Gene Expression Omnibus (GEO) Overview Version：2013-06-15Japanese page
An overview of the GEO entries broken down by the measurement platforms and the features of the measured samples.
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Data Unit : [ DataSet / Sample / Platform ] Show explanation>> <<Hide explanation
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.
The numbers shown in the tabs are the numbers of the data (series, samples or platforms) belonging to the groups.
  Human
(3,761)		   Primates
(39)		   Rodents
(1,779)		   Mammals
(312)		   Vertebrates
(411)		   Invertebrates
(1,032)		   Plants
(2,239)		   Bacteria
(1,690)		   Viruses
(78)		   Phages
(8)		   Unclassified
(430)		   All
(11,831)		  
  SAGE NlaIII
(83)		   SAGE RsaI
(1)		   SAGE Sau3A
(5)		   MPSS
(17)		   GeneChip
(707)		   Tiling Array
(1,271)		   cDNA Array
(2,729)		   Oligo Array
(5,160)		   Bead Array
(186)		   Protein Array
(1)		   Antibody
(24)		   RT-PCR
(155)		   HT-Seq
(1,342)		   Other
(142)		   All
(11,831)		  
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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.
1 GPL1624 PorkChip 2,600 cDNA array 12,288 University of Minneosta 2004-10-29 Sus scrofa
Sus scrofa domestica		 RT-PCR spotted DNA/cDNA, PorkChip 2,600 cDNA array, Spotted cDNA array on glass. This set includes approximately 2,600 cDNA clones, selected from a Peyer’s patch subtracted library and other sources. The PorkChip2 cDNA microarray contains 2,423 ESTs from the subtracted jejunal Peyer’s patch library (UMNMPM3), 10 ESTs from the normal jejunal Peyer’s patch library (UMNMPM1), and 26 ESTs from the immune-stimulated jejunal Peyer’s patch library (UMNMPM2), which were cloned using the GeneTrapper cDNA Positive Selection System and pCMVSport6 vector (Invitrogen Corporation, Carlsbad, CA) (2). Each array also contains 86 ESTs identified by differential display RT-PCR (DD-RT-PCR) of PRRSV-infected macrophages (Library: PRRSV DD-RT-PCR)(5), 19 ESTs identified by DD-RT-PCR of influenza-infected porcine epithelial PK-15 cells (Library: UMNMPM4), 40 porcine genes, which were the result of directed cloning efforts (Library: Sus scrofa gene), and 7 porcine reproductive and respiratory syndrome virus strain VR-2332 sequences (Library: PRRSV) positive and negative controls (Library: Control). Positive controls included 8 Ambion ArrayControl sequences. The plasmid inserts were amplified by two rounds of nested PCR using vector-specific primers. The products from the second round PCR were cleaned by the Montage PCR(96) kit (Millipore, Billerica, MA) and were run on 0.8% agarose gels to quantify the amount of DNA by comparison to standards run on each gel. The dried PCR products were resuspended in phosphate buffer (150 mM sodium phosphate and 1 mM EDTA (pH 8.5)) at a final concentration of 100-300 ng/microliter and transferred to 384 well plates. A BioRobotics MicroGrid II (BioRobotics Ltd., Haslingfield, Cambridge, UK) arrayed the DNA on slides coated with poly-L-lysine (Sigma, St. Louis, MO)(3). Elements were arranged in 48 subarrays of 16 X 16, for a total of 12,288 spots per microarray, with each clone represented in by 4 spots. The slides were baked for 15 min at 80 C, UV irradiated (65 mJ), and chemically blocked with 1-methyl-2-pyrrolidinone and succinic anhydride (4) and were stored at room temperature under vacuum until use. The quality of each printing run was verified by staining one slide with SYBR Gold (Molecular Probes, Eugene, OR) and scanning at 488/530 nm (Excitation/ Emission) (1). Platform_references: 1. Battaglia C, Salani G, Consolandi C, Bernardi LR, and De Bellis G. Analysis of DNA microarrays by non-destructive fluorescent staining using SYBR green II. Biotechniques 29: 78-81, 2000. 2. Dvorak CMT, Hyland KA, Machado JG, Zhang Y, Fahrenkrug SC, and Murtaugh MP. Gene discovery and expression profiling in porcine Peyer's patch. Vet Immunol Immunopathol, submitted, 2004. 3. Eisen MB and Brown O. DNA arrays for analysis of gene expression. Methods Enzymol 303: 179-205, 1999. 4. Shalon D, Smith SJ, and Brown PO. A DNA microarray system for analyzing complex DNA samples using two-color fluorescent probe hybridization. Genome Res 6: 639-645, 1996. 5. Zhang X, Shin J, Molitor TW, Schook LB, and Rutherford MS. Molecular responses of macrophages to porcine reproductive and respiratory syndrome virus infection. Virology 262: 152-162, 1999. Keywords = small intestine, cDNA, pig
