CoP: Co-expressed Biological Processes

Specifically-expressed experiments

Gene ID At4g25490

Gene name CBF1 (C-REPEAT/DRE BINDING FACTOR 1)

Functional description Transcriptional activator that binds to the DRE/CRT regulatory element and induces COR (cold-regulated) gene expression increasing plant freezing tolerance. It encodes a member of the DREB subfamily A-1 of ERF/AP2 transcription factor family (CBF1). The protein contains one AP2 domain. There are six members in this subfamily, including CBF1, CBF2, and CBF3. This gene is involved in response to low temperature and abscisic acid.

Click GSM ID or Assay name to show a list of genes that are specifically expressed in the GSM.

Std2 GX %ile GSM ID Assay name GSE ID Experiment title Link to GEO
420.9 100.0 ArrayExpress E-MEXP-67-raw-cel-323396336 - - -
350.0 100.0 ArrayExpress E-MEXP-67-raw-cel-323396457 - - -
324.3 100.0 GSM131268 AtGen_6-1312_Cold(4°C)-Shoots-3.0h_Rep2 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
234.5 100.0 GSM131273 AtGen_6-1421_Cold(4°C)-Roots-6.0h_Rep1 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
230.0 100.0 GSM131267 AtGen_6-1311_Cold(4°C)-Shoots-3.0h_Rep1 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
192.8 100.0 GSM131274 AtGen_6-1422_Cold(4°C)-Roots-6.0h_Rep2 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
172.3 100.0 GSM131270 AtGen_6-1322_Cold(4°C)-Roots-3.0h_Rep2 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
162.7 99.9 GSM74897 Wildtype_3H Cold_Rep2 GSE3326 ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
142.5 99.9 GSM131271 AtGen_6-1411_Cold(4°C)-Shoots-6.0h_Rep1 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
136.3 99.9 GSM74896 Wildtype_3H Cold_Rep1 GSE3326 ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
123.4 99.9 GSM131321 AtGen_6-3421_Saltstress-Roots-6.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
121.5 99.9 GSM131269 AtGen_6-1321_Cold(4°C)-Roots-3.0h_Rep1 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
111.5 99.9 GSM74899 Wildtype_6H Cold_Rep2 GSE3326 ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
109.6 99.9 GSM47039 hst-15 29 GSE2473 Small RNA biogenesis mutants
105.3 99.9 GSM47038 hst-15 28 GSE2473 Small RNA biogenesis mutants
101.2 99.9 GSM74898 Wildtype_6H Cold_Rep1 GSE3326 ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
99.4 99.9 GSM47013 Col-0 3 GSE2473 Small RNA biogenesis mutants
64.1 99.8 GSM131322 AtGen_6-3422_Saltstress-Roots-6.0h_Rep2 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
64.0 99.8 GSM47041 hyl1 31 GSE2473 Small RNA biogenesis mutants
63.8 99.8 GSM74907 ice1_6H Cold_Rep2 GSE3326 ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
53.8 99.8 GSM47040 hyl1 30 GSE2473 Small RNA biogenesis mutants
52.6 99.8 GSM131272 AtGen_6-1412_Cold(4°C)-Shoots-6.0h_Rep2 GSE5621 AtGenExpress: Stress Treatments (Cold stress)
45.5 99.8 ArrayExpress E-MEXP-98-raw-cel-320188749 - - -
35.8 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
29.8 99.7 GSM173445 oxt6 mutant, biological rep1 GSE7211 A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
28.7 99.7 GSM131317 AtGen_6-3321_Saltstress-Roots-3.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
27.7 99.7 GSM74905 ice1_3H Cold_Rep2 GSE3326 ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
26.7 99.7 GSM47012 Col-0 2 GSE2473 Small RNA biogenesis mutants
25.5 99.7 GSM128882 Mittler_1-6_MBF1c_Rep3_ATH1 GSE5539 Over-expression of MBF1c enhances stress tolerance
25.4 99.6 GSM128881 Mittler_1-5_MBF1c_Rep2_ATH1 GSE5539 Over-expression of MBF1c enhances stress tolerance
24.5 99.6 GSM47042 hyl1 32 GSE2473 Small RNA biogenesis mutants
24.2 99.6 GSM74904 ice1_3H Cold_Rep1 GSE3326 ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
23.8 99.6 GSM128799 Zarka_2-3_MT-1HCA(SOIL)_Rep1_ATH1 GSE5535 Response to cold, soil grown plants
23.7 99.6 GSM131318 AtGen_6-3322_Saltstress-Roots-3.0h_Rep2 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
22.8 99.6 GSM128880 Mittler_1-4_MBF1c_Rep1_ATH1 GSE5539 Over-expression of MBF1c enhances stress tolerance
