CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At5g47770

Gene name FPS1 (FARNESYL DIPHOSPHATE SYNTHASE 1)

Module size 5 genes

NF 0.70

%ile 88.6

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 At5g47770 834828 FPS1 (FARNESYL DIPHOSPHATE SYNTHASE 1) Encodes a protein with farnesyl diphosphate synthase activity. O.I. H.G. S.X.
0.86 93.1 0.93 At5g48230 834876 ACAT2 (ACETOACETYL-COA THIOLASE 2) F:acetyl-CoA C-acetyltransferase activity, catalytic activity;P:embryonic development ending in seed dormancy;C:peroxisome, plasma membrane;BOMFAP O.I. H.G. S.X.
0.80 89.8 0.91 At5g27450 832804 MK (MEVALONATE KINASE) Encodes a protein with mevalonate kinase activity involved in the mevalonate pathway. O.I. H.G. S.X.
0.67 81.6 0.93 At2g38700 818452 MVD1 (MEVALONATE DIPHOSPHATE DECARBOXYLASE 1) Encodes mevalonate diphosphate decarboxylase, the enzyme that catalyzes the synthesis of isopentenyl diphosphate, used in sterol and isoprenoid biosynthesis. The protein appears to form a homodimeric complex. Incidentally, it was shown that the Arabidopsis MVD protein could also interact with its yeast homolog to form a heterodimer. O.I. H.G. S.X.
0.40 50.8 0.91 At2g34560 818020 katanin, putative F:nucleoside-triphosphatase activity, ATPase activity, nucleotide binding, ATP binding;P:protein metabolic process;C:unknown;OBMFPAV 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	At5g47770	834828	FPS1 (FARNESYL DIPHOSPHATE SYNTHASE 1)	Encodes a protein with farnesyl diphosphate synthase activity.	O.I.	H.G.	S.X.
0.86	93.1	0.93	At5g48230	834876	ACAT2 (ACETOACETYL-COA THIOLASE 2)	F:acetyl-CoA C-acetyltransferase activity, catalytic activity;P:embryonic development ending in seed dormancy;C:peroxisome, plasma membrane;BOMFAP	O.I.	H.G.	S.X.
0.80	89.8	0.91	At5g27450	832804	MK (MEVALONATE KINASE)	Encodes a protein with mevalonate kinase activity involved in the mevalonate pathway.	O.I.	H.G.	S.X.
0.67	81.6	0.93	At2g38700	818452	MVD1 (MEVALONATE DIPHOSPHATE DECARBOXYLASE 1)	Encodes mevalonate diphosphate decarboxylase, the enzyme that catalyzes the synthesis of isopentenyl diphosphate, used in sterol and isoprenoid biosynthesis. The protein appears to form a homodimeric complex. Incidentally, it was shown that the Arabidopsis MVD protein could also interact with its yeast homolog to form a heterodimer.	O.I.	H.G.	S.X.
0.40	50.8	0.91	At2g34560	818020	katanin, putative	F:nucleoside-triphosphatase activity, ATPase activity, nucleotide binding, ATP binding;P:protein metabolic process;C:unknown;OBMFPAV	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
206.3 100.0 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
75.7 99.9 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
63.3 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
60.0 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
55.7 99.8 E-MEXP-509-raw-cel-829148842
55.1 99.8 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
54.3 99.8 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
50.5 99.8 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
50.4 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
47.7 99.8 E-MEXP-509-raw-cel-829148772
47.0 99.8 E-MEXP-509-raw-cel-829148420
45.9 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
44.1 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
44.1 99.8 E-MEXP-509-raw-cel-829148597
43.5 99.8 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
43.3 99.8 E-MEXP-509-raw-cel-829148738
43.0 99.8 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.0 99.8 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.6 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.6 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.9 99.7 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
36.2 99.7 E-MEXP-509-raw-cel-829148913
36.1 99.7 E-MEXP-509-raw-cel-829148632
35.4 99.7 E-MEXP-509-raw-cel-829148090
34.5 99.7 E-MEXP-509-raw-cel-829148201
32.5 99.7 E-MEXP-509-raw-cel-829148456
32.4 99.7 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
31.7 99.7 E-MEXP-509-raw-cel-829148348
31.1 99.7 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
30.8 99.7 E-MEXP-509-raw-cel-829148492
30.8 99.7 E-MEXP-509-raw-cel-829148276
30.3 99.7 E-MEXP-509-raw-cel-829148525
27.9 99.7 GSM184497 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
27.3 99.7 E-MEXP-509-raw-cel-829148877
27.1 99.7 E-MEXP-509-raw-cel-829148561
27.1 99.7 E-MEXP-509-raw-cel-829148129
25.4 99.6 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
23.5 99.6 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
23.3 99.6 E-MEXP-509-raw-cel-829148165
22.6 99.6 GSM184552 Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
22.5 99.6 GSM284396 Arabidopsis GPSc2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
22.1 99.6 GSM284385 Arabidopsis GEP6 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
21.5 99.6 E-MEXP-509-raw-cel-829148240
21.1 99.6 E-MEXP-509-raw-cel-829148385
20.9 99.6 E-MEXP-509-raw-cel-829148808
20.7 99.6 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
19.8 99.6 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
19.3 99.6 GSM10441 WT Ovule 1 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
18.0 99.5 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
