CoP: Co-expressed Biological Processes

Co-expression analysis

Gene ID At1g02730

Gene name ATCSLD5

Module size 8 genes

NF 0.88

%ile 98.2

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 At1g02730 839467 ATCSLD5 Encodes a gene similar to cellulose synthase. Knock-out mutant has reduced growth, reduced xylan level and reduced xylan synthase activity in stems. O.I. H.G. S.X.
0.93 96.4 0.91 At4g05190 825867 ATK5 (ARABIDOPSIS THALIANA KINESIN 5) ATK5 encodes a kinesin protein involved in microtubule spindle morphogenesis. It acts as a minus-end directed motor as well as a plus-end tracking protein (+TIP). Localizes to mitotic spindle midzones and regions rich in growing plus-ends within phragmoplasts. O.I. H.G. S.X.
0.92 96.0 0.94 At5g36710 833636 unknown protein F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P O.I. H.G. S.X.
0.88 94.0 0.93 At3g02640 821289 unknown protein F:molecular_function unknown;P:biological_process unknown;C:unknown;PO O.I. H.G. S.X.
0.88 94.0 0.92 At4g15830 827264 binding F:binding;P:biological_process unknown;C:cellular_component unknown;MPOF O.I. H.G. S.X.
0.86 93.1 0.91 At3g25980 822195 mitotic spindle checkpoint protein, putative (MAD2) F:DNA binding;P:mitosis, mitotic cell cycle spindle assembly checkpoint;C:endomembrane system;MFOP O.I. H.G. S.X.
0.83 91.4 0.93 At1g76310 843964 CYCB2 core cell cycle genes O.I. H.G. S.X.
0.78 88.6 0.94 At1g18370 838418 HIK (HINKEL) Mutant has cytokinesis defects; seedling lethal 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	At1g02730	839467	ATCSLD5	Encodes a gene similar to cellulose synthase. Knock-out mutant has reduced growth, reduced xylan level and reduced xylan synthase activity in stems.	O.I.	H.G.	S.X.
0.93	96.4	0.91	At4g05190	825867	ATK5 (ARABIDOPSIS THALIANA KINESIN 5)	ATK5 encodes a kinesin protein involved in microtubule spindle morphogenesis. It acts as a minus-end directed motor as well as a plus-end tracking protein (+TIP). Localizes to mitotic spindle midzones and regions rich in growing plus-ends within phragmoplasts.	O.I.	H.G.	S.X.
0.92	96.0	0.94	At5g36710	833636	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:endomembrane system;P	O.I.	H.G.	S.X.
0.88	94.0	0.93	At3g02640	821289	unknown protein	F:molecular_function unknown;P:biological_process unknown;C:unknown;PO	O.I.	H.G.	S.X.
0.88	94.0	0.92	At4g15830	827264	binding	F:binding;P:biological_process unknown;C:cellular_component unknown;MPOF	O.I.	H.G.	S.X.
0.86	93.1	0.91	At3g25980	822195	mitotic spindle checkpoint protein, putative (MAD2)	F:DNA binding;P:mitosis, mitotic cell cycle spindle assembly checkpoint;C:endomembrane system;MFOP	O.I.	H.G.	S.X.
0.83	91.4	0.93	At1g76310	843964	CYCB2	core cell cycle genes	O.I.	H.G.	S.X.
0.78	88.6	0.94	At1g18370	838418	HIK (HINKEL)	Mutant has cytokinesis defects; seedling lethal	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
53.9 99.8 GSM253646 Low_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
47.2 99.8 GSM143301 Ts_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
47.1 99.8 GSM143300 Ts_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.6 99.8 GSM253645 High_Mo_seg_pool_Ler_col_F2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
40.9 99.8 GSM143302 Ts_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.9 99.8 GSM143299 High_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.9 99.7 GSM253649 Col-0-2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
34.7 99.7 GSM143298 Low_Na_seg_pool_ts_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
34.6 99.7 GSM184537 Whole roots 2hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
32.2 99.7 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
30.9 99.7 GSM253648 Col-0-1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
29.1 99.7 GSM176876 AWP_AL_Txed_1 GSE7334 Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
27.7 99.7 GSM143307 Low_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.8 99.7 GSM143308 Tsu_genomic_hyb_3 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.7 99.6 GSM253647 Col-0 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
22.4 99.6 GSM143306 High_Na_seg_pool_tsu_col_F2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.9 99.6 GSM253650 Ler 3 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
21.8 99.6 GSM133950 Murray_2-6_T10-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
21.8 99.6 GSM134208 Murray_3-4_D7-GROWTH_Rep1_ATH1 GSE5750 Growth of suspension-cultured cells
21.6 99.6 GSM253651 Ler 1 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
20.2 99.6 GSM143310 Tsu_genomic_hyb_1 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.1 99.6 GSM143309 Tsu_genomic_hyb_2 GSE6203 Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.8 99.5 GSM133952 Murray_2-8_T14-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
16.7 99.5 GSM133758 Lindsey_1-11_heart-stage-root_Rep2_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.7 99.5 GSM133949 Murray_2-5_T8-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
16.7 99.5 GSM253652 Ler 2 GSE10039 Low_Mo_Arabidopsis_mapping_MOT1
15.7 99.5 GSM133947 Murray_2-3_T4-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
15.3 99.4 GSM134206 Murray_3-3_D5-GROWTH_Rep1_ATH1 GSE5750 Growth of suspension-cultured cells
15.2 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
15.0 99.4 GSM184520 Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
14.7 99.4 GSM133945 Murray_2-1_T0-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
13.5 99.4 GSM133948 Murray_2-4_T6-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
11.8 99.3 GSM133953 Murray_2-9_T16-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
11.5 99.3 GSM184516 Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.4 99.3 GSM133951 Murray_2-7_T12-APH_Rep1_ATH1 GSE5747 Genome-wide cell cycle studies
9.7 99.1 GSM184517 Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.7 99.1 GSM184519 Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.4 99.1 GSM184490 Epidermis&Cortex root cells 2hr transitory KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
9.2 99.1 GSM134204 Murray_3-2_D3-GROWTH_Rep1_ATH1 GSE5750 Growth of suspension-cultured cells

