CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At4g12830

Gene name hydrolase, alpha/beta fold family protein

Module size 36 genes

NF 0.43

%ile 60.2

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 At4g12830 826895 hydrolase, alpha/beta fold family protein F:hydrolase activity;P:unknown;C:chloroplast;BOMPFA O.I. H.G. S.X.
0.68 82.2 0.93 At5g58260 835938 - Encodes subunit NDH-N of NAD(P)H:plastoquinone dehydrogenase complex (Ndh complex) present in the thylakoid membrane of chloroplasts. This subunit is thought to be required for Ndh complex assembly. O.I. H.G. S.X.
0.55 70.6 0.90 At3g19480 821482 D-3-phosphoglycerate dehydrogenase, putative / 3-PGDH, putative F:in 7 functions;P:L-serine biosynthetic process, metabolic process;C:mitochondrion, chloroplast;BOFMPAV O.I. H.G. S.X.
0.54 69.5 0.90 At1g15980 838168 NDF1 (NDH-DEPENDENT CYCLIC ELECTRON FLOW 1) encodes a novel subunit of the chloroplast NAD(P)H dehydrogenase complex, involved in cyclic electron flow around photosystem I to produce ATP. O.I. H.G. S.X.
0.52 67.4 0.88 At2g39470 818532 PPL2 (PsbP-like protein 2) F:calcium ion binding;P:photosynthesis;C:in 6 components;PBO O.I. H.G. S.X.
0.51 66.3 0.89 At1g64680 842776 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;PBO O.I. H.G. S.X.
0.50 65.3 0.88 At3g48420 824000 haloacid dehalogenase-like hydrolase family protein F:hydrolase activity, catalytic activity;P:metabolic process;C:chloroplast, chloroplast stroma, chloroplast envelope;BOPMFAV O.I. H.G. S.X.
0.50 65.3 0.88 At5g43750 834396 unknown protein F:molecular_function unknown;P:response to oxidative stress;C:chloroplast thylakoid membrane, chloroplast;P O.I. H.G. S.X.
0.49 63.5 0.89 At3g16250 820871 NDF4 (NDH-DEPENDENT CYCLIC ELECTRON FLOW 1) encodes a novel subunit of the chloroplast NAD(P)H dehydrogenase complex, involved in cyclic electron flow around photosystem I to produce ATP. Contains a 4Fe-4S cluster. O.I. H.G. S.X.
0.49 63.5 0.88 At5g62140 836334 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBO O.I. H.G. S.X.
0.48 62.5 0.90 At1g32080 840100 membrane protein, putative F:unknown;P:unknown;C:chloroplast, chloroplast inner membrane, membrane, chloroplast envelope;BOFPA O.I. H.G. S.X.
0.48 62.5 0.88 At1g01790 837332 KEA1 (K EFFLUX ANTIPORTER 1) K efflux antiporter KEA1 O.I. H.G. S.X.
0.47 61.2 0.88 At5g36700 833635 PGLP1 (2-PHOSPHOGLYCOLATE PHOSPHATASE 1) F:phosphoglycolate phosphatase activity;P:metabolic process;C:chloroplast stroma, chloroplast;BOMFAP O.I. H.G. S.X.
0.47 61.2 0.88 At5g17170 831581 ENH1 (enhancer of sos3-1) F:protein binding, electron carrier activity, metal ion binding;P:unknown;C:chloroplast thylakoid membrane, chloroplast, chloroplast envelope;BPO O.I. H.G. S.X.
0.47 61.2 0.88 At5g27290 832787 unknown protein F:unknown;P:unknown;C:chloroplast;PBO O.I. H.G. S.X.
0.46 59.8 0.87 At3g48200 823977 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;BOP O.I. H.G. S.X.
0.44 57.2 0.90 At5g13650 831209 elongation factor family protein F:GTP binding, translation elongation factor activity, GTPase activity;P:unknown;C:chloroplast, chloroplast stroma;BOMFPA O.I. H.G. S.X.
0.44 57.2 0.88 At1g65230 842830 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PB O.I. H.G. S.X.
0.44 57.2 0.88 At3g63140 825489 CSP41A (CHLOROPLAST STEM-LOOP BINDING PROTEIN OF 41 KDA) Encodes a protein with ribonuclease activity that is involved in plastid rRNA maturation. O.I. H.G. S.X.
0.41 52.4 0.88 At4g33010 829438 AtGLDP1 (Arabidopsis thaliana glycine decarboxylase P-protein 1) F:glycine dehydrogenase (decarboxylating) activity, pyridoxal phosphate binding, catalytic activity;P:glycine catabolic process, glycine decarboxylation via glycine cleavage system;C:mitochondrion, apoplast, glycine cleavage complex, chloroplast, chloroplast envelope;OBFAMP O.I. H.G. S.X.
0.41 52.4 0.88 At1g55480 841995 binding / protein binding F:protein binding, binding;P:unknown;C:chloroplast thylakoid membrane, chloroplast stroma, chloroplast, chloroplast envelope;PBOMF O.I. H.G. S.X.
0.41 52.4 0.90 At1g14150 837974 oxygen evolving enhancer 3 (PsbQ) family protein F:calcium ion binding;P:photosynthesis;C:chloroplast thylakoid membrane, chloroplast photosystem II, chloroplast thylakoid lumen, chloroplast;P O.I. H.G. S.X.
