Gene Expression Omnibus (GEO) Overview

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DataSet	:	Series(GSE) x Platform(GPL). A set of related gene expression data.
Sample	:	Biological materials.
platform	:	Methods or instruments used for the gene expression profilings.

Human
(333)

Primates
(0)

Mammals
(0)

Bacteria
(78)

Viruses
(0)

Phages
(0)

Unclassified
(19)

All
(706)

SAGE NlaIII
(0)

SAGE RsaI
(0)

SAGE Sau3A
(0)

MPSS
(0)

GeneChip
(0)

Tiling Array
(0)

cDNA Array
(72)

Oligo Array
(6)

Bead Array
(0)

Protein Array
(0)

Antibody
(0)

RT-PCR
(0)

HT-Seq
(0)

Other
(0)

All
(78)

brain
(0)

blood
(0)

connective
(0)

reproductive
(0)

muscular
(0)

digestive
(0)

liver
(0)

lung
(0)

urinary
(0)

endo/exo-crine
(0)

embryo
(0)

adult aerial structure
(0)

young aerial structure
(0)

root
(0)

meristem/growing tissue
(0)

flower/sexual organ
(0)

seed/fruit/grain
(0)

pooled
(6)

unclassified
(72)

all
(78)

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	Sample ID	Title	Number of Data	Institute	Submission date	Platform	Sample type	Species	Organ class	Reasoning of the classification Keywords used for the classification are shown with bold font.
1	GSM365257	P. syringae pv.phaseolicola NPS3121 responses to bean pod extract biological replicate 1	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-01-28	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 with bean pod extract Pseudomonas syringae pv. phaseolicola NPS3121 title:P. syringae pv.phaseolicola NPS3121 responses to bean pod extract biological replicate 1 description:The bacterium P. syringae pv. phaseolicola is the causal agent of the Ã¢â‚¬Å“halo blightÃ¢â‚¬Â disease of beans (Phaseolus vulgaris L.). The disease attack both foliage and pods. Overnight culture of strain NPS3121 was used to inoculate the fresh minimal medium M9, and it was allowed to grow at 18 Ã‚Â°C to the mid exponential growth phase (A600 = 0.6).
2	GSM365258	P. syringae pv.phaseolicola NPS3121 responses to bean pod extract biological replicate 2	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-01-28	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 with bean pod extract Pseudomonas syringae pv. phaseolicola NPS3121 whitout bean pod extract title:P. syringae pv.phaseolicola NPS3121 responses to bean pod extract biological replicate 2 description:The bacterium P. syringae pv. phaseolicola is the causal agent of the Ã¢â‚¬Å“halo blightÃ¢â‚¬Â disease of beans (Phaseolus vulgaris L.). The disease attack both foliage and pods. Overnight culture of strain NPS3121 was used to inoculate the fresh minimal medium M9, and it was allowed to grow at 18 Ã‚Â°C to the mid exponential growth phase (A600 = 0.6).
3	GSM365259	P. syringae pv.phaseolicola NPS3121 responses to bean pod extract biological replicate 3	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-01-28	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 with bean pod extract Pseudomonas syringae pv. phaseolicola NPS3121 whitout bean pod extract title:P. syringae pv.phaseolicola NPS3121 responses to bean pod extract biological replicate 3 description:The bacterium P. syringae pv. phaseolicola is the causal agent of the Ã¢â‚¬Å“halo blightÃ¢â‚¬Â disease of beans (Phaseolus vulgaris L.). The disease attack both foliage and pods. Overnight culture of strain NPS3121 was used to inoculate the fresh minimal medium M9, and it was allowed to grow at 18 Ã‚Â°C to the mid exponential growth phase (A600 = 0.6).
4	GSM365261	P. syringae pv.phaseolicola NPS3121 responses to bean pod extract technical replicate 1	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-01-28	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 with bean pod extract Pseudomonas syringae pv. phaseolicola NPS3121 whitout bean pod extract title:P. syringae pv.phaseolicola NPS3121 responses to bean pod extract technical replicate 1 description:The bacterium P. syringae pv. phaseolicola is the causal agent of the Ã¢â‚¬Å“halo blightÃ¢â‚¬Â disease of beans (Phaseolus vulgaris L.). The disease attack both foliage and pods. Overnight culture of strain NPS3121 was used to inoculate the fresh minimal medium M9, and it was allowed to grow at 18 Ã‚Â°C to the mid exponential growth phase (A600 = 0.6).
5	GSM365264	P. syringae pv.phaseolicola NPS3121 responses to bean pod extract technical replicate 2	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-01-28	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 with bean pod extract Pseudomonas syringae pv. phaseolicola NPS3121 whitout bean pod extract title:P. syringae pv.phaseolicola NPS3121 responses to bean pod extract technical replicate 2 description:The bacterium P. syringae pv. phaseolicola is the causal agent of the Ã¢â‚¬Å“halo blightÃ¢â‚¬Â disease of beans (Phaseolus vulgaris L.). The disease attack both foliage and pods. Overnight culture of strain NPS3121 was used to inoculate the fresh minimal medium M9, and it was allowed to grow at 18 Ã‚Â°C to the mid exponential growth phase (A600 = 0.6).