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title
53.9	99.8	GSM253646	Low_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
47.2	99.8	GSM143301	Ts_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
47.1	99.8	GSM143300	Ts_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
44.6	99.8	GSM253645	High_Mo_seg_pool_Ler_col_F2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
40.9	99.8	GSM143302	Ts_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
38.9	99.8	GSM143299	High_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
36.9	99.7	GSM253649	Col-0-2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
34.7	99.7	GSM143298	Low_Na_seg_pool_ts_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
34.6	99.7	GSM184537	Whole roots 2hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
32.2	99.7	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
30.9	99.7	GSM253648	Col-0-1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
29.1	99.7	GSM176876	AWP_AL_Txed_1	GSE7334	Microarray Analysis of Arabidopsis Genome Response to Aluminum Stress
27.7	99.7	GSM143307	Low_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
26.8	99.7	GSM143308	Tsu_genomic_hyb_3	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
24.7	99.6	GSM253647	Col-0 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
22.4	99.6	GSM143306	High_Na_seg_pool_tsu_col_F2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
21.9	99.6	GSM253650	Ler 3	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
21.8	99.6	GSM133950	Murray_2-6_T10-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
21.8	99.6	GSM134208	Murray_3-4_D7-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
21.6	99.6	GSM253651	Ler 1	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
20.2	99.6	GSM143310	Tsu_genomic_hyb_1	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
19.1	99.6	GSM143309	Tsu_genomic_hyb_2	GSE6203	Rus_etal_High_Na_Arabidopsis_accessions_mapping_HKT1
16.8	99.5	GSM133952	Murray_2-8_T14-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
16.7	99.5	GSM133758	Lindsey_1-11_heart-stage-root_Rep2_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
16.7	99.5	GSM133949	Murray_2-5_T8-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
16.7	99.5	GSM253652	Ler 2	GSE10039	Low_Mo_Arabidopsis_mapping_MOT1
15.7	99.5	GSM133947	Murray_2-3_T4-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
15.3	99.4	GSM134206	Murray_3-3_D5-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells
15.2	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
15.0	99.4	GSM184520	Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
14.7	99.4	GSM133945	Murray_2-1_T0-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
13.5	99.4	GSM133948	Murray_2-4_T6-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
11.8	99.3	GSM133953	Murray_2-9_T16-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
11.5	99.3	GSM184516	Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.4	99.3	GSM133951	Murray_2-7_T12-APH_Rep1_ATH1	GSE5747	Genome-wide cell cycle studies
9.7	99.1	GSM184517	Pericycle root cells 2hr continuous KCl and MSX control treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.7	99.1	GSM184519	Pericycle root cells 2hr continuous KNO3 and MSX treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.4	99.1	GSM184490	Epidermis&Cortex root cells 2hr transitory KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
9.2	99.1	GSM134204	Murray_3-2_D3-GROWTH_Rep1_ATH1	GSE5750	Growth of suspension-cultured cells

Biological processes inferred to relate to the module

SF Genes GO ID Process Name Link to AmiGO
0.200 1 GO:0051225 The aggregation, arrangement and bonding together of a set of components to form the spindle, the array of microtubules and associated molecules that serves to move duplicated chromosomes apart.
0.167 1 GO:0007094 A signal transduction based surveillance mechanism that ensures the fidelity of cell division by preventing the premature advance of cells from metaphase to anaphase prior to the successful attachment of kinetochores to spindle microtubules (spindle assembly).
0.087 1 GO:0042546 The process by which a cell wall is synthesized, aggregates, and bonds together. A cell wall is the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.

SF	Genes	GO ID	Process Name
0.200	1	GO:0051225	The aggregation, arrangement and bonding together of a set of components to form the spindle, the array of microtubules and associated molecules that serves to move duplicated chromosomes apart.
0.167	1	GO:0007094	A signal transduction based surveillance mechanism that ensures the fidelity of cell division by preventing the premature advance of cells from metaphase to anaphase prior to the successful attachment of kinetochores to spindle microtubules (spindle assembly).
0.087	1	GO:0042546	The process by which a cell wall is synthesized, aggregates, and bonds together. A cell wall is the rigid or semi-rigid envelope lying outside the cell membrane of plant, fungal and most prokaryotic cells, maintaining their shape and protecting them from osmotic lysis.

KEGG PATHWAY inferred to related to the module

SF Genes KEGG ID Pathway name Link to KEGG

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

Back to the CoP portal site

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Gene ID	At1g02730
Gene name	ATCSLD5
Module size	8 genes
NF	0.88
%ile	98.2

Co-expression analysis

Gene ID At1g02730 Gene name ATCSLD5 Module size 8 genes NF 0.88 %ile 98.2

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 KEGG

Inter-species module comparison

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

Gene ID At1g02730

Gene name ATCSLD5

Module size 8 genes

NF 0.88

%ile 98.2

: 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

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