CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At5g01560

Gene name LECRKA4.3 (LECTIN RECEPTOR KINASE A4.3)

Module size 23 genes

NF 0.67

%ile 87.0

Co-expression network

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

Co-expressed genes

Click gene/probe ID to show a list of genes that are co-expressed with the gene.

VF %ile CC Gene ID Repr. ID Gene name Func. O.I. H.G. S.X. Other DB
0.73 85.5 1.00 At5g01560 830345 LECRKA4.3 (LECTIN RECEPTOR KINASE A4.3) Encodes LecRKA4.3, a member of the lectin receptor kinase subfamily A4 (LecRKA4.1 At5g01540; LecRKA4.2 At5g01550; LecRKA4.3 At5g01560). Together with other members of the subfamily, functions redundantly in the negative regulation of ABA response in seed germination. O.I. H.G. S.X.
0.85 92.4 0.86 At2g37430 818319 zinc finger (C2H2 type) family protein (ZAT11) F:transcription factor activity, zinc ion binding, nucleic acid binding;P:response to chitin, regulation of transcription;C:intracellular;MPOF O.I. H.G. S.X.
0.79 89.1 0.85 At1g14540 838016 anionic peroxidase, putative F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOBM O.I. H.G. S.X.
0.79 89.1 0.87 At2g27310 817274 F-box family protein F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P O.I. H.G. S.X.
0.77 88.0 0.82 At1g69930 843329 ATGSTU11 (GLUTATHIONE S-TRANSFERASE TAU 11) Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002). O.I. H.G. S.X.
0.76 87.4 0.85 At5g24110 832476 WRKY30 member of WRKY Transcription Factor; Group III O.I. H.G. S.X.
0.76 87.4 0.84 At2g32140 817773 transmembrane receptor F:transmembrane receptor activity;P:signal transduction, defense response, innate immune response;C:intrinsic to membrane, chloroplast;PBO O.I. H.G. S.X.
0.75 86.9 0.83 At1g30370 839917 lipase class 3 family protein F:triacylglycerol lipase activity;P:lipid metabolic process;C:unknown;PBOFMV O.I. H.G. S.X.
0.72 84.8 0.85 At3g23220 821900 DNA binding / transcription factor encodes a member of the ERF (ethylene response factor) subfamily B-3 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 18 members in this subfamily including ATERF-1, ATERF-2, AND ATERF-5. O.I. H.G. S.X.
0.68 82.2 0.85 At2g22760 816806 basic helix-loop-helix (bHLH) family protein F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PFOMA O.I. H.G. S.X.
0.68 82.2 0.82 At5g12340 831109 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;P O.I. H.G. S.X.
0.67 81.6 0.89 At5g05300 830412 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.65 79.6 0.80 At5g42380 834244 CML37 (CALMODULIN LIKE 37) F:calcium ion binding;P:response to ozone;C:chloroplast;MPOFBV O.I. H.G. S.X.
0.65 79.6 0.80 At1g22810 838887 AP2 domain-containing transcription factor, putative encodes a member of the DREB subfamily A-5 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 16 members in this subfamily including RAP2.1, RAP2.9 and RAP2.10. O.I. H.G. S.X.
0.64 78.9 0.84 At2g23270 816859 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.62 77.3 0.82 At2g44840 819093 ERF13 (ETHYLENE-RESPONSIVE ELEMENT BINDING FACTOR 13) encodes a member of the ERF (ethylene response factor) subfamily B-3 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 18 members in this subfamily including ATERF-1, ATERF-2, AND ATERF-5. O.I. H.G. S.X.
0.61 76.7 0.79 At3g50930 824257 BCS1 (CYTOCHROME BC1 SYNTHESIS) F:nucleoside-triphosphatase activity, ATPase activity, nucleotide binding, ATP binding;P:unknown;C:mitochondrion, plastid;BOMFPAV O.I. H.G. S.X.
0.61 76.7 0.79 At5g51190 835193 AP2 domain-containing transcription factor, putative encodes a member of the ERF (ethylene response factor) subfamily B-3 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 18 members in this subfamily including ATERF-1, ATERF-2, AND ATERF-5. O.I. H.G. S.X.
0.60 75.7 0.81 At1g35210 840410 unknown protein F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PO O.I. H.G. S.X.
0.59 74.7 0.78 At5g52050 835280 MATE efflux protein-related F:drug transporter activity, antiporter activity;P:multidrug transport;C:membrane;BOPFAM O.I. H.G. S.X.
0.59 74.7 0.81 At2g32030 817763 GCN5-related N-acetyltransferase (GNAT) family protein F:N-acetyltransferase activity;P:metabolic process;C:cellular_component unknown;BOFPAVM O.I. H.G. S.X.
0.55 70.6 0.83 At5g66620 836794 DAR6 (DA1-RELATED PROTEIN 6) F:zinc ion binding;P:unknown;C:unknown;MOBFPVA O.I. H.G. S.X.
0.52 67.4 0.83 At5g61900 836311 BON1 (BONZAI 1) Encodes a plasma-membrane localized, copine-like protein, which is a member of a newly identified class of calcium-dependent, phospholipid binding proteins that are present in a wide range of organisms. Mutants exhibit temperature-sensitive growth defects and increased hypersensitive response where permissive conditions are low temperature (22 degrees Celsius) and low humidity. Gene is expressed at 22 but not at 28 (restrictive condition) degrees. Lethality of double mutants with BON3 can be partially suppressed by SNC1. Double mutants show defects in development that are genetically separable from hypersensitive/cell death response. O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	O.I.	H.G.	S.X.
