CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Contig4563_at

Gene name
Homology with Arabidopsis Similar to At3g17240: mtLPD2 (LIPOAMIDE DEHYDROGENASE 2) (HF=5e-15)

Module size 6 genes

NF 0.66

%ile 88.0

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. Ev AGI code Arabidopsis gene name O.I. H.G. S.X. Other DB
0.91 98.1 0.98 Contig4563_at Contig4563 - - 5e-15 At3g17240 mtLPD2 (LIPOAMIDE DEHYDROGENASE 2) O.I. H.G. S.X.
0.77 90.8 0.97 Contig2826_s_at Contig2826 - - 1e-21 At3g44110 ATJ3 O.I. H.G. S.X.
0.67 84.7 0.97 Contig4302_at Contig4302 - - 8e-2 At5g48640 cyclin family protein O.I. H.G. S.X.
0.67 84.7 0.98 Contig2986_at Contig2986 - - 1e-39 At3g28710 H+-transporting two-sector ATPase, putative O.I. H.G. S.X.
0.46 61.0 0.97 Contig5778_at Contig5778 - - 2e-10 At4g22260 IM (IMMUTANS) O.I. H.G. S.X.
0.38 49.5 0.97 Contig3961_at Contig3961 - - 1e+0 At3g29560 unknown protein O.I. H.G. S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	Ev	AGI code	Arabidopsis gene name	O.I.	H.G.	S.X.
0.91	98.1	0.98	Contig4563_at	Contig4563	-	-	5e-15	At3g17240	mtLPD2 (LIPOAMIDE DEHYDROGENASE 2)	O.I.	H.G.	S.X.
0.77	90.8	0.97	Contig2826_s_at	Contig2826	-	-	1e-21	At3g44110	ATJ3	O.I.	H.G.	S.X.
0.67	84.7	0.97	Contig4302_at	Contig4302	-	-	8e-2	At5g48640	cyclin family protein	O.I.	H.G.	S.X.
0.67	84.7	0.98	Contig2986_at	Contig2986	-	-	1e-39	At3g28710	H+-transporting two-sector ATPase, putative	O.I.	H.G.	S.X.
0.46	61.0	0.97	Contig5778_at	Contig5778	-	-	2e-10	At4g22260	IM (IMMUTANS)	O.I.	H.G.	S.X.
0.38	49.5	0.97	Contig3961_at	Contig3961	-	-	1e+0	At3g29560	unknown protein	O.I.	H.G.	S.X.