17.2 99.5 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
16.2 99.5 GSM10442 WT Ovule 2 GSE680 Transcript Profiling of Arabidopsis Plant Life Cycle
16.2 99.5 GSM173443 wild-type Arabidopsis, biological rep2 GSE7211 A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
16.0 99.5 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
15.6 99.5 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
15.6 99.5 GSM184559 Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes with KNO3, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
15.1 99.4 GSM173442 wild-type Arabidopsis, biological rep1 GSE7211 A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
15.1 99.4 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
15.0 99.4 GSM226538 L8SB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
14.9 99.4 GSM205435 Col_ leaf_ wildtype_rep02 GSE8279 Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
14.9 99.4 GSM284395 Arabidopsis GPSc1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
14.9 99.4 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
14.3 99.4 GSM128661 Underwood_1-14_Cor-5x10e7-10h_Rep2_ATH1 GSE5520 Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
14.2 99.4 E-MEXP-509-raw-cel-829148313
14.0 99.4 GSM284398 Arabidopsis GGSc2 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
13.6 99.4 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
13.5 99.4 GSM311288 Laser capture microdissected (LCM) embryo proper at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
13.4 99.4 E-MEXP-509-raw-cel-829148666
13.2 99.4 GSM133945 Murray_2-1_T0-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
13.1 99.4 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
12.9 99.3 GSM131322 AtGen_6-3422_Saltstress-Roots-6.0h_Rep2 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
12.7 99.3 GSM284384 Arabidopsis GEP5 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
12.3 99.3 GSM62704 arf6 arf8 flowers_stage 13-14 GSE2848 Auxin Response Factor mediated flower gene expression
12.0 99.3 GSM284397 Arabidopsis GGSc1 GSE11262 Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
11.9 99.3 GSM311287 Laser capture microdissected (LCM) embryo proper at the linear-cotyledon stage, biological replicate 1 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
11.8 99.3 GSM67080 Arabidopsis_Ovary03 GSE3056 Arabidopsis Pollination Study
11.5 99.3 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
11.2 99.2 GSM311294 Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 2 GSE12403 Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
10.6 99.2 GSM226530 LCOLUMELLASB GSE8934 A high resolution organ expression map reveals novel expression patterns and predicts cellular function
10.2 99.2 GSM131338 AtGen_6-4122_Droughtstress-Roots-0.5h_Rep2 GSE5624 AtGenExpress: Stress Treatments (Drought stress)
9.9 99.1 GSM131337 AtGen_6-4121_Droughtstress-Roots-0.5h_Rep1 GSE5624 AtGenExpress: Stress Treatments (Drought stress)
9.6 99.1 GSM133039 2510 GSE5685 AtGenExpress: Pathogen Series: Pseudomonas half leaf injection
9.4 99.1 GSM218594 Whole roots 3.5hr KNO3 treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.1 99.1 GSM173447 oxt6 mutant, biological rep3 GSE7211 A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
8.8 99.0 GSM173446 oxt6 mutant, biological rep2 GSE7211 A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
206.3	100.0	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
75.7	99.9	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
63.3	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
60.0	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
55.7	99.8	E-MEXP-509-raw-cel-829148842
55.1	99.8	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
54.3	99.8	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
50.5	99.8	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
50.4	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
47.7	99.8	E-MEXP-509-raw-cel-829148772
47.0	99.8	E-MEXP-509-raw-cel-829148420
45.9	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
44.1	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
44.1	99.8	E-MEXP-509-raw-cel-829148597
43.5	99.8	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
43.3	99.8	E-MEXP-509-raw-cel-829148738
43.0	99.8	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
41.0	99.8	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.6	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
40.6	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.9	99.7	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
36.2	99.7	E-MEXP-509-raw-cel-829148913
36.1	99.7	E-MEXP-509-raw-cel-829148632
35.4	99.7	E-MEXP-509-raw-cel-829148090
34.5	99.7	E-MEXP-509-raw-cel-829148201
32.5	99.7	E-MEXP-509-raw-cel-829148456
32.4	99.7	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
31.7	99.7	E-MEXP-509-raw-cel-829148348
31.1	99.7	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
30.8	99.7	E-MEXP-509-raw-cel-829148492
30.8	99.7	E-MEXP-509-raw-cel-829148276
30.3	99.7	E-MEXP-509-raw-cel-829148525
27.9	99.7	GSM184497	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
27.3	99.7	E-MEXP-509-raw-cel-829148877
27.1	99.7	E-MEXP-509-raw-cel-829148561
27.1	99.7	E-MEXP-509-raw-cel-829148129