0.73	85.5	1.00	At5g01560	830345	LECRKA4.3 (LECTIN RECEPTOR KINASE A4.3)	Encodes LecRKA4.3, a member of the lectin receptor kinase subfamily A4 (LecRKA4.1 At5g01540; LecRKA4.2 At5g01550; LecRKA4.3 At5g01560). Together with other members of the subfamily, functions redundantly in the negative regulation of ABA response in seed germination.	O.I.	H.G.	S.X.
0.85	92.4	0.86	At2g37430	818319	zinc finger (C2H2 type) family protein (ZAT11)	F:transcription factor activity, zinc ion binding, nucleic acid binding;P:response to chitin, regulation of transcription;C:intracellular;MPOF	O.I.	H.G.	S.X.
0.79	89.1	0.85	At1g14540	838016	anionic peroxidase, putative	F:electron carrier activity, peroxidase activity, heme binding;P:response to oxidative stress;C:endomembrane system;PFOBM	O.I.	H.G.	S.X.
0.79	89.1	0.87	At2g27310	817274	F-box family protein	F:molecular_function unknown;P:biological_process unknown;C:cellular_component unknown;P	O.I.	H.G.	S.X.
0.77	88.0	0.82	At1g69930	843329	ATGSTU11 (GLUTATHIONE S-TRANSFERASE TAU 11)	Encodes glutathione transferase belonging to the tau class of GSTs. Naming convention according to Wagner et al. (2002).	O.I.	H.G.	S.X.
0.76	87.4	0.85	At5g24110	832476	WRKY30	member of WRKY Transcription Factor; Group III	O.I.	H.G.	S.X.
0.76	87.4	0.84	At2g32140	817773	transmembrane receptor	F:transmembrane receptor activity;P:signal transduction, defense response, innate immune response;C:intrinsic to membrane, chloroplast;PBO	O.I.	H.G.	S.X.
0.75	86.9	0.83	At1g30370	839917	lipase class 3 family protein	F:triacylglycerol lipase activity;P:lipid metabolic process;C:unknown;PBOFMV	O.I.	H.G.	S.X.
0.72	84.8	0.85	At3g23220	821900	DNA binding / transcription factor	encodes a member of the ERF (ethylene response factor) subfamily B-3 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 18 members in this subfamily including ATERF-1, ATERF-2, AND ATERF-5.	O.I.	H.G.	S.X.
0.68	82.2	0.85	At2g22760	816806	basic helix-loop-helix (bHLH) family protein	F:transcription factor activity, DNA binding;P:regulation of transcription;C:nucleus;PFOMA	O.I.	H.G.	S.X.
0.68	82.2	0.82	At5g12340	831109	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;P	O.I.	H.G.	S.X.
0.67	81.6	0.89	At5g05300	830412	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.65	79.6	0.80	At5g42380	834244	CML37 (CALMODULIN LIKE 37)	F:calcium ion binding;P:response to ozone;C:chloroplast;MPOFBV	O.I.	H.G.	S.X.
0.65	79.6	0.80	At1g22810	838887	AP2 domain-containing transcription factor, putative	encodes a member of the DREB subfamily A-5 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 16 members in this subfamily including RAP2.1, RAP2.9 and RAP2.10.	O.I.	H.G.	S.X.
0.64	78.9	0.84	At2g23270	816859	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.62	77.3	0.82	At2g44840	819093	ERF13 (ETHYLENE-RESPONSIVE ELEMENT BINDING FACTOR 13)	encodes a member of the ERF (ethylene response factor) subfamily B-3 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 18 members in this subfamily including ATERF-1, ATERF-2, AND ATERF-5.	O.I.	H.G.	S.X.
0.61	76.7	0.79	At3g50930	824257	BCS1 (CYTOCHROME BC1 SYNTHESIS)	F:nucleoside-triphosphatase activity, ATPase activity, nucleotide binding, ATP binding;P:unknown;C:mitochondrion, plastid;BOMFPAV	O.I.	H.G.	S.X.
0.61	76.7	0.79	At5g51190	835193	AP2 domain-containing transcription factor, putative	encodes a member of the ERF (ethylene response factor) subfamily B-3 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 18 members in this subfamily including ATERF-1, ATERF-2, AND ATERF-5.	O.I.	H.G.	S.X.
0.60	75.7	0.81	At1g35210	840410	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:chloroplast;PO	O.I.	H.G.	S.X.
0.59	74.7	0.78	At5g52050	835280	MATE efflux protein-related	F:drug transporter activity, antiporter activity;P:multidrug transport;C:membrane;BOPFAM	O.I.	H.G.	S.X.
0.59	74.7	0.81	At2g32030	817763	GCN5-related N-acetyltransferase (GNAT) family protein	F:N-acetyltransferase activity;P:metabolic process;C:cellular_component unknown;BOFPAVM	O.I.	H.G.	S.X.
0.55	70.6	0.83	At5g66620	836794	DAR6 (DA1-RELATED PROTEIN 6)	F:zinc ion binding;P:unknown;C:unknown;MOBFPVA	O.I.	H.G.	S.X.
0.52	67.4	0.83	At5g61900	836311	BON1 (BONZAI 1)	Encodes a plasma-membrane localized, copine-like protein, which is a member of a newly identified class of calcium-dependent, phospholipid binding proteins that are present in a wide range of organisms. Mutants exhibit temperature-sensitive growth defects and increased hypersensitive response where permissive conditions are low temperature (22 degrees Celsius) and low humidity. Gene is expressed at 22 but not at 28 (restrictive condition) degrees. Lethality of double mutants with BON3 can be partially suppressed by SNC1. Double mutants show defects in development that are genetically separable from hypersensitive/cell death response.	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
85.2 99.9 GSM205426 met1-3_leaf_second-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
77.7 99.9 GSM205428 met1-3_leaf_fourth-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
77.3 99.9 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
75.2 99.9 GSM205364 met1-3_leaf_second-selfed generation_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
75.2 99.9 GSM205430 met1-3_leaf_fourth-selfed generation_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