0.41 52.4 0.89 At1g56500 842103 haloacid dehalogenase-like hydrolase family protein F:hydrolase activity, oxidoreductase activity, catalytic activity;P:metabolic process, cell redox homeostasis;C:chloroplast, chloroplast stroma;BOMPAFV O.I. H.G. S.X.
0.39 48.4 0.89 At3g54050 824572 fructose-1,6-bisphosphatase, putative / D-fructose-1,6-bisphosphate 1-phosphohydrolase, putative / FBPase, putative F:fructose 1,6-bisphosphate 1-phosphatase activity, phosphoric ester hydrolase activity;P:response to cold, fructose metabolic process;C:apoplast, stromule, chloroplast stroma, chloroplast;BOMPFA O.I. H.G. S.X.
0.39 48.4 0.88 At4g17360 827448 formyltetrahydrofolate deformylase/ hydroxymethyl-, formyl- and related transferase/ methyltransferase encodes one of the two putative formyltetrahydrofolate deformylase. Located in the mitochondrion. Involved in photorespiratory tetrahydrofolate cycle. O.I. H.G. S.X.
0.39 48.4 0.90 At3g01440 821143 oxygen evolving enhancer 3 (PsbQ) family protein F:calcium ion binding;P:photosynthesis, light reaction;C:chloroplast thylakoid membrane, chloroplast photosystem II, chloroplast thylakoid lumen, chloroplast, oxygen evolving complex;P O.I. H.G. S.X.
0.38 46.7 0.91 At1g49380 841361 cytochrome c biogenesis protein family F:molecular_function unknown;P:cytochrome complex assembly;C:chloroplast;BOPM O.I. H.G. S.X.
0.37 45.0 0.88 At1g62750 842573 SCO1 (SNOWY COTYLEDON 1) Nuclear encoded protein consists of the five domains conserved in EF-G proteins, with two GTP-binding sites in the first domain, and an additional transit peptide at the N-terminus. Localized in chloroplasts. Point mutation results in a delay in the onset of germination. At early developmental stage embryos still contain undifferentiated proplastids. The greening of cotyledons is severely impaired in light-grown mutant sco1 seedlings, whereas the following true leaves develop normally as in wild-type plants. O.I. H.G. S.X.
0.37 45.0 0.89 At1g09340 837455 CRB (CHLOROPLAST RNA BINDING) Encodes CHLOROPLAST RNA BINDING (CRB), a putative RNA-binding protein. CRB is important for the proper functioning of the chloroplast. Mutations in CRB also affects the circadian system, altering the expression of both oscillator and output genes. O.I. H.G. S.X.
0.36 43.6 0.88 At5g19220 832042 APL1 (ADP GLUCOSE PYROPHOSPHORYLASE LARGE SUBUNIT 1) Encodes the large subunit of ADP-glucose pyrophosphorylase which catalyzes the first, rate limiting step in starch biosynthesis. The large subunit plays a regulatory role whereas the small subunit (ApS) is the catalytic isoform. Four isoforms (ApL1-4) have been identified. ApL1 is the major large subunit isoform present in leaves. Mutational analysis of APS1 suggests that APL1 and APL2 can compensate for loss of APS1 catalytic activity,suggesting both have catalytic as well as regulatory functions. O.I. H.G. S.X.
0.36 43.6 0.88 At1g19150 838498 LHCA6 PSI type II chlorophyll a/b-binding protein (Lhca2*1) mRNA, O.I. H.G. S.X.
0.33 38.1 0.88 At3g55800 824746 SBPASE (sedoheptulose-bisphosphatase) Encodes the chloroplast enzyme sedoheptulose-1,7-bisphosphatase (SBPase), involved in the carbon reduction of the Calvin cycle. Increase in SBPase activity in transgenic lines accumulate up to 50% more sucrose and starch than wild-type. O.I. H.G. S.X.
0.27 26.2 0.88 At1g79510 844289 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPMO O.I. H.G. S.X.
0.26 24.4 0.87 At1g11860 837733 aminomethyltransferase, putative F:aminomethyltransferase activity;P:response to cadmium ion;C:in 6 components;OBMFAP O.I. H.G. S.X.
0.26 24.4 0.89 At2g30390 817589 FC2 (FERROCHELATASE 2) Encodes one of two ferrochelatase genes in Arabidopsis. Ferrochelatase is the terminal enzyme of heme biosynthesis. FC-II is speculated to operate in photosynthetic cytochromes O.I. H.G. S.X.
0.25 22.6 0.88 At5g53580 835440 aldo/keto reductase family protein F:oxidoreductase activity, aldo-keto reductase activity;P:oxidation reduction;C:chloroplast;BOMFPA 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	At4g12830	826895	hydrolase, alpha/beta fold family protein	F:hydrolase activity;P:unknown;C:chloroplast;BOMPFA	O.I.	H.G.	S.X.
0.68	82.2	0.93	At5g58260	835938	-	Encodes subunit NDH-N of NAD(P)H:plastoquinone dehydrogenase complex (Ndh complex) present in the thylakoid membrane of chloroplasts. This subunit is thought to be required for Ndh complex assembly.	O.I.	H.G.	S.X.