VF	%ile	CC	Gene ID	Repr. ID	Gene name	Func.	Ev	AGI code	Arabidopsis gene name	O.I.	H.G.	S.X.
0.83	94.0	0.96	Contig6484_at	Contig6484	-	-	2e-1	At3g04060	anac046 (Arabidopsis NAC domain containing protein 46)	O.I.	H.G.	S.X.
0.80	92.5	0.97	Contig4880_x_at	Contig4880	-	-	2e-20	At1g61800	GPT2	O.I.	H.G.	S.X.
0.67	84.7	0.96	Contig8706_at	Contig8706	-	-	5e-4	At4g32400	SHS1 (SODIUM HYPERSENSITIVE 1)	O.I.	H.G.	S.X.
0.67	84.7	0.97	Contig3794_at	Contig3794	-	-	7e-31	At1g16890	ubiquitin-conjugating enzyme, putative	O.I.	H.G.	S.X.
0.63	80.3	0.96	Contig4656_at	Contig4656	-	-	1e-3	At5g60570	kelch repeat-containing F-box family protein	O.I.	H.G.	S.X.
0.61	78.7	0.96	Contig6012_at	Contig6012	-	-	6e-16	At3g62580	-	O.I.	H.G.	S.X.
0.59	75.8	0.95	Contig410_at	Contig410	-	-	2e-26	At3g52930	fructose-bisphosphate aldolase, putative	O.I.	H.G.	S.X.
0.59	75.8	0.95	Contig26614_at	Contig26614	-	-	3e+0	At5g04347	-	O.I.	H.G.	S.X.
0.59	75.8	0.96	Contig5246_s_at	Contig5246	-	-	3e-13	At1g22450	COX6B (CYTOCHROME C OXIDASE 6B)	O.I.	H.G.	S.X.
0.55	72.0	0.96	Contig2943_s_at	Contig2943	-	-	8e-28	At3g52880	monodehydroascorbate reductase, putative	O.I.	H.G.	S.X.
0.50	66.9	0.97	Contig4574_at	Contig4574	-	-	7e+0	At5g24155	squalene monooxygenase, putative / squalene epoxidase, putative	O.I.	H.G.	S.X.
0.48	63.2	0.96	Contig5248_s_at	Contig5248	-	-	4e+0	At5g34882	-	O.I.	H.G.	S.X.
0.48	63.2	0.96	Contig5995_at	Contig5995	-	-	2e+0	At3g12160	RABA4D (RAB GTPASE HOMOLOG A4D)	O.I.	H.G.	S.X.
0.47	62.2	0.93	Contig8969_at	Contig8969	-	-	1e+0	At4g33560	unknown protein	O.I.	H.G.	S.X.
0.46	61.0	0.93	Contig17425_at	Contig17425	-	-	4e-1	At1g58150	unknown protein	O.I.	H.G.	S.X.
0.46	61.0	0.94	Contig3010_s_at	Contig3010	-	-	7e-2	At3g46830	ATRABA2C (ARABIDOPSIS RAB GTPASE HOMOLOG A2C)	O.I.	H.G.	S.X.
0.46	61.0	0.95	Contig8739_at	Contig8739	-	-	3e-6	At3g16150	L-asparaginase, putative / L-asparagine amidohydrolase, putative	O.I.	H.G.	S.X.
0.46	61.0	0.96	Contig3102_at	Contig3102	-	-	2e-13	At5g66510	GAMMA CA3 (GAMMA CARBONIC ANHYDRASE 3)	O.I.	H.G.	S.X.
0.44	58.9	0.94	Contig480_at	Contig480	-	-	1e+0	At4g15710	unknown protein	O.I.	H.G.	S.X.
0.44	58.9	0.96	Contig7620_at	Contig7620	-	-	1e-11	At2g01060	myb family transcription factor	O.I.	H.G.	S.X.
0.43	56.4	0.95	Contig7818_s_at	Contig7818	-	-	2e-2	At5g02502	unknown protein	O.I.	H.G.	S.X.
0.42	55.2	0.93	Contig11917_at	Contig11917	-	-	4e-1	At4g05497	F-box family protein	O.I.	H.G.	S.X.
0.41	53.9	0.95	Contig4880_at	Contig4880	-	-	2e-20	At1g61800	GPT2	O.I.	H.G.	S.X.
0.40	53.1	0.96	Contig3294_s_at	Contig3294	-	-	5e-4	At5g02780	In2-1 protein, putative	O.I.	H.G.	S.X.
0.40	53.1	0.97	rbags18j12_s_at	rbags18j12	-	-	3e-6	At1g65980	TPX1 (thioredoxin-dependent peroxidase 1)	O.I.	H.G.	S.X.
0.40	53.1	0.97	Contig3563_at	Contig3563	-	-	2e+0	At5g54000	oxidoreductase, 2OG-Fe(II) oxygenase family protein	O.I.	H.G.	S.X.
0.39	50.5	0.97	Contig5417_at	Contig5417	-	-	4e+0	At5g47610	zinc finger (C3HC4-type RING finger) family protein	O.I.	H.G.	S.X.
0.38	49.5	0.96	Contig3193_at	Contig3193	-	-	7e-15	At4g32470	ubiquinol-cytochrome C reductase complex 14 kDa protein, putative	O.I.	H.G.	S.X.
0.38	49.5	0.96	Contig5206_s_at	Contig5206	-	-	5e-6	At5g07390	ATRBOHA (respiratory burst oxidase homolog A)	O.I.	H.G.	S.X.
0.37	47.9	0.96	Contig6213_at	Contig6213	-	-	8e-4	At1g05850	POM1 (POM-POM1)	O.I.	H.G.	S.X.
0.36	47.1	0.94	Contig16541_at	Contig16541	-	-	5e+0	At1g25682	cell cycle control protein-related	O.I.	H.G.	S.X.
0.36	47.1	0.96	Contig9320_at	Contig9320	-	-	2e-1	At4g03940	unknown protein	O.I.	H.G.	S.X.
0.36	47.1	0.96	Contig7705_at	Contig7705	-	-	1e-11	At3g29200	CM1 (CHORISMATE MUTASE 1)	O.I.	H.G.	S.X.
0.36	47.1	0.96	Contig4700_at	Contig4700	-	-	1e-12	At4g01050	hydroxyproline-rich glycoprotein family protein	O.I.	H.G.	S.X.
0.36	47.1	0.98	Contig3118_at	Contig3118	-	-	3e-68	At3g27240	cytochrome c1, putative	O.I.	H.G.	S.X.
0.35	45.1	0.92	HA06g08r_s_at	HA06g08r	-	-	8e-7	At5g04750	F1F0-ATPase inhibitor protein, putative	O.I.	H.G.	S.X.
0.34	43.6	0.96	Contig5724_at	Contig5724	-	-	4e-12	At1g06570	PDS1 (PHYTOENE DESATURATION 1)	O.I.	H.G.	S.X.
0.33	42.6	0.92	Contig13001_at	Contig13001	-	-	2e+0	At3g26510	octicosapeptide/Phox/Bem1p (PB1) domain-containing protein	O.I.	H.G.	S.X.
0.33	42.6	0.94	Contig5767_at	Contig5767	-	-	1e-11	At5g10780	-	O.I.	H.G.	S.X.
0.33	42.6	0.95	Contig8286_at	Contig8286	-	-	3e-2	At3g19010	oxidoreductase, 2OG-Fe(II) oxygenase family protein	O.I.	H.G.	S.X.
0.33	42.6	0.95	Contig16303_at	Contig16303	-	-	2e+0	Atmg01250	-	O.I.	H.G.	S.X.
0.33	42.6	0.96	Contig2909_s_at	Contig2909	-	-	7e-1	At3g18295	unknown protein	O.I.	H.G.	S.X.
0.33	42.6	0.96	Contig3205_at	Contig3205	-	-	3e-7	At4g14710	acireductone dioxygenase [iron(II)-requiring]/ metal ion binding	O.I.	H.G.	S.X.
0.33	42.6	0.96	Contig4268_s_at	Contig4268	-	-	3e-49	At5g23250	succinyl-CoA ligase (GDP-forming) alpha-chain, mitochondrial, putative / succinyl-CoA synthetase, alpha chain, putative / SCS-alpha, putative	O.I.	H.G.	S.X.
0.33	42.6	0.96	Contig3526_at	Contig3526	-	-	1e-3	At1g11910	aspartyl protease family protein	O.I.	H.G.	S.X.
0.33	42.6	0.96	Contig3878_at	Contig3878	-	-	9e-6	At5g59890	ADF4 (ACTIN DEPOLYMERIZING FACTOR 4)	O.I.	H.G.	S.X.
0.32	40.3	0.97	Contig3668_at	Contig3668	-	-	5e-1	At5g02030	RPL (REPLUMLESS)	O.I.	H.G.	S.X.
0.32	40.3	0.96	EBma04_SQ003_K13_s_at	EBma04_SQ003_K13	-	-	2e+0	At3g60520	unknown protein	O.I.	H.G.	S.X.
0.31	38.6	0.95	Contig25265_at	Contig25265	-	-	1e+0	At3g23230	ethylene-responsive factor, putative	O.I.	H.G.	S.X.
0.31	38.6	0.95	Contig13281_at	Contig13281	-	-	7e-1	At5g52650	40S ribosomal protein S10 (RPS10C)	O.I.	H.G.	S.X.

