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
(2,851)

Bacteria
(78)

Viruses
(0)

Phages
(0)

Unclassified
(120)

All
(6,302)

SAGE NlaIII
(0)

SAGE RsaI
(0)

SAGE Sau3A
(0)

MPSS
(0)

GeneChip
(15)

Tiling Array
(0)

cDNA Array
(6)

Oligo Array
(50)

Bead Array
(0)

Protein Array
(0)

Antibody
(0)

RT-PCR
(0)

HT-Seq
(0)

Other
(7)

All
(78)

brain
(0)

blood
(4)

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
(0)

unclassified
(74)

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	GSM33583	JRS4 9-29A	7,344	University of Maryland, College Park	2004-10-26	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M6 serotype GAS JRS4 genomic DNA from M6 serotype GAS JRS4 title:JRS4 9-29A description:Total RNA was isolated by CsCl method, cDNA was labled using CyScribe Post labeling kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean-B635, F532 mean-B532, flags) from gpr file was analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
2	GSM33597	JRS4 9-29B	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M6 serotype GAS JRS4 genomic DNA from M6 serotype GAS JRS4 title:JRS4 9-29B description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
3	GSM33598	JRS4 1-2A	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M6 serotype GAS JRS4 genomic DNA from M6 serotype GAS JRS4 title:JRS4 1-2A description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
4	GSM33599	JRS4 1-2B	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M6 serotype GAS JRS4 genomic DNA from M6 serotype GAS JRS4 title:JRS4 1-2B description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
5	GSM33600	JRS519 9-29A	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M6 serotype GAS JRS519 genomic DNA from M6 serotype GAS JRS4 title:JRS519 9-29A description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
6	GSM33601	JRS519 9-29B	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M6 serotype GAS JRS519 genomic DNA from M6 serotype GAS JRS4 title:JRS519 9-29B description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
7	GSM33602	JRS519 1-2A	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M6 serotype GAS JRS519 genomic DNA from M6 serotype GAS JRS4 title:JRS519 1-2A description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
8	GSM33603	JRS519 1-2B	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M6 serotype GAS JRS519 genomic DNA from M6 serotype GAS JRS4 title:JRS519 1-2B description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
9	GSM33606	SF370 6-23A	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M1 serotype GAS SF370 genomic DNA from M1 serotype GAS SF370 title:SF370 6-23A description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
10	GSM33607	SF370 6-23B	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M1 serotype GAS SF370 genomic DNA from M1 serotype GAS SF370 title:SF370 6-23B description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
11	GSM33608	SF370 12-31A	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M1 serotype GAS SF370 genomic DNA from M1 serotype GAS SF370 title:SF370 12-31A description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
12	GSM33609	SF370 12-31B	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M1 serotype GAS SF370 genomic DNA from M1 serotype GAS SF370 title:SF370 12-31B description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
13	GSM33610	KSM165L 6-23A	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M1 serotype GAS KSM165L genomic DNA from M1 serotype GAS SF370 title:KSM165L 6-23A description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
14	GSM33611	KSM165L 6-23B	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M1 serotype GAS KSM165L genomic DNA from M1 serotype GAS SF370 title:KSM165L 6-23B description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
15	GSM33612	KSM165L 12-31A	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M1 serotype GAS KSM165L genomic DNA from M1 serotype GAS SF370 title:KSM165L 12-31A description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
