Gene Expression Omnibus (GEO) Overview

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.

Bacteria
(1,636)

Viruses
(78)

Phages
(8)

Unclassified
(399)

All
(11,528)

SAGE NlaIII
(0)

SAGE RsaI
(0)

SAGE Sau3A
(0)

MPSS
(0)

GeneChip
(87)

Tiling Array
(49)

cDNA Array
(284)

Oligo Array
(1,073)

Bead Array
(0)

Protein Array
(0)

Antibody
(0)

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	Platform ID	Title	Number of the probes	Institute	Submission date	Manufacturer	Species	Platform class	Reasoning of the classification Keywords used for the classification are shown with bold font.
21	GPL3842	XCC 4.3K cDNA array	12,768	CapitalBio Corporation	2006-06-06	CapitalBio	Xanthomonas campestris pv. campestris	cDNA Array	spotted DNA/cDNA, XCC 4.3K cDNA array,
22	GPL7115	Microarray of P. syringae pv phaseolicola NPS3121	12,672	Centro de InvestigaciÃƒÂ³n y de Estudios Avanzados del Instituto PolitÃƒÂ©cnico Nacional	2008-07-30	Cinvestav Campus Guanajuato	Pseudomonas syringae pv. phaseolicola	cDNA Array	spotted DNA/cDNA, Microarray of P. syringae pv phaseolicola NPS3121, All samples were printed in triplicate in a contiguous arrangement of 12 grids of 24 rows x 24 columns. The microarray was printed twice in the same slide. The printed conditions were: 20oC of temperature and 60% of humidity.
23	GPL11088	Synechocystis sp. strain PCC 6803 12K full genome array version 4	12,288	University of Otago	2010-10-21	Robert Burnap Oklahoma State University, Lou Sherman Purdue University	Synechocystis sp. PCC 6803	cDNA Array	spotted DNA/cDNA, Synechocystis sp. strain PCC 6803 12K full genome array version 4,
24	GPL3397	ECD3	12,288	Stanford Microarray Database (SMD)	2006-01-27	John,,Matese; Lewis-Sigler Institute for Integrative Genomics, Carl Icahn Laboratory, Room 135, Princeton, NJ, United States; (609) 258-8309; jcmatese@genomics.princeton.edu	Escherichia coli	cDNA Array	spotted DNA/cDNA, ECD3,
25	GPL6779	AsalChip2 (NRC-IBS Aeromonas salmonicida A449)	12,288	National Research Council	2008-04-24	NRC-BRI	Aeromonas salmonicida subsp. salmonicida A449	cDNA Array	spotted DNA/cDNA, AsalChip2 (NRC-IBS Aeromonas salmonicida A449), PCR primers were designed for 4293 ORFs from the completed genomic sequence of Aeromonas salmonicida A449 which comprises 4413 ORFs on one chromosome and two large plasmids. Good amplicons of length greater than 160 nt were obtained for 4237 ORFs representing >95% coverage of ORFs. All amplicons are spotted in duplicate on the microarray and sheared total genomic DNA from A. salmonicida and salmon DNA were spotted in the corners of each subarray as controls.
26	GPL965	Synechocysis sp. PCC6803 full genome array version 1	12,288	Oklahoma State University	2004-01-28		Synechocystis sp. PCC 6803	cDNA Array	spotted DNA/cDNA, Synechocysis sp. PCC6803 full genome array version 1, Construction and Preparation of Synechocystis Spotted Microarrays: 3168 genes or putative ORFs of Synechocystis sp. PCC6803 were PCR amplified in two stages. Primary amplification was achieved using gene-specific up-stream and down-stream primers modified with adaptamer sequences and genomic DNA template. Secondary amplification was achieved using adaptamer primers and individual primary PCR product templates. The quality of the PCR products was determined by agarose gel electrophoresis. The PCR products were purified using Millipore Multi-screen plates and resuspended in Micro Spotting buffer (TeleChem; Sunnyvale, CA) to a concentration of 500ng/ul. Each probe was then printed (spotted) in triplicate onto TeleChem SuperAmine substrates at room temperature and 50% relative humidity using a GeneMachines Omnigrid 100 (Genomic Solutions; Ann Arbor, MI) robot fitted with 4x4 TeleChem SMP4 pins. After printing, each slide was rehydrated by holding the slide with the array side down over a container of steaming water for 1 s and snap-dried on a warm hot plate. Printed slides were baked at 80Ã‚Â°C for 1 h and then subjected to a UV-cross-linking at a dose of 1500 mJ cm2. Slides with immobilized probes were then stored in slide holders and placed in a desiccator at room temperature.
27	GPL5161	Bacillus cereus ATCC 14579 amplicon-based 12k microarray	11,664	Wageningen UR	2007-05-14	MolGen, Groningen	Bacillus cereus ATCC 14579	cDNA Array	spotted DNA/cDNA, Bacillus cereus ATCC 14579 amplicon-based 12k microarray,
28	GPL2620	ScoKao_03-05-20	11,520	Stanford Microarray Database (SMD)	2005-07-11	Tina,,Boussard; School of Medicine, Department of Genetics, Stanford, CA, United States, 94305; 650-736-0077; boussard@genome.stanford.edu	Streptomyces coelicolor	cDNA Array	spotted DNA/cDNA, ScoKao_03-05-20,