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
2.3 90.9 GSM382233 Root_Hg2 GSE15295 Mercury toxicity in barley roots
2.1 89.7 GSM382234 Root_Hg3 GSE15295 Mercury toxicity in barley roots
2.1 89.7 GSM440966 Stressed palea_Rep1 GSE17669 Gene expression in the barley spike during drought stress
2.1 89.7 GSM161200 cold treatment rep1 GSE6993 Barley low temperature stress
2.0 89.0 GSM161221 cold treatment rep3 GSE6993 Barley low temperature stress
2.0 89.0 GSM130802 salinity stress, biological rep2 GSE5605 Expression data from barley under salinity stress and JA treatment
1.9 88.2 GSM261031 Dicktoo-control-rep2 GSE10329 Low temperature stress in cv. Dicktoo
1.9 88.2 GSM130799 control, biological rep1 GSE5605 Expression data from barley under salinity stress and JA treatment
1.8 87.4 GSM130801 salinity stress, biological rep1 GSE5605 Expression data from barley under salinity stress and JA treatment
1.8 87.4 GSM440962 Stressed lemma_Rep3 GSE17669 Gene expression in the barley spike during drought stress

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
2.3	90.9	GSM382233	Root_Hg2	GSE15295	Mercury toxicity in barley roots
2.1	89.7	GSM382234	Root_Hg3	GSE15295	Mercury toxicity in barley roots
2.1	89.7	GSM440966	Stressed palea_Rep1	GSE17669	Gene expression in the barley spike during drought stress
2.1	89.7	GSM161200	cold treatment rep1	GSE6993	Barley low temperature stress
2.0	89.0	GSM161221	cold treatment rep3	GSE6993	Barley low temperature stress
2.0	89.0	GSM130802	salinity stress, biological rep2	GSE5605	Expression data from barley under salinity stress and JA treatment
1.9	88.2	GSM261031	Dicktoo-control-rep2	GSE10329	Low temperature stress in cv. Dicktoo
1.9	88.2	GSM130799	control, biological rep1	GSE5605	Expression data from barley under salinity stress and JA treatment
1.8	87.4	GSM130801	salinity stress, biological rep1	GSE5605	Expression data from barley under salinity stress and JA treatment
1.8	87.4	GSM440962	Stressed lemma_Rep3	GSE17669	Gene expression in the barley spike during drought stress

Inter-species module comparison

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

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Gene ID	Contig4563_at
Gene name
Homology with Arabidopsis	Similar to At3g17240: mtLPD2 (LIPOAMIDE DEHYDROGENASE 2) (HF=5e-15)
Module size	6 genes
NF	0.66
%ile	88.0

Co-expression analysis

Gene ID Contig4563_at Gene name Homology with ArabidopsisSimilar to At3g17240: mtLPD2 (LIPOAMIDE DEHYDROGENASE 2) (HF=5e-15) Module size 6 genes NF 0.66 %ile 88.0

Co-expressed genes

Specific experiments for the module

Inter-species module comparison

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

Gene ID Contig4563_at

Gene name
Homology with Arabidopsis Similar to At3g17240: mtLPD2 (LIPOAMIDE DEHYDROGENASE 2) (HF=5e-15)

Module size 6 genes

NF 0.66

%ile 88.0

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