CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID Os01g0228400

Gene name
Homology with Arabidopsis Similar to At5g67580: TRB2 (HF=2e-2)

Module size 26 genes

NF 0.55

%ile 74.8

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
0.77 93.1 0.86 Os01g0228400 AK105248.1 - TPR-like domain containing protein 2e-2 At5g67580 TRB2 O.I. H.G. S.X.
0.80 94.6 0.90 Os07g0162100 9635.m00620 - 3-oxo-5-alpha-steroid 4-dehydrogenase, C-terminaldomain containing protein 2e+0 At5g42635 glycine-rich protein O.I. H.G. S.X.
0.71 89.6 0.93 Os10g0560400 AK109732.1 - CCT domain containing protein 1e-2 At3g26400 EIF4B1 O.I. H.G. S.X.
0.70 88.4 0.92 Os03g0228200 9631.m01196 - Conserved hypothetical protein 2e-2 At2g23790 unknown protein O.I. H.G. S.X.
0.69 87.9 0.90 Os01g0700100 AK059965.1 - MtN3 and saliva related transmembrane proteinfamily protein 4e-2 At3g53420 PIP2A (PLASMA MEMBRANE INTRINSIC PROTEIN 2A) O.I. H.G. S.X.
0.68 87.5 0.91 Os04g0578200 AK073300.1 - Conserved hypothetical protein 6e-1 At3g12977 DNA binding O.I. H.G. S.X.
0.68 87.5 0.90 Os01g0823600 CF305219 - Conserved hypothetical protein 1e+0 At5g06760 late embryogenesis abundant group 1 domain-containing protein / LEA group 1 domain-containing protein O.I. H.G. S.X.
0.67 87.2 0.92 Os09g0553900 AK099586.1 - - 2e+0 At5g59040 COPT3 O.I. H.G. S.X.
0.66 83.9 0.88 Os07g0425000 AK108531.1 - Conserved hypothetical protein 6e-1 At3g28740 CYP81D1 O.I. H.G. S.X.
0.64 83.4 0.91 Os03g0594900 AK069017.1 - Cytochrome P450 family protein 4e+0 At5g46030 unknown protein O.I. H.G. S.X.
0.60 79.7 0.94 Os01g0666600 CF325024 - Conserved hypothetical protein 5e+0 At3g58380 meprin and TRAF homology domain-containing protein / MATH domain-containing protein O.I. H.G. S.X.
0.60 79.7 0.89 Os12g0609500 AK071747.1 - Short-chain dehydrogenase/reductase SDR familyprotein 1e-8 At4g20760 short-chain dehydrogenase/reductase (SDR) family protein O.I. H.G. S.X.
0.58 77.0 0.86 Os01g0175700 CB624018 - HCO3-transporter domain containing protein 2e-5 At1g15460 BOR4 (REQUIRES HIGH BORON 4) O.I. H.G. S.X.
0.57 77.0 0.94 Os10g0573700 AK099409.1 - - 2e-4 At5g46800 BOU (A BOUT DE SOUFFLE) O.I. H.G. S.X.
0.55 73.7 0.94 Os01g0235100 CF297014 - Conserved hypothetical protein 2e+0 At5g23090 NF-YB13 (NUCLEAR FACTOR Y, SUBUNIT B13) O.I. H.G. S.X.
0.55 73.7 0.92 Os02g0705100 AK063491.1 - Epoxide hydrolase family protein 2e-1 At1g04445 zinc finger (C2H2 type) family protein O.I. H.G. S.X.
0.53 71.3 0.92 Os02g0704300 AK058932.1 - Hypothetical protein 3e-6 At5g35970 DNA-binding protein, putative O.I. H.G. S.X.
0.51 68.7 0.96 Os08g0566600 AK066210.1 - Conserved hypothetical protein 3e-2 At2g05620 PGR5 (proton gradient regulation 5) O.I. H.G. S.X.
0.51 68.7 0.93 Os12g0626400 AK063967.1 - Squalene/phytoene synthase family protein 7e-10 At5g17230 phytoene synthase (PSY) / geranylgeranyl-diphosphate geranylgeranyl transferase O.I. H.G. S.X.
0.46 60.9 0.93 Os06g0704700 AK120907.1 - Conserved hypothetical protein 1e-34 At1g16720 HCF173 (high chlorophyll fluorescence phenotype 173) O.I. H.G. S.X.
0.40 51.1 0.91 Os11g0621400 AK062468.1 - Hypothetical protein 1e+0 At4g34290 SWIB complex BAF60b domain-containing protein O.I. H.G. S.X.
0.40 51.1 0.92 Os04g0583000 AK065769.1 - TPR-like domain containing protein 7e-2 At4g02380 SAG21 (SENESCENCE-ASSOCIATED GENE 21) O.I. H.G. S.X.
0.37 45.0 0.90 Os03g0826200 AK121165.1 - Hypothetical protein 3e-1 At5g45870 Bet v I allergen family protein O.I. H.G. S.X.
0.37 45.0 0.91 Os05g0170900 CB679962 - Phosphate/phosphoenolpyruvate translocator 1e-1 At2g30766 unknown protein O.I. H.G. S.X.
0.32 36.3 0.94 Os01g0938100 CB680541 - Photosystem II protein PsbW, class I familyprotein 2e+0 At3g44950 glycine-rich protein O.I. H.G. S.X.