29	GPL2697	Rhodopseudomonas palustris whole genome microarray	11,520	University of Washington	2005-07-28	Environmental Sciences Division, Oak Ridge National Laboratory	Rhodopseudomonas palustris	cDNA Array	spotted DNA/cDNA, Rhodopseudomonas palustris whole genome microarray,
30	GPL3253	ORNL Shewanella oneidensis 11.5k array	11,520	Harvard Medical School	2005-12-14	Oak Ridge National Laboratory	Shewanella oneidensis MR-1	cDNA Array	spotted DNA/cDNA, ORNL Shewanella oneidensis 11.5k array, The ArrayItÃ‚Â® brand SuperAmine 2 Microarray Substrates line represents the highest quality amine-containing substrate in the microarray industry. All of our substrates are polished to atomic flatness and manufactured in a state-of-the-art class 100 cleanrooms, with strict controls on particulate, biological and static contaminants, as well as temperature and humidity control.Ã‚Â These pristine glass substrates with reactive amine groups offer quality and performance that cannot be obtained from any other vendor.
31	GPL8410	University of Groningen Bacillus Cereus ATCC14579 11kv1	11,066	university of Groningen	2009-04-06	MolGen	Bacillus cereus ATCC 14579	cDNA Array	spotted DNA/cDNA, University of Groningen Bacillus Cereus ATCC14579 11kv1, Replicates indicated as _rep1 and _rep2
32	GPL1338	NIAID Group A Streptococcus	10,944	National Institute of Allergy and Infectious Diseases	2004-07-09		Streptococcus pyogenes	cDNA Array	spotted DNA/cDNA, NIAID Group A Streptococcus, Printing: NIAID/RML/LHBP Surface type: Gamma Amino Propyl Silane (Corning GAPS) coated glass Attachment: covalent, (UV-treated) Array description: The custom microarrays are manufactured by the Laboratory of Human Bacterial Pathogenesis (LHBP), Rocky Mountain Laboratories (RML), of the National Institute of Allergy and Infectious Diseases, National Institutes of Health (NIAID/NIH). Microarrays are printed with a Bio-Rad VersArray ChipWriter Pro robotic arrayer that is fitted with a 48 pin printhead and 32 SMP3 print tips from Telechem (http://www.arrayit.com). The GAS microarray probe set is based on ~500 bp PCR products for each open reading frame (ORF) from GAS strain SF370 (AE004092) and unique ORFs from GAS strains MGAS 8232 (AE009949), and MGAS 315 (AE014074). The probes are distributed into 384-well polypropylene plates (Whatman polyfiltronics) and dissolved in 3X SSC print buffer at a normalized 25 micromolar concentration. The microarray spot densities are 200 micrometers (center-to-center rows) and 240 micrometers (center-to-center columns). The microarrays are printed on Corning GAPS coated slides and post-processed according to the procedures recommended by the manufacturer.
33	GPL7689	Streptococcus agalactiae pan microarray (GBS_6)	10,800	Univeristy of Maryland Baltimore	2008-11-21	TIGR	Streptococcus agalactiae	cDNA Array	spotted DNA/cDNA, Streptococcus agalactiae pan microarray (GBS_6),
34	GPL7690	Streptococcus agalactiae pan microarray (GBS_2603_A909_515_1)	10,800	Univeristy of Maryland Baltimore	2008-11-21	TIGR	Streptococcus agalactiae	cDNA Array	spotted DNA/cDNA, Streptococcus agalactiae pan microarray (GBS_2603_A909_515_1),
35	GPL2619	ScoKao_02-08-14	10,368	Stanford Microarray Database (SMD)	2005-07-11	John,,Matese; Lewis-Sigler Institute for Integrative Genomics, Carl Icahn Laboratory, Room 135, Princeton, NJ, United States; (609) 258-8309; jcmatese@genomics.princeton.edu	Streptomyces coelicolor	cDNA Array	spotted DNA/cDNA, ScoKao_02-08-14,
36	GPL14587	Agilent-032957 Streptomyces bingchenggensis-1-1	10,238	Northeast Agricultural University	2011-09-19	Agilent Technologies	Streptomyces bingchenggensis BCW-1	cDNA Array	spotted DNA/cDNA, Agilent-032957 Streptomyces bingchenggensis-1-1,
37	GPL3406	STREP-6	9,984	Stanford Microarray Database (SMD)	2006-01-31	John,,Matese; Lewis-Sigler Institute for Integrative Genomics, Carl Icahn Laboratory, Room 135, Princeton, NJ, United States; (609) 258-8309; jcmatese@genomics.princeton.edu	Streptomyces coelicolor	cDNA Array	spotted DNA/cDNA, STREP-6,
38	GPL3407	STREP-7	9,984	Stanford Microarray Database (SMD)	2006-01-31	John,,Matese; Lewis-Sigler Institute for Integrative Genomics, Carl Icahn Laboratory, Room 135, Princeton, NJ, United States; (609) 258-8309; jcmatese@genomics.princeton.edu	Streptomyces coelicolor	cDNA Array	spotted DNA/cDNA, STREP-7,
39	GPL4472	ScoKao_02-04-29	9,936	Stanford University	2006-10-20	Stanford University	Streptomyces coelicolor	cDNA Array	spotted DNA/cDNA, ScoKao_02-04-29,
40	GPL2817	E. coli array print #3	9,600	University of California, Los Angeles	2005-09-07	Liao lab	Escherichia coli	cDNA Array	spotted DNA/cDNA, E. coli array print #3,

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