67.9 99.9 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
61.6 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
45.3 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
43.8 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
42.6 99.8 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
41.5 99.8 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
41.5 99.8 GSM133755 Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
40.9 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.8 99.8 GSM205432 Col_ leaf_ wildtype_rep01 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
39.2 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.0 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.5 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.3 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.1 99.7 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
35.8 99.7 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
35.8 99.7 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
35.6 99.7 GSM311289 Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 1 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
35.5 99.7 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
34.0 99.7 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
33.9 99.7 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.7 99.7 GSM311290 Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
32.2 99.7 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.7 99.7 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
31.6 99.7 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
31.0 99.7 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
30.7 99.7 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.5 99.7 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
18.6 99.5 GSM142624 MC002_ATH1_A1.2-dubos-wtx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
18.2 99.5 GSM142625 MC002_ATH1_A1.3-dubos-wtx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
16.5 99.5 GSM184539 Whole roots 2hr KCl control treated then frozen, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
15.5 99.5 GSM142641 MC002_ATH1_A7.1-dubos-wLh GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
15.1 99.4 GSM218590 Protoplasted root cells 2hr transitory KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
14.8 99.4 GSM133766 Lindsey_1-18_torpedo-root_Rep3_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
14.6 99.4 GSM142750 MJ001_ATH1_A1-jones-WT1 GSE6165 The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.
13.2 99.4 GSM142643 MC002_ATH1_A7.3-dubos-wLh GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
12.5 99.3 GSM142631 MC002_ATH1_A3.3-dubos-6kx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
12.5 99.3 GSM133776 Lindsey_1-1_globular-apical_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
12.4 99.3 GSM142751 MJ001_ATH1_A2-jones-WT2 GSE6165 The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.
11.9 99.3 GSM142642 MC002_ATH1_A7.2-dubos-wLh GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
11.6 99.3 E-MEXP-849-raw-cel-1181980982
11.5 99.3 GSM133303 RIKEN-NAKABAYASHI1A GSE5700 AtGenExpress: Effect of ABA during seed imbibition
11.4 99.3 GSM142644 MC002_ATH1_A8.1-dubos-aih GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
11.1 99.2 GSM133779 Lindsey_1-5_globular-basal_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.5 99.2 GSM284387 Arabidopsis GSUS4b GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
10.2 99.2 GSM131705 ATGE_83_C GSE5634 AtGenExpress: Developmental series (siliques and seeds)
10.0 99.2 GSM131706 ATGE_84_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
9.8 99.1 GSM131703 ATGE_83_A GSE5634 AtGenExpress: Developmental series (siliques and seeds)
9.4 99.1 GSM311273 Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 1 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
9.2 99.1 GSM284384 Arabidopsis GEP5 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
9.1 99.1 GSM184533 Protoplasted root cells 2hr KCl control treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.1 99.1 GSM142648 MC002_ATH1_A9.2-dubos-aah GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.1 99.1 GSM311274 Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 2 GSE12402 Expression data from Arabidopsis seed compartments at the pre-globular stage
8.9 99.0 GSM142754 MJ001_ATH1_A5-jones-WT-Rep3 GSE6165 The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.
8.9 99.0 GSM184517 Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
8.7 99.0 GSM142649 MC002_ATH1_A9.3-dubos-aah GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
8.7 99.0 GSM131695 ATGE_79_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
8.7 99.0 GSM131707 ATGE_84_B GSE5634 AtGenExpress: Developmental series (siliques and seeds)
8.6 99.0 GSM142630 MC002_ATH1_A3.2-dubos-6kx GSE6151 The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
85.2	99.9	GSM205426	met1-3_leaf_second-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
77.7	99.9	GSM205428	met1-3_leaf_fourth-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
77.3	99.9	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
75.2	99.9	GSM205364	met1-3_leaf_second-selfed generation_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