0.32 36.3 0.91 Os04g0507100 AK066402.1 - Conserved hypothetical protein 3e-3 At4g28740 - 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.
0.77	93.1	0.86	Os01g0228400	AK105248.1	-	TPR-like domain containing protein	2e-2	At5g67580	TRB2	O.I.	H.G.	S.X.
0.80	94.6	0.90	Os07g0162100	9635.m00620	-	3-oxo-5-alpha-steroid 4-dehydrogenase, C-terminaldomain containing protein	2e+0	At5g42635	glycine-rich protein	O.I.	H.G.	S.X.
0.71	89.6	0.93	Os10g0560400	AK109732.1	-	CCT domain containing protein	1e-2	At3g26400	EIF4B1	O.I.	H.G.	S.X.
0.70	88.4	0.92	Os03g0228200	9631.m01196	-	Conserved hypothetical protein	2e-2	At2g23790	unknown protein	O.I.	H.G.	S.X.
0.69	87.9	0.90	Os01g0700100	AK059965.1	-	MtN3 and saliva related transmembrane proteinfamily protein	4e-2	At3g53420	PIP2A (PLASMA MEMBRANE INTRINSIC PROTEIN 2A)	O.I.	H.G.	S.X.
0.68	87.5	0.91	Os04g0578200	AK073300.1	-	Conserved hypothetical protein	6e-1	At3g12977	DNA binding	O.I.	H.G.	S.X.
0.68	87.5	0.90	Os01g0823600	CF305219	-	Conserved hypothetical protein	1e+0	At5g06760	late embryogenesis abundant group 1 domain-containing protein / LEA group 1 domain-containing protein	O.I.	H.G.	S.X.
0.67	87.2	0.92	Os09g0553900	AK099586.1	-	-	2e+0	At5g59040	COPT3	O.I.	H.G.	S.X.
0.66	83.9	0.88	Os07g0425000	AK108531.1	-	Conserved hypothetical protein	6e-1	At3g28740	CYP81D1	O.I.	H.G.	S.X.
0.64	83.4	0.91	Os03g0594900	AK069017.1	-	Cytochrome P450 family protein	4e+0	At5g46030	unknown protein	O.I.	H.G.	S.X.
0.60	79.7	0.94	Os01g0666600	CF325024	-	Conserved hypothetical protein	5e+0	At3g58380	meprin and TRAF homology domain-containing protein / MATH domain-containing protein	O.I.	H.G.	S.X.
0.60	79.7	0.89	Os12g0609500	AK071747.1	-	Short-chain dehydrogenase/reductase SDR familyprotein	1e-8	At4g20760	short-chain dehydrogenase/reductase (SDR) family protein	O.I.	H.G.	S.X.
0.58	77.0	0.86	Os01g0175700	CB624018	-	HCO3-transporter domain containing protein	2e-5	At1g15460	BOR4 (REQUIRES HIGH BORON 4)	O.I.	H.G.	S.X.
0.57	77.0	0.94	Os10g0573700	AK099409.1	-	-	2e-4	At5g46800	BOU (A BOUT DE SOUFFLE)	O.I.	H.G.	S.X.
0.55	73.7	0.94	Os01g0235100	CF297014	-	Conserved hypothetical protein	2e+0	At5g23090	NF-YB13 (NUCLEAR FACTOR Y, SUBUNIT B13)	O.I.	H.G.	S.X.
0.55	73.7	0.92	Os02g0705100	AK063491.1	-	Epoxide hydrolase family protein	2e-1	At1g04445	zinc finger (C2H2 type) family protein	O.I.	H.G.	S.X.
0.53	71.3	0.92	Os02g0704300	AK058932.1	-	Hypothetical protein	3e-6	At5g35970	DNA-binding protein, putative	O.I.	H.G.	S.X.
0.51	68.7	0.96	Os08g0566600	AK066210.1	-	Conserved hypothetical protein	3e-2	At2g05620	PGR5 (proton gradient regulation 5)	O.I.	H.G.	S.X.
0.51	68.7	0.93	Os12g0626400	AK063967.1	-	Squalene/phytoene synthase family protein	7e-10	At5g17230	phytoene synthase (PSY) / geranylgeranyl-diphosphate geranylgeranyl transferase	O.I.	H.G.	S.X.
0.46	60.9	0.93	Os06g0704700	AK120907.1	-	Conserved hypothetical protein	1e-34	At1g16720	HCF173 (high chlorophyll fluorescence phenotype 173)	O.I.	H.G.	S.X.
0.40	51.1	0.91	Os11g0621400	AK062468.1	-	Hypothetical protein	1e+0	At4g34290	SWIB complex BAF60b domain-containing protein	O.I.	H.G.	S.X.
0.40	51.1	0.92	Os04g0583000	AK065769.1	-	TPR-like domain containing protein	7e-2	At4g02380	SAG21 (SENESCENCE-ASSOCIATED GENE 21)	O.I.	H.G.	S.X.
0.37	45.0	0.90	Os03g0826200	AK121165.1	-	Hypothetical protein	3e-1	At5g45870	Bet v I allergen family protein	O.I.	H.G.	S.X.
0.37	45.0	0.91	Os05g0170900	CB679962	-	Phosphate/phosphoenolpyruvate translocator	1e-1	At2g30766	unknown protein	O.I.	H.G.	S.X.
0.32	36.3	0.94	Os01g0938100	CB680541	-	Photosystem II protein PsbW, class I familyprotein	2e+0	At3g44950	glycine-rich protein	O.I.	H.G.	S.X.
0.32	36.3	0.91	Os04g0507100	AK066402.1	-	Conserved hypothetical protein	3e-3	At4g28740	-	O.I.	H.G.	S.X.