22.4 99.6 GSM173447 oxt6 mutant, biological rep3 GSE7211 A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
21.1 99.6 GSM142662 MB002_ATH1_A2-Eland-ch2 GSE6153 Identification of genes involved in secondary cell wall development in the hypocotyls of short day grown Arabidopsis
20.0 99.6 GSM142661 MB002_ATH1_A1-Eland-ch1 GSE6153 Identification of genes involved in secondary cell wall development in the hypocotyls of short day grown Arabidopsis
19.9 99.6 ArrayExpress E-MEXP-98-raw-cel-320188694 - - -
19.7 99.6 GSM218591 Whole roots 3.5hr KCl control treated then frozen, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
17.5 99.5 GSM184918 Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
16.9 99.5 GSM131325 AtGen_6-3521_Saltstress-Roots-12.0h_Rep1 GSE5623 AtGenExpress: Stress Treatments (Salt stress)
16.8 99.5 GSM74906 ice1_6H Cold_Rep1 GSE3326 ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
16.6 99.5 GSM218586 Pericycle root cells 2hr continuous KNO3 and MSX and Gln treated, biological rep2 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
16.5 99.5 GSM173446 oxt6 mutant, biological rep2 GSE7211 A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
16.2 99.5 ArrayExpress Evans_2-12_fab3-7-8-mut-aeq-cold_ATH1 - - -
15.7 99.5 GSM184919 Arabidopsis, root cells, stele, 140 mM NaCls, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
14.0 99.4 GSM184916 Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 1 GSE7641 Expression analysis of root cell-types after treatment with salt
13.8 99.4 ArrayExpress E-MEXP-1094-raw-cel-1379507353 - - -
13.5 99.4 GSM131558 ATGE_9_A GSE5631 AtGenExpress: Developmental series (roots)
12.9 99.3 GSM128800 Zarka_2-4_MT-1HCB(SOIL)_Rep2_ATH1 GSE5535 Response to cold, soil grown plants
12.8 99.3 GSM142879 GW001_ATH1_A24-Warre-03f GSE6177 The effects of the sfr2, sfr3 and sfr6 mutations on lyotropic stress responses
11.8 99.3 GSM184634 Arabidopsis, root cells, 140 mM NaCl, replicate 1 GSE7636 Expression analysis of the effect of protoplasting and FACS sorting in roots
11.8 99.3 GSM131559 ATGE_9_B GSE5631 AtGenExpress: Developmental series (roots)
11.6 99.3 GSM133762 Lindsey_1-14_torpedo-root_Rep1_ATH1 GSE5730 Transcriptional profiling of laser-capture micro-dissected embryonic tissues
11.4 99.3 GSM128877 Mittler_1-1_control_Rep1_ATH1 GSE5539 Over-expression of MBF1c enhances stress tolerance
11.3 99.3 ArrayExpress E-MEXP-807-raw-cel-1173273116 - - -
11.3 99.3 GSM184499 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep3 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
11.2 99.2 ArrayExpress E-MEXP-807-raw-cel-1173273196 - - -
11.1 99.2 ArrayExpress E-TABM-126-raw-cel-1242542617 - - -
11.1 99.2 GSM184497 Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1 GSE7631 Cell-specific nitrogen responses in the Arabidopsis root
10.7 99.2 GSM184921 Arabidopsis, root cells, stele, 140 mM NaCls, replicate 3 GSE7641 Expression analysis of root cell-types after treatment with salt
10.5 99.2 GSM128713 Thorlby_1-2_3h-post-freeze_REP3_ATH1 GSE5524 Gene Expression During Recovery from Freezing
10.1 99.2 GSM128879 Mittler_1-3_control_Rep3_ATH1 GSE5539 Over-expression of MBF1c enhances stress tolerance
10.1 99.2 GSM142882 CW001_ATH1_A1.1-WestC-wsu GSE6178 Mechanisms of DNA double strand break repair in Arabidopsis non-homologous end joining mutants
10.0 99.2 ArrayExpress E-MEXP-807-raw-cel-1173273088 - - -
10.0 99.2 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
9.8 99.1 GSM339544 Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis -6 GSE13469 Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis
9.7 99.1 GSM184920 Arabidopsis, root cells, stele, 140 mM NaCls, replicate 2 GSE7641 Expression analysis of root cell-types after treatment with salt
9.6 99.1 ArrayExpress Evans_2-8_35s-FAD3-cold_ATH1 - - -
9.2 99.1 GSM339546 Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis -8 GSE13469 Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis
8.6 99.0 ArrayExpress E-MEXP-98-raw-cel-320188914 - - -