2 GPL10963 PFGRC Staphylococcus_aureus_full_genome_RT-PCR 2,647 J Craig Venter Institute 2010-09-23 Staphylococcus aureus
Staphylococcus aureus		 RT-PCR RT-PCR, PFGRC Staphylococcus_aureus_full_genome_RT-PCR, Full genome Staphylococcus aureus qRT-PCR
3 GPL11111 Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S 0.3K 288 J Craig Venter Institute 2010-10-25 Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S		 RT-PCR RT-PCR, Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S 0.3K,
4 GPL2847 Applied Biosystems TaqMan Gene Expression Assays (rat) 150,478 Life Technologies 2005-09-14 Applied Biosystems Rattus norvegicus
Rattus norvegicus		 RT-PCR RT-PCR, Applied Biosystems TaqMan Gene Expression Assays (rat), Pre-designed TaqMan probe and primer sets for quantitative gene expression studies of rat genes.
5 GPL16145 Applied Biosystems Open Array Custom Assays (rat) 110 Ontario Institute of Cancer Research 2012-10-05 Applied Biosystems Rattus norvegicus
Rattus norvegicus		 RT-PCR RT-PCR, Applied Biosystems Open Array Custom Assays (rat), PCR assay
6 GPL16146 Applied Biosystems qPCR Custom Assays (rat) 105 Ontario Institute of Cancer Research 2012-10-05 Applied Biosystems Rattus norvegicus
Rattus norvegicus		 RT-PCR RT-PCR, Applied Biosystems qPCR Custom Assays (rat), PCR assay
7 GPL13888 Weiss SABiosciences Custom RT-PCR profiler array CAPR 100083, 96, v1.0 96 Kansas State University 2011-07-12 SABiosciences - Qiagen Rattus norvegicus
Rattus norvegicus		 RT-PCR RT-PCR, Weiss SABiosciences Custom RT-PCR profiler array CAPR 100083, 96, v1.0, rat ESC RT-PCR custom array, see information on layout of array below, see PCR efficiency data provided by manufacturer, below. SABiosciences RT² Profiler panel of PCR assays.
8 GPL14605 Applied Biosystems Low Density Taquman Rat Inflammatory Array 96 University of South Carolina-School of Medicine 2011-09-22 Applied Biosystems Rattus norvegicus
Rattus norvegicus		 RT-PCR RT-PCR, Applied Biosystems Low Density Taquman Rat Inflammatory Array, see manufacturer's website
9 GPL1793 Rainbow trout sex differentiation cascade-related genes investigated using RT-PCR 102 Institut National de la Recherche Agronomique-INRA 2005-01-12 Oncorhynchus mykiss
Oncorhynchus mykiss		 RT-PCR RT-PCR, Rainbow trout sex differentiation cascade-related genes investigated using RT-PCR, Virtual platform listing sex differentiation cascade-related candidate genes investigated using RT-PCR.
10 GPL10331 TaqMan® Rodent miRNA A+B Cards Set v2.0 471 health canada 2010-04-15 Applied Biosystem Mus musculus,Rattus norvegicus
Mus musculus,Rattus norvegicus		 RT-PCR RT-PCR, TaqMan® Rodent miRNA A+B Cards Set v2.0, The TaqMan® Rodent MicroRNA Array Set v2.0 is a two card set containing a total of 364 TaqMan® MicroRNA Assays per card. The set enables accurate quantitation of 518 and 303 unique microRNAs for mouse and rat respectively in as little as 5 hours. Included on each array is three TaqMan® MicroRNA Assay endogenous controls for each species to aid in data normalization and one TaqMan® MicroRNA Assay not related to human as a negative control. Details on the included assays is available in the Target List file. Purchase of the Megaplex RT Primers, Rodent Pool Set is required to run this array set. An additional preamplification step is enabled by Megaplex PreAmp Primers, Rodent Pool Set for situations where sensitivity is of the utmost importance and/or sample is limiting.