25.4	99.6	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
23.5	99.6	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
23.3	99.6	E-MEXP-509-raw-cel-829148165
22.6	99.6	GSM184552	Whole roots 2hr KCl control treated then incubated in protoplast-generating solution minus enzymes, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
22.5	99.6	GSM284396	Arabidopsis GPSc2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
22.1	99.6	GSM284385	Arabidopsis GEP6	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
21.5	99.6	E-MEXP-509-raw-cel-829148240
21.1	99.6	E-MEXP-509-raw-cel-829148385
20.9	99.6	E-MEXP-509-raw-cel-829148808
20.7	99.6	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
19.8	99.6	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
19.3	99.6	GSM10441	WT Ovule 1	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
18.0	99.5	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
17.2	99.5	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
16.2	99.5	GSM10442	WT Ovule 2	GSE680	Transcript Profiling of Arabidopsis Plant Life Cycle
16.2	99.5	GSM173443	wild-type Arabidopsis, biological rep2	GSE7211	A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
16.0	99.5	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
15.6	99.5	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
15.6	99.5	GSM184559	Whole roots 2hr KNO3 treated then incubated in protoplast-generating solution minus enzymes with KNO3, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
15.1	99.4	GSM173442	wild-type Arabidopsis, biological rep1	GSE7211	A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
15.1	99.4	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
15.0	99.4	GSM226538	L8SB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
14.9	99.4	GSM205435	Col_ leaf_ wildtype_rep02	GSE8279	Transgenerational Stability of the Arabidopsis Epigenome Is Coordinated by CG Methylation
14.9	99.4	GSM284395	Arabidopsis GPSc1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
14.9	99.4	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
14.3	99.4	GSM128661	Underwood_1-14_Cor-5x10e7-10h_Rep2_ATH1	GSE5520	Genome-wide transcriptional analysis of the compatible A. thaliana-P. syringae pv. tomato DC3000 interaction
14.2	99.4	E-MEXP-509-raw-cel-829148313
14.0	99.4	GSM284398	Arabidopsis GGSc2	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
13.6	99.4	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
13.5	99.4	GSM311288	Laser capture microdissected (LCM) embryo proper at the linear-cotyledon stage, biological replicate 2	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
13.4	99.4	E-MEXP-509-raw-cel-829148666
13.2	99.4	GSM133945	Murray_2-1_T0-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
13.1	99.4	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
12.9	99.3	GSM131322	AtGen_6-3422_Saltstress-Roots-6.0h_Rep2	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
12.7	99.3	GSM284384	Arabidopsis GEP5	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
12.3	99.3	GSM62704	arf6 arf8 flowers_stage 13-14	GSE2848	Auxin Response Factor mediated flower gene expression
12.0	99.3	GSM284397	Arabidopsis GGSc1	GSE11262	Expression data from Arabidopsis Seed Compartments at the Globular Embryo Stage.
11.9	99.3	GSM311287	Laser capture microdissected (LCM) embryo proper at the linear-cotyledon stage, biological replicate 1	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
11.8	99.3	GSM67080	Arabidopsis_Ovary03	GSE3056	Arabidopsis Pollination Study
11.5	99.3	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
11.2	99.2	GSM311294	Laser capture microdissected (LCM) chalazal seed coat at the linear-cotyledon stage, biological replicate 2	GSE12403	Expression data from Arabidopsis seed compartments at the linear-cotyledon stage
10.6	99.2	GSM226530	LCOLUMELLASB	GSE8934	A high resolution organ expression map reveals novel expression patterns and predicts cellular function
10.2	99.2	GSM131338	AtGen_6-4122_Droughtstress-Roots-0.5h_Rep2	GSE5624	AtGenExpress: Stress Treatments (Drought stress)
9.9	99.1	GSM131337	AtGen_6-4121_Droughtstress-Roots-0.5h_Rep1	GSE5624	AtGenExpress: Stress Treatments (Drought stress)
9.6	99.1	GSM133039	2510	GSE5685	AtGenExpress: Pathogen Series: Pseudomonas half leaf injection
9.4	99.1	GSM218594	Whole roots 3.5hr KNO3 treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.1	99.1	GSM173447	oxt6 mutant, biological rep3	GSE7211	A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
8.8	99.0	GSM173446	oxt6 mutant, biological rep2	GSE7211	A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.286 1 GO:0045337 The chemical reactions and pathways resulting in the formation of farnesyl diphosphate.
0.250 1 GO:0019287 The chemical reactions and pathways resulting in the formation of isopentenyl diphosphate, via the intermediate mevalonate. This pathway converts acetate, in the form of acetyl-CoA, to isopentenyl diphosphate (IPP), the fundamental unit in isoprenoid biosynthesis, through a series of mevalonate intermediates.
0.154 2 GO:0008299 The chemical reactions and pathways resulting in the formation of any isoprenoid compound, isoprene (2-methylbuta-1,3-diene) or compounds containing or derived from linked isoprene (3-methyl-2-butenylene) residues.