0.55	70.6	0.90	At3g19480	821482	D-3-phosphoglycerate dehydrogenase, putative / 3-PGDH, putative	F:in 7 functions;P:L-serine biosynthetic process, metabolic process;C:mitochondrion, chloroplast;BOFMPAV	O.I.	H.G.	S.X.
0.54	69.5	0.90	At1g15980	838168	NDF1 (NDH-DEPENDENT CYCLIC ELECTRON FLOW 1)	encodes a novel subunit of the chloroplast NAD(P)H dehydrogenase complex, involved in cyclic electron flow around photosystem I to produce ATP.	O.I.	H.G.	S.X.
0.52	67.4	0.88	At2g39470	818532	PPL2 (PsbP-like protein 2)	F:calcium ion binding;P:photosynthesis;C:in 6 components;PBO	O.I.	H.G.	S.X.
0.51	66.3	0.89	At1g64680	842776	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;PBO	O.I.	H.G.	S.X.
0.50	65.3	0.88	At3g48420	824000	haloacid dehalogenase-like hydrolase family protein	F:hydrolase activity, catalytic activity;P:metabolic process;C:chloroplast, chloroplast stroma, chloroplast envelope;BOPMFAV	O.I.	H.G.	S.X.
0.50	65.3	0.88	At5g43750	834396	unknown protein	F:molecular_function unknown;P:response to oxidative stress;C:chloroplast thylakoid membrane, chloroplast;P	O.I.	H.G.	S.X.
0.49	63.5	0.89	At3g16250	820871	NDF4 (NDH-DEPENDENT CYCLIC ELECTRON FLOW 1)	encodes a novel subunit of the chloroplast NAD(P)H dehydrogenase complex, involved in cyclic electron flow around photosystem I to produce ATP. Contains a 4Fe-4S cluster.	O.I.	H.G.	S.X.
0.49	63.5	0.88	At5g62140	836334	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PBO	O.I.	H.G.	S.X.
0.48	62.5	0.90	At1g32080	840100	membrane protein, putative	F:unknown;P:unknown;C:chloroplast, chloroplast inner membrane, membrane, chloroplast envelope;BOFPA	O.I.	H.G.	S.X.
0.48	62.5	0.88	At1g01790	837332	KEA1 (K EFFLUX ANTIPORTER 1)	K efflux antiporter KEA1	O.I.	H.G.	S.X.
0.47	61.2	0.88	At5g36700	833635	PGLP1 (2-PHOSPHOGLYCOLATE PHOSPHATASE 1)	F:phosphoglycolate phosphatase activity;P:metabolic process;C:chloroplast stroma, chloroplast;BOMFAP	O.I.	H.G.	S.X.
0.47	61.2	0.88	At5g17170	831581	ENH1 (enhancer of sos3-1)	F:protein binding, electron carrier activity, metal ion binding;P:unknown;C:chloroplast thylakoid membrane, chloroplast, chloroplast envelope;BPO	O.I.	H.G.	S.X.
0.47	61.2	0.88	At5g27290	832787	unknown protein	F:unknown;P:unknown;C:chloroplast;PBO	O.I.	H.G.	S.X.
0.46	59.8	0.87	At3g48200	823977	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;BOP	O.I.	H.G.	S.X.
0.44	57.2	0.90	At5g13650	831209	elongation factor family protein	F:GTP binding, translation elongation factor activity, GTPase activity;P:unknown;C:chloroplast, chloroplast stroma;BOMFPA	O.I.	H.G.	S.X.
0.44	57.2	0.88	At1g65230	842830	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PB	O.I.	H.G.	S.X.
0.44	57.2	0.88	At3g63140	825489	CSP41A (CHLOROPLAST STEM-LOOP BINDING PROTEIN OF 41 KDA)	Encodes a protein with ribonuclease activity that is involved in plastid rRNA maturation.	O.I.	H.G.	S.X.
0.41	52.4	0.88	At4g33010	829438	AtGLDP1 (Arabidopsis thaliana glycine decarboxylase P-protein 1)	F:glycine dehydrogenase (decarboxylating) activity, pyridoxal phosphate binding, catalytic activity;P:glycine catabolic process, glycine decarboxylation via glycine cleavage system;C:mitochondrion, apoplast, glycine cleavage complex, chloroplast, chloroplast envelope;OBFAMP	O.I.	H.G.	S.X.
0.41	52.4	0.88	At1g55480	841995	binding / protein binding	F:protein binding, binding;P:unknown;C:chloroplast thylakoid membrane, chloroplast stroma, chloroplast, chloroplast envelope;PBOMF	O.I.	H.G.	S.X.
0.41	52.4	0.90	At1g14150	837974	oxygen evolving enhancer 3 (PsbQ) family protein	F:calcium ion binding;P:photosynthesis;C:chloroplast thylakoid membrane, chloroplast photosystem II, chloroplast thylakoid lumen, chloroplast;P	O.I.	H.G.	S.X.
0.41	52.4	0.89	At1g56500	842103	haloacid dehalogenase-like hydrolase family protein	F:hydrolase activity, oxidoreductase activity, catalytic activity;P:metabolic process, cell redox homeostasis;C:chloroplast, chloroplast stroma;BOMPAFV	O.I.	H.G.	S.X.
0.39	48.4	0.89	At3g54050	824572	fructose-1,6-bisphosphatase, putative / D-fructose-1,6-bisphosphate 1-phosphohydrolase, putative / FBPase, putative	F:fructose 1,6-bisphosphate 1-phosphatase activity, phosphoric ester hydrolase activity;P:response to cold, fructose metabolic process;C:apoplast, stromule, chloroplast stroma, chloroplast;BOMPFA	O.I.	H.G.	S.X.