Std2 GX	%ile	GSM ID	Assay name	GSE ID	Experiment title	Link to GEO
420.9	100.0	ArrayExpress	E-MEXP-67-raw-cel-323396336	-	-	-
350.0	100.0	ArrayExpress	E-MEXP-67-raw-cel-323396457	-	-	-
324.3	100.0	GSM131268	AtGen_6-1312_Cold(4°C)-Shoots-3.0h_Rep2	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
234.5	100.0	GSM131273	AtGen_6-1421_Cold(4°C)-Roots-6.0h_Rep1	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
230.0	100.0	GSM131267	AtGen_6-1311_Cold(4°C)-Shoots-3.0h_Rep1	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
192.8	100.0	GSM131274	AtGen_6-1422_Cold(4°C)-Roots-6.0h_Rep2	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
172.3	100.0	GSM131270	AtGen_6-1322_Cold(4°C)-Roots-3.0h_Rep2	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
162.7	99.9	GSM74897	Wildtype_3H Cold_Rep2	GSE3326	ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
142.5	99.9	GSM131271	AtGen_6-1411_Cold(4°C)-Shoots-6.0h_Rep1	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
136.3	99.9	GSM74896	Wildtype_3H Cold_Rep1	GSE3326	ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
123.4	99.9	GSM131321	AtGen_6-3421_Saltstress-Roots-6.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
121.5	99.9	GSM131269	AtGen_6-1321_Cold(4°C)-Roots-3.0h_Rep1	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
111.5	99.9	GSM74899	Wildtype_6H Cold_Rep2	GSE3326	ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
109.6	99.9	GSM47039	hst-15 29	GSE2473	Small RNA biogenesis mutants
105.3	99.9	GSM47038	hst-15 28	GSE2473	Small RNA biogenesis mutants
101.2	99.9	GSM74898	Wildtype_6H Cold_Rep1	GSE3326	ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
99.4	99.9	GSM47013	Col-0 3	GSE2473	Small RNA biogenesis mutants
64.1	99.8	GSM131322	AtGen_6-3422_Saltstress-Roots-6.0h_Rep2	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
64.0	99.8	GSM47041	hyl1 31	GSE2473	Small RNA biogenesis mutants
63.8	99.8	GSM74907	ice1_6H Cold_Rep2	GSE3326	ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
53.8	99.8	GSM47040	hyl1 30	GSE2473	Small RNA biogenesis mutants
52.6	99.8	GSM131272	AtGen_6-1412_Cold(4°C)-Shoots-6.0h_Rep2	GSE5621	AtGenExpress: Stress Treatments (Cold stress)
45.5	99.8	ArrayExpress	E-MEXP-98-raw-cel-320188749	-	-	-
35.8	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
29.8	99.7	GSM173445	oxt6 mutant, biological rep1	GSE7211	A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
28.7	99.7	GSM131317	AtGen_6-3321_Saltstress-Roots-3.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
27.7	99.7	GSM74905	ice1_3H Cold_Rep2	GSE3326	ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
26.7	99.7	GSM47012	Col-0 2	GSE2473	Small RNA biogenesis mutants
25.5	99.7	GSM128882	Mittler_1-6_MBF1c_Rep3_ATH1	GSE5539	Over-expression of MBF1c enhances stress tolerance
25.4	99.6	GSM128881	Mittler_1-5_MBF1c_Rep2_ATH1	GSE5539	Over-expression of MBF1c enhances stress tolerance
24.5	99.6	GSM47042	hyl1 32	GSE2473	Small RNA biogenesis mutants
24.2	99.6	GSM74904	ice1_3H Cold_Rep1	GSE3326	ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
23.8	99.6	GSM128799	Zarka_2-3_MT-1HCA(SOIL)_Rep1_ATH1	GSE5535	Response to cold, soil grown plants
23.7	99.6	GSM131318	AtGen_6-3322_Saltstress-Roots-3.0h_Rep2	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
22.8	99.6	GSM128880	Mittler_1-4_MBF1c_Rep1_ATH1	GSE5539	Over-expression of MBF1c enhances stress tolerance
22.4	99.6	GSM173447	oxt6 mutant, biological rep3	GSE7211	A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
21.1	99.6	GSM142662	MB002_ATH1_A2-Eland-ch2	GSE6153	Identification of genes involved in secondary cell wall development in the hypocotyls of short day grown Arabidopsis
20.0	99.6	GSM142661	MB002_ATH1_A1-Eland-ch1	GSE6153	Identification of genes involved in secondary cell wall development in the hypocotyls of short day grown Arabidopsis
19.9	99.6	ArrayExpress	E-MEXP-98-raw-cel-320188694	-	-	-
19.7	99.6	GSM218591	Whole roots 3.5hr KCl control treated then frozen, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
17.5	99.5	GSM184918	Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