SF	Genes	GO ID	Process Name
0.286	1	GO:0045337	The chemical reactions and pathways resulting in the formation of farnesyl diphosphate.
0.250	1	GO:0019287	The chemical reactions and pathways resulting in the formation of isopentenyl diphosphate, via the intermediate mevalonate. This pathway converts acetate, in the form of acetyl-CoA, to isopentenyl diphosphate (IPP), the fundamental unit in isoprenoid biosynthesis, through a series of mevalonate intermediates.
0.154	2	GO:0008299	The chemical reactions and pathways resulting in the formation of any isoprenoid compound, isoprene (2-methylbuta-1,3-diene) or compounds containing or derived from linked isoprene (3-methyl-2-butenylene) residues.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG
0.250 1 00072 Synthesis and degradation of ketone bodies
0.174 4 00900 Terpenoid backbone biosynthesis
0.100 1 00310 Lysine degradation

SF	Genes	KEGG ID	Pathway name
0.250	1	00072	Synthesis and degradation of ketone bodies
0.174	4	00900	Terpenoid backbone biosynthesis
0.100	1	00310	Lysine degradation

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	At5g47770
Gene name	FPS1 (FARNESYL DIPHOSPHATE SYNTHASE 1)
Module size	5 genes
NF	0.70
%ile	88.6

Co-expression analysis

Gene ID At5g47770 Gene name FPS1 (FARNESYL DIPHOSPHATE SYNTHASE 1) Module size 5 genes NF 0.70 %ile 88.6

Co-expression network

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

Co-expressed genes

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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 KEGG0.250100072Synthesis and degradation of ketone bodies0.174400900Terpenoid backbone biosynthesis0.100100310Lysine degradation

Inter-species module comparison

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

Gene ID At5g47770

Gene name FPS1 (FARNESYL DIPHOSPHATE SYNTHASE 1)

Module size 5 genes

NF 0.70

%ile 88.6

: 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
0.250 1 00072 Synthesis and degradation of ketone bodies
0.174 4 00900 Terpenoid backbone biosynthesis
0.100 1 00310 Lysine degradation

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