0.39	48.4	0.88	At4g17360	827448	formyltetrahydrofolate deformylase/ hydroxymethyl-, formyl- and related transferase/ methyltransferase	encodes one of the two putative formyltetrahydrofolate deformylase. Located in the mitochondrion. Involved in photorespiratory tetrahydrofolate cycle.	O.I.	H.G.	S.X.
0.39	48.4	0.90	At3g01440	821143	oxygen evolving enhancer 3 (PsbQ) family protein	F:calcium ion binding;P:photosynthesis, light reaction;C:chloroplast thylakoid membrane, chloroplast photosystem II, chloroplast thylakoid lumen, chloroplast, oxygen evolving complex;P	O.I.	H.G.	S.X.
0.38	46.7	0.91	At1g49380	841361	cytochrome c biogenesis protein family	F:molecular_function unknown;P:cytochrome complex assembly;C:chloroplast;BOPM	O.I.	H.G.	S.X.
0.37	45.0	0.88	At1g62750	842573	SCO1 (SNOWY COTYLEDON 1)	Nuclear encoded protein consists of the five domains conserved in EF-G proteins, with two GTP-binding sites in the first domain, and an additional transit peptide at the N-terminus. Localized in chloroplasts. Point mutation results in a delay in the onset of germination. At early developmental stage embryos still contain undifferentiated proplastids. The greening of cotyledons is severely impaired in light-grown mutant sco1 seedlings, whereas the following true leaves develop normally as in wild-type plants.	O.I.	H.G.	S.X.
0.37	45.0	0.89	At1g09340	837455	CRB (CHLOROPLAST RNA BINDING)	Encodes CHLOROPLAST RNA BINDING (CRB), a putative RNA-binding protein. CRB is important for the proper functioning of the chloroplast. Mutations in CRB also affects the circadian system, altering the expression of both oscillator and output genes.	O.I.	H.G.	S.X.
0.36	43.6	0.88	At5g19220	832042	APL1 (ADP GLUCOSE PYROPHOSPHORYLASE LARGE SUBUNIT 1)	Encodes the large subunit of ADP-glucose pyrophosphorylase which catalyzes the first, rate limiting step in starch biosynthesis. The large subunit plays a regulatory role whereas the small subunit (ApS) is the catalytic isoform. Four isoforms (ApL1-4) have been identified. ApL1 is the major large subunit isoform present in leaves. Mutational analysis of APS1 suggests that APL1 and APL2 can compensate for loss of APS1 catalytic activity,suggesting both have catalytic as well as regulatory functions.	O.I.	H.G.	S.X.
0.36	43.6	0.88	At1g19150	838498	LHCA6	PSI type II chlorophyll a/b-binding protein (Lhca2*1) mRNA,	O.I.	H.G.	S.X.
0.33	38.1	0.88	At3g55800	824746	SBPASE (sedoheptulose-bisphosphatase)	Encodes the chloroplast enzyme sedoheptulose-1,7-bisphosphatase (SBPase), involved in the carbon reduction of the Calvin cycle. Increase in SBPase activity in transgenic lines accumulate up to 50% more sucrose and starch than wild-type.	O.I.	H.G.	S.X.
0.27	26.2	0.88	At1g79510	844289	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;BPMO	O.I.	H.G.	S.X.
0.26	24.4	0.87	At1g11860	837733	aminomethyltransferase, putative	F:aminomethyltransferase activity;P:response to cadmium ion;C:in 6 components;OBMFAP	O.I.	H.G.	S.X.
0.26	24.4	0.89	At2g30390	817589	FC2 (FERROCHELATASE 2)	Encodes one of two ferrochelatase genes in Arabidopsis. Ferrochelatase is the terminal enzyme of heme biosynthesis. FC-II is speculated to operate in photosynthetic cytochromes	O.I.	H.G.	S.X.
0.25	22.6	0.88	At5g53580	835440	aldo/keto reductase family protein	F:oxidoreductase activity, aldo-keto reductase activity;P:oxidation reduction;C:chloroplast;BOMFPA	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
98.5 99.9 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
82.9 99.9 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
82.2 99.9 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
75.1 99.9 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
74.7 99.9 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
62.7 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
58.0 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
53.3 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
52.0 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
51.9 99.8 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
50.0 99.8 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
49.9 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.1 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.1 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.9 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
