 1 00230 Purine metabolism
0.007 1 03010 Ribosome
0.002 1 01100 Metabolic pathways

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