16.9	99.5	GSM131325	AtGen_6-3521_Saltstress-Roots-12.0h_Rep1	GSE5623	AtGenExpress: Stress Treatments (Salt stress)
16.8	99.5	GSM74906	ice1_6H Cold_Rep1	GSE3326	ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
16.6	99.5	GSM218586	Pericycle root cells 2hr continuous KNO3 and MSX and Gln treated, biological rep2	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
16.5	99.5	GSM173446	oxt6 mutant, biological rep2	GSE7211	A polyadenylation factor subunit implicated in regulating oxidative stress responses in Arabidopsis thaliana
16.2	99.5	ArrayExpress	Evans_2-12_fab3-7-8-mut-aeq-cold_ATH1	-	-	-
15.7	99.5	GSM184919	Arabidopsis, root cells, stele, 140 mM NaCls, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
14.0	99.4	GSM184916	Arabidopsis, root cells, endodermis and quiescent center, 140 mM NaCl, replicate 1	GSE7641	Expression analysis of root cell-types after treatment with salt
13.8	99.4	ArrayExpress	E-MEXP-1094-raw-cel-1379507353	-	-	-
13.5	99.4	GSM131558	ATGE_9_A	GSE5631	AtGenExpress: Developmental series (roots)
12.9	99.3	GSM128800	Zarka_2-4_MT-1HCB(SOIL)_Rep2_ATH1	GSE5535	Response to cold, soil grown plants
12.8	99.3	GSM142879	GW001_ATH1_A24-Warre-03f	GSE6177	The effects of the sfr2, sfr3 and sfr6 mutations on lyotropic stress responses
11.8	99.3	GSM184634	Arabidopsis, root cells, 140 mM NaCl, replicate 1	GSE7636	Expression analysis of the effect of protoplasting and FACS sorting in roots
11.8	99.3	GSM131559	ATGE_9_B	GSE5631	AtGenExpress: Developmental series (roots)
11.6	99.3	GSM133762	Lindsey_1-14_torpedo-root_Rep1_ATH1	GSE5730	Transcriptional profiling of laser-capture micro-dissected embryonic tissues
11.4	99.3	GSM128877	Mittler_1-1_control_Rep1_ATH1	GSE5539	Over-expression of MBF1c enhances stress tolerance
11.3	99.3	ArrayExpress	E-MEXP-807-raw-cel-1173273116	-	-	-
11.3	99.3	GSM184499	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep3	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
11.2	99.2	ArrayExpress	E-MEXP-807-raw-cel-1173273196	-	-	-
11.1	99.2	ArrayExpress	E-TABM-126-raw-cel-1242542617	-	-	-
11.1	99.2	GSM184497	Endodermis&Pericycle root cells 2hr transitory KNO3 treated, biological rep1	GSE7631	Cell-specific nitrogen responses in the Arabidopsis root
10.7	99.2	GSM184921	Arabidopsis, root cells, stele, 140 mM NaCls, replicate 3	GSE7641	Expression analysis of root cell-types after treatment with salt
10.5	99.2	GSM128713	Thorlby_1-2_3h-post-freeze_REP3_ATH1	GSE5524	Gene Expression During Recovery from Freezing
10.1	99.2	GSM128879	Mittler_1-3_control_Rep3_ATH1	GSE5539	Over-expression of MBF1c enhances stress tolerance
10.1	99.2	GSM142882	CW001_ATH1_A1.1-WestC-wsu	GSE6178	Mechanisms of DNA double strand break repair in Arabidopsis non-homologous end joining mutants
10.0	99.2	ArrayExpress	E-MEXP-807-raw-cel-1173273088	-	-	-
10.0	99.2	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
9.8	99.1	GSM339544	Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis -6	GSE13469	Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis
9.7	99.1	GSM184920	Arabidopsis, root cells, stele, 140 mM NaCls, replicate 2	GSE7641	Expression analysis of root cell-types after treatment with salt
9.6	99.1	ArrayExpress	Evans_2-8_35s-FAD3-cold_ATH1	-	-	-
9.2	99.1	GSM339546	Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis -8	GSE13469	Environmental regulation of leaf colour in red 35S:PAP1 Arabidopsis
8.6	99.0	ArrayExpress	E-MEXP-98-raw-cel-320188914	-	-	-

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Gene ID	At4g25490
Gene name	CBF1 (C-REPEAT/DRE BINDING FACTOR 1)
Functional description	Transcriptional activator that binds to the DRE/CRT regulatory element and induces COR (cold-regulated) gene expression increasing plant freezing tolerance. It encodes a member of the DREB subfamily A-1 of ERF/AP2 transcription factor family (CBF1). The protein contains one AP2 domain. There are six members in this subfamily, including CBF1, CBF2, and CBF3. This gene is involved in response to low temperature and abscisic acid.