75.2	99.9	GSM205430	met1-3_leaf_fourth-selfed generation_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
67.9	99.9	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
61.6	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
45.3	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
43.8	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
42.6	99.8	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
41.5	99.8	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
41.5	99.8	GSM133755	Lindsey_1-7_heart-stage-cotyledon_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
40.9	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.8	99.8	GSM205432	Col_ leaf_ wildtype_rep01	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
39.2	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
39.0	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.5	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.3	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.1	99.7	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
35.8	99.7	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
35.8	99.7	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
35.6	99.7	GSM311289	Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
35.5	99.7	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
34.0	99.7	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
33.9	99.7	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
32.7	99.7	GSM311290	Laser capture microdissected (LCM) cellularized endosperm at the linear-cotyledon stage, biological replicate 2	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
32.2	99.7	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
31.7	99.7	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
31.6	99.7	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
31.0	99.7	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
30.7	99.7	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.5	99.7	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
18.6	99.5	GSM142624	MC002_ATH1_A1.2-dubos-wtx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
18.2	99.5	GSM142625	MC002_ATH1_A1.3-dubos-wtx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
16.5	99.5	GSM184539	Whole roots 2hr KCl control treated then frozen, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
15.5	99.5	GSM142641	MC002_ATH1_A7.1-dubos-wLh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
15.1	99.4	GSM218590	Protoplasted root cells 2hr transitory KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
14.8	99.4	GSM133766	Lindsey_1-18_torpedo-root_Rep3_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
14.6	99.4	GSM142750	MJ001_ATH1_A1-jones-WT1	GSE6165	The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.
13.2	99.4	GSM142643	MC002_ATH1_A7.3-dubos-wLh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
12.5	99.3	GSM142631	MC002_ATH1_A3.3-dubos-6kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
12.5	99.3	GSM133776	Lindsey_1-1_globular-apical_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
12.4	99.3	GSM142751	MJ001_ATH1_A2-jones-WT2	GSE6165	The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.
11.9	99.3	GSM142642	MC002_ATH1_A7.2-dubos-wLh	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
11.6	99.3	E-MEXP-849-raw-cel-1181980982
11.5	99.3	GSM133303	RIKEN-NAKABAYASHI1A	GSE5700	AtGenExpress: Effect of ABA during seed imbibition
11.4	99.3	GSM142644	MC002_ATH1_A8.1-dubos-aih	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
11.1	99.2	GSM133779	Lindsey_1-5_globular-basal_Rep2_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
10.5	99.2	GSM284387	Arabidopsis GSUS4b	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
10.2	99.2	GSM131705	ATGE_83_C	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
10.0	99.2	GSM131706	ATGE_84_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
9.8	99.1	GSM131703	ATGE_83_A	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
9.4	99.1	GSM311273	Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 1	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
9.2	99.1	GSM284384	Arabidopsis GEP5	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
9.1	99.1	GSM184533	Protoplasted root cells 2hr KCl control treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.1	99.1	GSM142648	MC002_ATH1_A9.2-dubos-aah	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
9.1	99.1	GSM311274	Laser capture microdissected (LCM) embryo proper at the pre-globular stage, biological replicate 2	GSE12402	Expression data from Arabidopsis seed compartments at the pre-globular stage
8.9	99.0	GSM142754	MJ001_ATH1_A5-jones-WT-Rep3	GSE6165	The effect of mutations in AtrbohC on the pattern of gene expression in primary root tissue.
8.9	99.0	GSM184517	Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
8.7	99.0	GSM142649	MC002_ATH1_A9.3-dubos-aah	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis
8.7	99.0	GSM131695	ATGE_79_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
8.7	99.0	GSM131707	ATGE_84_B	GSE5634	AtGenExpress: Developmental series (siliques and seeds)
8.6	99.0	GSM142630	MC002_ATH1_A3.2-dubos-6kx	GSE6151	The mechanisms involved in the interplay between dormancy and secondary growth in Arabidopsis