6	GSM365265	P. syringae pv.phaseolicola NPS3121 responses to bean pod extract technical replicate 3	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-01-28	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 with bean pod extract Pseudomonas syringae pv. phaseolicola NPS3121 whitout bean pod extract title:P. syringae pv.phaseolicola NPS3121 responses to bean pod extract technical replicate 3 description:The bacterium P. syringae pv. phaseolicola is the causal agent of the Ã¢â‚¬Å“halo blightÃ¢â‚¬Â disease of beans (Phaseolus vulgaris L.). The disease attack both foliage and pods. Overnight culture of strain NPS3121 was used to inoculate the fresh minimal medium M9, and it was allowed to grow at 18 Ã‚Â°C to the mid exponential growth phase (A600 = 0.6).
7	GSM374071	P. syringae pv. phaseolicola NPS3121 responses to apoplastic fluid, biological replicate 1	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-02-24	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 with bean apoplastic fluid, biological replicate 1 Pseudomonas syringae pv. phaseolicola NPS3121 whitout extract title:P. syringae pv. phaseolicola NPS3121 responses to apoplastic fluid, biological replicate 1 description:P. syringae pv. phaseolicola NPS3121 were inoculated and grown on M9 medium at 18o C to an optical density of 0.6 (OD 600nm). The culture was then divided into two equal parts; to one culture apoplastic fluid of bean pod was added, while the other culture was used without extract additions. Both cultures were grown under the same conditions. Test culture for 6 hours, and control culture to reach a optical density similar to control culture.
8	GSM374072	P. syringae pv. phaseolicola NPS3121 responses to apoplastic fluid, technical replicate 1	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-02-24	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 with apoplastic fluid Pseudomonas syringae pv. phaseolicola NPS3121 whitout apoplastic fluid title:P. syringae pv. phaseolicola NPS3121 responses to apoplastic fluid, technical replicate 1 description:P. syringae pv. phaseolicola NPS3121 were inoculated and grown on M9 medium at 18o C to an optical density of 0.6 (OD 600nm). The culture was then divided into two equal parts; to one culture apoplastic fluid of bean pod was added, while the other culture was used without extract additions. Both cultures were grown under the same conditions. Test culture for 6 hours, and control culture to reach a optical density similar to control culture.
9	GSM374073	P. syringae pv. phaseolicola NPS3121 responses to apoplastic fluid biological replicate 2	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-02-24	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 with apoplastic fluid Pseudomonas syringae pv. phaseolicola NPS3121 whitout apoplastic fluid title:P. syringae pv. phaseolicola NPS3121 responses to apoplastic fluid biological replicate 2 description:P. syringae pv. phaseolicola NPS3121 were inoculated and grown on M9 medium at 18o C to an optical density of 0.6 (OD 600nm). The culture was then divided into two equal parts; to one culture apoplastic fluid of bean pod was added, while the other culture was used without extract additions. Both cultures were grown under the same conditions. Test culture for 6 hours, and control culture to reach a optical density similar to control culture.
10	GSM374074	P. syringae pv. phaseolicola NPS3121 responses to apoplastic fluid technical replicate 2	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-02-24	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 with apoplastic fluid Pseudomonas syringae pv. phaseolicola NPS3121 whitout apoplastic fluid title:P. syringae pv. phaseolicola NPS3121 responses to apoplastic fluid technical replicate 2 description:P. syringae pv. phaseolicola NPS3121 were inoculated and grown on M9 medium at 18o C to an optical density of 0.6 (OD 600nm). The culture was then divided into two equal parts; to one culture apoplastic fluid of bean pod was added, while the other culture was used without extract additions. Both cultures were grown under the same conditions. Test culture for 6 hours, and control culture to reach a optical density similar to control culture.
11	GSM374075	P. syringae pv. phaseolicola NPS3121 responses to apoplastic fluid biological replicate 3	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-02-24	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 with apoplastic fluid Pseudomonas syringae pv. phaseolicola NPS3121 whitout apoplastic fluid title:P. syringae pv. phaseolicola NPS3121 responses to apoplastic fluid biological replicate 3 description:P. syringae pv. phaseolicola NPS3121 were inoculated and grown on M9 medium at 18o C to an optical density of 0.6 (OD 600nm). The culture was then divided into two equal parts; to one culture apoplastic fluid of bean pod was added, while the other culture was used without extract additions. Both cultures were grown under the same conditions. Test culture for 6 hours, and control culture to reach a optical density similar to control culture.
