Gene Expression Omnibus (GEO) Overview Version:2014-04-12Japanese 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
(3,985)
  Primates
(80)
  Rodents
(1,907)
  Mammals
(359)
  Vertebrates
(450)
  Invertebrates
(1,139)
  Plants
(2,490)
  Bacteria
(1,901)
  Viruses
(90)
  Phages
(11)
  Unclassified
(542)
  All
(13,032)
 
  SAGE NlaIII
(83)
  SAGE RsaI
(1)
  SAGE Sau3A
(5)
  MPSS
(18)
  GeneChip
(809)
  Tiling Array
(1,310)
  cDNA Array
(2,770)
  Oligo Array
(5,679)
  Bead Array
(210)
  Protein Array
(1)
  Antibody
(28)
  RT-PCR
(209)
  HT-Seq
(1,710)
  Other
(187)
  All
(13,032)
 
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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.
81 GPL17456 SABiosciences Human breast cancer pathway-focused miScript miRNA PCR array 84 Baylor College of Medicine 2013-07-16 SABiosciences Homo sapiens
Homo sapiens
RT-PCR RT-PCR, SABiosciences Human breast cancer pathway-focused miScript miRNA PCR array, PCR assay miScript miRNA PCR Array
82 GPL16382 SABiosciences Human (normal respiratory epithelia and lung cancer cells) miRNA PCR array assay panel 384 NCI-Frederick 2012-12-17 SABiosciences Homo sapiens
Homo sapiens
RT-PCR RT-PCR, SABiosciences Human (normal respiratory epithelia and lung cancer cells) miRNA PCR array assay panel, PCR assay SABiosciences Human Genome RT2 miRNA PCR Array.
83 GPL16739 SABiosciences TGFβ/BMP Signaling Pathway PCR array 96 Istituto Superiore di Sanità 2013-03-01 SABiosciences Mus musculus
Mus musculus
RT-PCR RT-PCR, SABiosciences TGFβ/BMP Signaling Pathway PCR array, TGFβ/BMP Signaling Pathway PCR arrayPCR assay SABiosciences RT² Profiler panel of PCR assays.
84 GPL15910 SA Biosciences Toll-like Receptor PCR Array 89 University of Texas at San Antonio 2012-08-08 SA Biosciences Mus musculus
Mus musculus
RT-PCR RT-PCR, SA Biosciences Toll-like Receptor PCR Array, PCR assay SABiosciences RT² Profiler panel of PCR assays.
85 GPL16779 SA Biosciences Rat Skeletal Muscle Development and Disease RT2 Profiler PCR Array 96 University of Florida 2013-03-11 SA Biosciences Rattus norvegicus
Rattus norvegicus
RT-PCR RT-PCR, SA Biosciences Rat Skeletal Muscle Development and Disease RT2 Profiler PCR Array, PCR assay SABiosciences RT² Profiler panel of PCR assays.
86 GPL16426 SA Biosciences Mouse lung gene expression array 45 Indiana University School of Medicine-Northwest 2012-12-24 Qiagen/SA Biosciences Mus musculus
Mus musculus
RT-PCR RT-PCR, SA Biosciences Mouse lung gene expression array, Quantitative reverse transcription real-time PCR (qRT-PCR)
87 GPL15911 SA Biosciences Jak/STAT Signal Transduction PCR Array 89 University of Texas at San Antonio 2012-08-08 SA Biosciences Mus musculus
Mus musculus
RT-PCR RT-PCR, SA Biosciences Jak/STAT Signal Transduction PCR Array, PCR assay SABiosciences RT² Profiler panel of PCR assays.
88 GPL14907 SA Biosciences Human Genome V2.0 miRNA PCR Arrays: MAH-3200 (MAH-3100 & MAH-3101) 768 University of Pittsburgh 2011-11-21 SA Biosciences - A Qiagen Company Homo sapiens
Homo sapiens
RT-PCR RT-PCR, SA Biosciences Human Genome V2.0 miRNA PCR Arrays: MAH-3200 (MAH-3100 & MAH-3101),
89 GPL5152 RT^2 Profiler PCR Array Mouse Angiogenesis (PAMM-024A) 90 Lab of Bioeffects of Nanosized Materials, Institute of High Energy Physics 2007-05-09 Mus musculus
Mus musculus
RT-PCR RT-PCR, RT^2 Profiler PCR Array Mouse Angiogenesis (PAMM-024A), We synthesize a novel nanoparticle with functional surface coating, which inhibits tumor growth without detectable cytotoxicities by suppress angiogenesis in the tumor mass. Quantitative counting RTPCR-array analysis was used to evalute the pro-angiogenic factor(s) on mRNA level.