47.8 99.8 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
47.3 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
47.2 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
47.2 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
46.8 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
45.4 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
43.3 99.8 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.0 99.8 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.6 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.9 99.7 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
21.3 99.6 GSM311286 Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
20.1 99.6 GSM311285 Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
19.4 99.6 E-MEXP-509-raw-cel-829148666
19.1 99.6 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.5 99.5 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
15.3 99.4 GSM311281 Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
13.4 99.4 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
13.1 99.4 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
12.2 99.3 GSM311282 Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
11.6 99.3 E-ATMX-31-raw-cel-1516947916
11.4 99.3 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
9.9 99.1 GSM311284 Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
9.8 99.1 GSM311283 Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
9.2 99.1 GSM154505 Arabidopsis hydrated pollen grains rep1 GSE6696 Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
98.5	99.9	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
82.9	99.9	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
82.2	99.9	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
75.1	99.9	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
74.7	99.9	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
62.7	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
58.0	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
53.3	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
52.0	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
51.9	99.8	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
50.0	99.8	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
49.9	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.1	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
49.1	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
48.9	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
47.8	99.8	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
47.3	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
47.2	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
47.2	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
46.8	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
45.4	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
43.3	99.8	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.0	99.8	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.6	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.9	99.7	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
21.3	99.6	GSM311286	Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
20.1	99.6	GSM311285	Laser capture microdissected (LCM) whole seed sections at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
19.4	99.6	E-MEXP-509-raw-cel-829148666
19.1	99.6	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.5	99.5	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
15.3	99.4	GSM311281	Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
13.4	99.4	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
13.1	99.4	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
12.2	99.3	GSM311282	Laser capture microdissected (LCM) chalazal seed coat at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
11.6	99.3	E-ATMX-31-raw-cel-1516947916
11.4	99.3	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
9.9	99.1	GSM311284	Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
9.8	99.1	GSM311283	Laser capture microdissected (LCM) general seed coat at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
9.2	99.1	GSM154505	Arabidopsis hydrated pollen grains rep1	GSE6696	Transcriptome analyses show changes in gene expression to accompany pollen germination and tube growth in Arabidopsis