16	GSM33613	KSM165L 12-31B	7,344	University of Maryland, College Park	2004-10-27	[Oligo Array] M1, M3, M18 GAS Array (GPL1482)	RNA	Streptococcus pyogenes	unclassified	source_name:CsCl total RNA from M1 serotype GAS KSM165L genomic DNA from M1 serotype GAS SF370 title:KSM165L 12-31B description:Total RNA was isolated by CsCl method, cDNA was labeled using CyScribe Post Lbeleing kit from Amersham. Genomic DNA was labeled using Nick Translation kit from Amersham. Labeled probes were purified with GFX columns and incorporation rates were determined using a nanodrop. Approximately equal amounts of cDNA/gDNA were denatured and hybridized to arrays at 50C overnight followed by subsequent washes. Arrays were scanned using GenePix software. Output data (F635 mean -B635, F532 mean -B532, flags) from gpr file were analyzed to remove spots that did not exceed 2SD above a background threshold. Remaining spots were normalized and ratios of cDNA to gDNA were calculated.
17	GSM37063	glucose1	7,312	University of Wisconsin-Madison	2004-12-03	[GeneChip] [Ecoli_ASv2] Affymetrix E. coli Antisense Genome Array (GPL199)	RNA	Escherichia coli	unclassified	source_name:E. coli cell title:glucose1 description:The study investigated the effect of different carbon sources on E. coli global gene expression. We grew MG1655 cells aerobically in MOPS minimal medium with either glucose, glycerol, succinate, L-alanine, acetate, or L-proline as the carbon supply. Samples were taken from each culture at mid log phase and were RNA-stabilized using Qiagen RNAProtect Bacterial Reagent (Qiagen). Total RNA was then isolated using MasterPure kits (Epicentre Technologies). Purified RNA was reverse-transcribed to cDNA, labeled and hybridized to Affymetrix GeneChipÃƒâ€™ E. coli Antisense Genome Arrays as recommended in the technical manual (www.affymetrix.com). This sample is from glucose-grown cells.
18	GSM37064	glucose2	7,312	University of Wisconsin-Madison	2004-12-03	[GeneChip] [Ecoli_ASv2] Affymetrix E. coli Antisense Genome Array (GPL199)	RNA	Escherichia coli	unclassified	source_name:E. coli cell title:glucose2 description:The study investigated the effect of different carbon sources on E. coli global gene expression. We grew MG1655 cells aerobically in MOPS minimal medium with either glucose, glycerol, succinate, L-alanine, acetate, or L-proline as the carbon supply. Samples were taken from each culture at mid log phase and were RNA-stabilized using Qiagen RNAProtect Bacterial Reagent (Qiagen). Total RNA was then isolated using MasterPure kits (Epicentre Technologies). Purified RNA was reverse-transcribed to cDNA, labeled and hybridized to Affymetrix GeneChipÃƒâ€™ E. coli Antisense Genome Arrays as recommended in the technical manual (www.affymetrix.com). This sample is from glucose-grown cells.
19	GSM37065	glucose3	7,312	University of Wisconsin-Madison	2004-12-03	[GeneChip] [Ecoli_ASv2] Affymetrix E. coli Antisense Genome Array (GPL199)	RNA	Escherichia coli	unclassified	source_name:E. coli cell title:glucose3 description:The study investigated the effect of different carbon sources on E. coli global gene expression. We grew MG1655 cells aerobically in MOPS minimal medium with either glucose, glycerol, succinate, L-alanine, acetate, or L-proline as the carbon supply. Samples were taken from each culture at mid log phase and were RNA-stabilized using Qiagen RNAProtect Bacterial Reagent (Qiagen). Total RNA was then isolated using MasterPure kits (Epicentre Technologies). Purified RNA was reverse-transcribed to cDNA, labeled and hybridized to Affymetrix GeneChipÃƒâ€™ E. coli Antisense Genome Arrays as recommended in the technical manual (www.affymetrix.com). This sample is from glucose-grown cells.
20	GSM37066	glucose4	7,312	University of Wisconsin-Madison	2004-12-03	[GeneChip] [Ecoli_ASv2] Affymetrix E. coli Antisense Genome Array (GPL199)	RNA	Escherichia coli	unclassified	source_name:E. coli cell title:glucose4 description:The study investigated the effect of different carbon sources on E. coli global gene expression. We grew MG1655 cells aerobically in MOPS minimal medium with either glucose, glycerol, succinate, L-alanine, acetate, or L-proline as the carbon supply. Samples were taken from each culture at mid log phase and were RNA-stabilized using Qiagen RNAProtect Bacterial Reagent (Qiagen). Total RNA was then isolated using MasterPure kits (Epicentre Technologies). Purified RNA was reverse-transcribed to cDNA, labeled and hybridized to Affymetrix GeneChipÃƒâ€™ E. coli Antisense Genome Arrays as recommended in the technical manual (www.affymetrix.com). This sample is from glucose-grown cells.

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