12	GSM374076	P. syringae pv. phaseolicola NPS3121 responses to apoplastic fluid technical replicate 3	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-02-24	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 with apoplastic fluid Pseudomonas syringae pv. phaseolicola NPS3121 whitout apoplastic fluid title:P. syringae pv. phaseolicola NPS3121 responses to apoplastic fluid technical replicate 3 description:P. syringae pv. phaseolicola NPS3121 were inoculated and grown on M9 medium at 18o C to an optical density of 0.6 (OD 600nm). The culture was then divided into two equal parts; to one culture apoplastic fluid of bean pod was added, while the other culture was used without extract additions. Both cultures were grown under the same conditions. Test culture for 6 hours, and control culture to reach a optical density similar to control culture.
13	GSM374297	P. syringae pv. phaseolicola NPS3121 responses to bean leaf extract (biological replicate 1)	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-02-25	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	pooled	P. syringae pv. phaseolicola NPS3121 with bean leaf extract Pseudomonas syringae pv. phaseolicola NPS3121 whitout bean leaf extract
14	GSM374367	P. syringae pv. phaseolicola NPS3121 with bean leaf extract (technical replicate 1)	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-02-25	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	pooled	P. syringae pv. phaseolicola NPS3121 with bean pod extract Pseudomonas syringae pv. phaseolicola NPS3121 whithout bean leaf extract
15	GSM374368	P. syringae pv.phaseolicola NPS3121 responses to bean leaf extract (biological replicate 2)	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-02-25	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	pooled	P. syringae pv. phaseolicola NPS3121 whith bean leaf extract Pseudomonas syringae pv. phaseolicola NPS3121 whithout bean leaf extract
16	GSM374528	P. syringae pv.phaseolicola NPS3121 responses to bean leaf extract (technical replicate 2)	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-02-25	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	pooled	P. syringae pv. phaseolicola NPS3121 whith bean leaf extract Pseudomonas syringae pv. phaseolicola NPS3121 whithout bean leaf extract
17	GSM374551	P. syringae pv. phaseolicola NPS3121 responses to bean leaf extract (biological replicate 3)	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-02-25	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	pooled	P. syringae pv. phaseolicola NPS3121 with bean leaf extract P. syringae pv. phaseolicola NPS3121 without bean leaf extract
18	GSM374619	P. syringae pv. phaseolicola NPS3121 responses to bean leaf extract (technical replicate 3)	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-02-25	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	pooled	P. syringae pv. phaseolicola with bean leaf extract P. syringae pv. phaseolicola NPS3121 without bean leaf extract
19	GSM399774	gacA mutant vs. wild-type (Biological replicate 1)	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-05-03	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola NPS3121 wild type P. syringae pv. phaseolicola gacA mutant title:gacA mutant vs. wild-type (Biological replicate 1) description:The GacS/GacA two component signal transduction system controls important pathogenicity and virulence mechanisms in several Gram-negative bacteria. In the present study we hybridized a genomic microarray of P. syringae pv. phaseolicola NPS3121 to compare transcriptional profiles from wild type strain and a gacA- null mutant obtained in our laboratory with a Tox- phenotype when grown at 18Ã‚Â°C in minimal medium. Overall design Transcriptional profiles of a P. syringae pv. phaseolicola NPS3121 null gacA mutant were compared to those of the wild-type strain. Cultures were grown in minimal medium at 18Ã‚Â°C (which is the temperature at which phaseolotoxin is produced and the bacteria achieves full virulence) and harvested during the late log phase of the exponential growth. RNA from three biological replicates and each with two technical replicates were hybridize to control variation that might affect data interpretation.
20	GSM399775	gacA mutant vs. wild-type (Technical replicate 1)	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2009-05-03	[cDNA Array] Microarray of P. syringae pv phaseolicola NPS3121 (GPL7115)	RNA	Pseudomonas syringae pv. phaseolicola	unclassified	source_name:P. syringae pv. phaseolicola gacA mutant P. syringae pv. phaseolicola NPS3121 wild type title:gacA mutant vs. wild-type (Technical replicate 1) description:The GacS/GacA two component signal transduction system controls important pathogenicity and virulence mechanisms in several Gram-negative bacteria. In the present study we hybridized a genomic microarray of P. syringae pv. phaseolicola NPS3121 to compare transcriptional profiles from wild type strain and a gacA- null mutant obtained in our laboratory with a Tox- phenotype when grown at 18Ã‚Â°C in minimal medium. Overall design Transcriptional profiles of a P. syringae pv. phaseolicola NPS3121 null gacA mutant were compared to those of the wild-type strain. Cultures were grown in minimal medium at 18Ã‚Â°C (which is the temperature at which phaseolotoxin is produced and the bacteria achieves full virulence) and harvested during the late log phase of the exponential growth. RNA from three biological replicates and each with two technical replicates were hybridize to control variation that might affect data interpretation.

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