Click More genes

Specific experiments for the module

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
21.5 99.2 GSM422672 Drought GSE16865 Heterologous microarrays for the study of drought stress in Musa
13.5 98.5 GSM422676 Control GSE16865 Heterologous microarrays for the study of drought stress in Musa
12.3 98.3 GSM377084 Genomic DNA - 45 day old leaf sample - mutant f1856 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.3 98.3 GSM377075 Genomic DNA - 45 day old leaf sample - mutant g650 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.5 97.9 GSM377072 Genomic DNA - 45 day old leaf sample - mutant d1137 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.3 97.9 GSM377073 Genomic DNA - 45 day old leaf sample - mutant d2943 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.1 97.9 GSM377076 Genomic DNA - 45 day old leaf sample - mutant g6485 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.8 97.8 GSM377081 Genomic DNA - 45 day old leaf sample - mutant g7534 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.6 97.8 GSM377077 Genomic DNA - 45 day old leaf sample - mutant g6489 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.3 97.7 GSM377071 Genomic DNA - 45 day old leaf sample - mutant d256 GSE15071 Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
21.5	99.2	GSM422672	Drought	GSE16865	Heterologous microarrays for the study of drought stress in Musa
13.5	98.5	GSM422676	Control	GSE16865	Heterologous microarrays for the study of drought stress in Musa
12.3	98.3	GSM377084	Genomic DNA - 45 day old leaf sample - mutant f1856	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
12.3	98.3	GSM377075	Genomic DNA - 45 day old leaf sample - mutant g650	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.5	97.9	GSM377072	Genomic DNA - 45 day old leaf sample - mutant d1137	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.3	97.9	GSM377073	Genomic DNA - 45 day old leaf sample - mutant d2943	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
9.1	97.9	GSM377076	Genomic DNA - 45 day old leaf sample - mutant g6485	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.8	97.8	GSM377081	Genomic DNA - 45 day old leaf sample - mutant g7534	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.6	97.8	GSM377077	Genomic DNA - 45 day old leaf sample - mutant g6489	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays
8.3	97.7	GSM377071	Genomic DNA - 45 day old leaf sample - mutant d256	GSE15071	Detection of genomic deletions in rice by genomic DNA hybridization to oligonucleotide microarrays

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.038 1 GO:0006725 The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells.
0.013 1 GO:0009058 The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

SF	Genes	GO ID	Process Name	Link to AmiGO
0.038	1	GO:0006725	The chemical reactions and pathways involving aromatic compounds, any organic compound characterized by one or more planar rings, each of which contains conjugated double bonds and delocalized pi electrons, as carried out by individual cells.
0.013	1	GO:0009058	The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.

Inter-species module comparison

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

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Gene ID	Os01g0228400
Gene name
Homology with Arabidopsis	Similar to At5g67580: TRB2 (HF=2e-2)
Module size	26 genes
NF	0.55
%ile	74.8

Co-expression analysis

Gene ID Os01g0228400 Gene name Homology with ArabidopsisSimilar to At5g67580: TRB2 (HF=2e-2) Module size 26 genes NF 0.55 %ile 74.8

Co-expressed genes

Click More genes

Specific experiments for the module

Biological processes inferred to relate to the module

Inter-species module comparison

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

Gene ID Os01g0228400

Gene name
Homology with Arabidopsis Similar to At5g67580: TRB2 (HF=2e-2)

Module size 26 genes

NF 0.55

%ile 74.8

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