90 GPL17945 RT2 ProfilerTM PCR array related to allergy and asthma (PAMM-067A) 96 Institute of Health Biosciences The University of Health Biosciences 2013-11-18 SABiosciences Mus musculus
Mus musculus
RT-PCR RT-PCR, RT2 ProfilerTM PCR array related to allergy and asthma (PAMM-067A), PCR assay SABiosciences RT² Profiler panel of PCR assays.
91 GPL17991 RT-qPCR array 2 (64 genes) 63 University of New South Wales 2013-11-25 Generated in-house Mus musculus
Mus musculus
RT-PCR RT-PCR, RT-qPCR array 2 (64 genes), The qPCR primers were designed using Primer3 web based software (Nucleic Acids Research 40(15):e115) or from PrimerBank ( Nucl. Acids Res. 2010 38:D792-9). Each primer pair was tested on RT-qPCR with single distinctive melting curve and then run on agarose gel (2%) with a single bend of right predicted size. Primer spotting and qPCR setting used epMotion automated pipetting systems (Eppendorf International)
92 GPL17990 RT-qPCR array 1 (64 genes) 63 University of New South Wales 2013-11-25 Generated in-house Mus musculus
Mus musculus
RT-PCR RT-PCR, RT-qPCR array 1 (64 genes), The qPCR primers were designed using Primer3 web based software (Nucleic Acids Research 40(15):e115) or from PrimerBank ( Nucl. Acids Res. 2010 38:D792-9). Each primer pair was tested on RT-qPCR with single distinctive melting curve and then run on agarose gel (2%) with a single bend of right predicted size. Primer spotting and qPCR setting used epMotion automated pipetting systems (Eppendorf International)
93 GPL10457 Rosetta human miRNA qPCR array 220 Merck & Co., Inc. 2010-05-22 Rosetta Inpharmatics Homo sapiens
Homo sapiens
RT-PCR RT-PCR, Rosetta human miRNA qPCR array,
94 GPL15513 Rodent TaqMan® Low Density miRNA Arrays A v2.0 (TLDA, Life Technologies) 381 Centenary Institute 2012-05-01 Life Technologies Mus musculus
Mus musculus
RT-PCR RT-PCR, Rodent TaqMan® Low Density miRNA Arrays A v2.0 (TLDA, Life Technologies), RT-PCR quantification of mature microRNAs
95 GPL14933 Rodent TaqMan® Low Density miRNA Arrays A v2.0 (TLDA, Applied Biosystem). 384 N.I.H. 2011-11-28 Applied Biosystem Mus musculus
Mus musculus
RT-PCR RT-PCR, Rodent TaqMan® Low Density miRNA Arrays A v2.0 (TLDA, Applied Biosystem)., Taqman microRNA assay Real time qRT-PCR
96 GPL17734 Rodent A v2.0 765 Nanjing University 2013-09-16 ABI Mus musculus
Mus musculus
RT-PCR RT-PCR, Rodent A v2.0, PCR assay
97 GPL17735 Real Time Fast 7900 HT PCR System (Applied Biosystems) 384 Alfredo 2013-09-17 Applied Biosystem Homo sapiens
Homo sapiens
RT-PCR RT-PCR, Real Time Fast 7900 HT PCR System (Applied Biosystems), PCR assay
98 GPL9789 RCSI Respiratory Medicine Human TaqMan MicroRNA Arrays v2.0 389 Royal College of Surgeons in Ireland 2009-12-11 Applied Biosystems Homo sapiens
Homo sapiens
RT-PCR RT-PCR, RCSI Respiratory Medicine Human TaqMan MicroRNA Arrays v2.0,
99 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.
100 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
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