11 GPL11636 TaqMan® Rodent miRNA card A v2.0 384 Stanford University School of Medicine 2011-01-20 Mus musculus,Rattus norvegicus
Mus musculus,Rattus norvegicus		 RT-PCR RT-PCR, TaqMan® Rodent miRNA card A v2.0, A Card Content: MicroRNAs of demonstrated interest to the research community (these tend to be functionally defined, broadly expressed and/or highly expressed).
12 GPL11637 TaqMan® Rodent miRNA Card B v2.0 384 Stanford University School of Medicine 2011-01-20 Mus musculus,Rattus norvegicus
Mus musculus,Rattus norvegicus		 RT-PCR RT-PCR, TaqMan® Rodent miRNA Card B v2.0, B Card Content: MicroRNAs less extensively studied (these tend to have less defined functions, be narrowly expressed, and/or be expressed at a low level).
13 GPL14646 TaqMan Rodent MicroRNA A Array v2.0 384 Stanford University 2011-10-02 Applied Biosystems Mus musculus,Rattus norvegicus
Mus musculus,Rattus norvegicus		 RT-PCR RT-PCR, TaqMan Rodent MicroRNA A Array v2.0, TaqMan array rodent microRNA A Card v2.0 Real-time PCR based microRNA microarrays
14 GPL15350 Applied Biosystems TaqMan Rodent MicroRNA Array A 384 SBMRI 2012-03-14 Applied Biosystems Mus musculus,Rattus norvegicus
Mus musculus,Rattus norvegicus		 RT-PCR RT-PCR, Applied Biosystems TaqMan Rodent MicroRNA Array A, PCR assay Standard TaqMan Assay
15 GPL15351 Applied Biosystems TaqMan Rodent MicroRNA Array B 384 SBMRI 2012-03-14 Applied Biosystems Mus musculus,Rattus norvegicus
Mus musculus,Rattus norvegicus		 RT-PCR RT-PCR, Applied Biosystems TaqMan Rodent MicroRNA Array B, PCR assay Standard TaqMan Assay
16 GPL16178 TaqMan Rodent microRNA A Card v3.0 381 Kennedy Institute of Rheumatology 2012-10-15 Applied Biosystems Mus musculus,Rattus norvegicus
Mus musculus,Rattus norvegicus		 RT-PCR RT-PCR, TaqMan Rodent microRNA A Card v3.0,
17 GPL2850 Applied Biosystems TaqMan Gene Expression Assays (mouse) 175,755 Life Technologies 2005-09-15 Applied Biosystems Mus musculus
Mus musculus		 RT-PCR RT-PCR, Applied Biosystems TaqMan Gene Expression Assays (mouse), Pre-designed TaqMan probe and primer sets for quantitative gene expression studies of mouse genes.
18 GPL11665 Mouse Immunology 384 StellARrayâ„¢ qPCR Array plates (# 00188202) 778 Imperial College London 2011-01-27 Lonza/Bar Harbor Biotechnology Mus musculus
Mus musculus		 RT-PCR RT-PCR, Mouse Immunology 384 StellARrayâ„¢ qPCR Array plates (# 00188202), This GEO Platform record represents two different plates, one custom made by Bar Harbor labs and another commercially available. This is designated by the 'plate' column in the Platform table below.
19 GPL11199 Applied Biosystems Mouse Taqman miRNA Expression Assays A and B 768 Mayo Clinic 2010-11-11 Applied Biosystems Mus musculus
Mus musculus		 RT-PCR RT-PCR, Applied Biosystems Mouse Taqman miRNA Expression Assays A and B, Cards A and B.
20 GPL15466 TaqMan® Rodent MicroRNA Array v3.0 A/B 768 Renji Hospital, JiaoTong University School of Medicine 2012-04-19 Applied Biosystems Mus musculus
Mus musculus		 RT-PCR RT-PCR, TaqMan® Rodent MicroRNA Array v3.0 A/B, PCR assay
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