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.080 2 GO:0009773 Electrons move from the primary electron acceptor (Quinone, X) through a chain of electron transport molecules in the thylakoid membrane until they reach ferredoxin which passes the electron to the ultimate electron acceptor; NADP.
0.059 2 GO:0006364 Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
0.056 3 GO:0015979 The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds.

SF	Genes	GO ID	Process Name
0.080	2	GO:0009773	Electrons move from the primary electron acceptor (Quinone, X) through a chain of electron transport molecules in the thylakoid membrane until they reach ferredoxin which passes the electron to the ultimate electron acceptor; NADP.
0.059	2	GO:0006364	Any process involved in the conversion of a primary ribosomal RNA (rRNA) transcript into one or more mature rRNA molecules.
0.056	3	GO:0015979	The synthesis by organisms of organic chemical compounds, especially carbohydrates, from carbon dioxide (CO2) using energy obtained from light rather than from the oxidation of chemical compounds.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.075 3 00260 Glycine, serine and threonine metabolism
0.075 2 00670 One carbon pool by folate
0.037 2 00195 Photosynthesis

SF	Genes	KEGG ID	Pathway name
0.075	3	00260	Glycine, serine and threonine metabolism
0.075	2	00670	One carbon pool by folate
0.037	2	00195	Photosynthesis

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	At4g12830
Gene name	hydrolase, alpha/beta fold family protein
Module size	36 genes
NF	0.43
%ile	60.2

Co-expression analysis

Gene ID At4g12830 Gene name hydrolase, alpha/beta fold family protein Module size 36 genes NF 0.43 %ile 60.2

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 KEGG0.075300260Glycine, serine and threonine metabolism0.075200670One carbon pool by folate0.037200195Photosynthesis

Inter-species module comparison

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

Gene ID At4g12830

Gene name hydrolase, alpha/beta fold family protein

Module size 36 genes

NF 0.43

%ile 60.2

: 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
0.075 3 00260 Glycine, serine and threonine metabolism
0.075 2 00670 One carbon pool by folate
0.037 2 00195 Photosynthesis

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