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.080 1 GO:0009270 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 humidity stimulus, moisture in the atmosphere.
0.080 1 GO:0010186 Any process that activates or increases the frequency, rate or extent of cellular defense response.
0.080 1 GO:0060548 Any process that decreases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death.

SF	Genes	GO ID	Process Name
0.080	1	GO:0009270	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 humidity stimulus, moisture in the atmosphere.
0.080	1	GO:0010186	Any process that activates or increases the frequency, rate or extent of cellular defense response.
0.080	1	GO:0060548	Any process that decreases the rate or frequency of cell death. Cell death is the specific activation or halting of processes within a cell so that its vital functions markedly cease, rather than simply deteriorating gradually over time, which culminates in cell death.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.019 1 00360 Phenylalanine metabolism
0.019 1 00680 Methane metabolism
0.016 1 00940 Phenylpropanoid biosynthesis

SF	Genes	KEGG ID	Pathway name
0.019	1	00360	Phenylalanine metabolism
0.019	1	00680	Methane metabolism
0.016	1	00940	Phenylpropanoid biosynthesis

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	At5g01560
Gene name	LECRKA4.3 (LECTIN RECEPTOR KINASE A4.3)
Module size	23 genes
NF	0.67
%ile	87.0

Co-expression analysis

Gene ID At5g01560 Gene name LECRKA4.3 (LECTIN RECEPTOR KINASE A4.3) Module size 23 genes NF 0.67 %ile 87.0

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 KEGG0.019100360Phenylalanine metabolism0.019100680Methane metabolism0.016100940Phenylpropanoid biosynthesis

Inter-species module comparison

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

Gene ID At5g01560

Gene name LECRKA4.3 (LECTIN RECEPTOR KINASE A4.3)

Module size 23 genes

NF 0.67

%ile 87.0

: 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
0.019 1 00360 Phenylalanine metabolism
0.019 1 00680 Methane metabolism
0.016 1 00940 Phenylpropanoid biosynthesis

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