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
(149)
  Primates
(1)
  Rodents
(81)
  Mammals
(11)
  Vertebrates
(11)
  Invertebrates
(15)
  Plants
(61)
  Bacteria
(95)
  Viruses
(1)
  Phages
(0)
  Unclassified
(43)
  All
(470)
 
  SAGE NlaIII
(0)
  SAGE RsaI
(0)
  SAGE Sau3A
(0)
  MPSS
(0)
  GeneChip
(0)
  Tiling Array
(1)
  cDNA Array
(6)
  Oligo Array
(8)
  Bead Array
(0)
  Protein Array
(0)
  Antibody
(0)
  RT-PCR
(0)
  HT-Seq
(0)
  Other
(0)
  All
(15)
 
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 GPL9699 LMU Drosophila ananassae 1.2K 1,296 LMU 2009-11-18 LMU Biocenter AG Parsch Drosophila ananassae
Drosophila ananassae
cDNA Array spotted DNA/cDNA, LMU Drosophila ananassae 1.2K,
2 GPL7287 NimbleGen DMEL ChiP Set 3 of 3 382,342 Justus-Liebig-University Giessen 2008-09-11 Roche NimbleGen Drosophila melanogaster
Drosophila melanogaster
Oligo Array spotted oligonucleotide, NimbleGen DMEL ChiP Set 3 of 3,
3 GPL7286 NimbleGen DMEL ChiP Set 2 of 3 382,343 Justus-Liebig-University Giessen 2008-09-11 Roche NimbleGen Drosophila melanogaster
Drosophila melanogaster
Oligo Array spotted oligonucleotide, NimbleGen DMEL ChiP Set 2 of 3,
4 GPL7285 NimbleGen DMEL ChiP Set 1 of 3 382,343 Justus-Liebig-University Giessen 2008-09-11 Roche NimbleGen Drosophila melanogaster
Drosophila melanogaster
Oligo Array spotted oligonucleotide, NimbleGen DMEL ChiP Set 1 of 3,
5 GPL7107 Adolf Butenandt Institute Drosophila melanogaster 385K Tiling Array version 1 384,688 Adolf Butenandt Institute 2008-07-29 NimbleGen Systems Inc. Drosophila melanogaster
Drosophila melanogaster
Tiling Array in situ oligonucleotide, Adolf Butenandt Institute Drosophila melanogaster 385K Tiling Array version 1, All of chr X, parts of 2L, 2R, 3L and 3R. Based on dm2/FlyBase release 4.3. isothermal probe design, about 1 probe/100 bases. 2006-02-16_Becker_DMEL_ChIP tiling design
6 GPL517 Heidelberg FlyArray 47,616 Deutsches Krebsforschungszentrum 2003-10-02 Drosophila melanogaster
Drosophila melanogaster
cDNA Array spotted DNA/cDNA, Heidelberg FlyArray, cDNA Microarray from spotted PCR products containing 47,616 features from Drosophila melanogaster and various controls. Primer design was made with GenomePride software. Average length is 500 bp within exonic sequence. Microarray construction The 2nd round PCR-product was spotted in 3x SSC, 150mM NaPO4, 1.5M betaine onto QMT Amino slides (Quantifoil, Jena, Germany) using a MicroGrid II arrayer (BioRobotics, Cambridge, UK) and SMP3 pins (TeleChem International Inc., Sunnyvale, USA). Each PCR-product was spotted twice at different positions on the microarray. As controls, PCR-products of Arabidopsis cDNAs, genomic Drosophila DNA and C. elegans cDNAs were spotted. The DNA was UV-crosslinked (250mJ/cm2) and baked for 4h at 80°C. In total, the Heidelberg FlyArray contains 47,616 features, representing the 21,306 ORF-amplicons and 2,502 controls.
7 GPL3277 University of Cologne Dictyostelium discoideum 15K 33,120 Institute for Biochemistry 1 2005-12-22 Institute for Biochemistry I, University of Cologne Dictyostelium discoideum
Dictyostelium discoideum
cDNA Array spotted DNA/cDNA, University of Cologne Dictyostelium discoideum 15K,
8 GPL2581 Drosophila Incyte arrays, Klebes/Kornberg v1 16,664 Humboldt University Berlin 2005-06-28 Klebes A and Kornberg TB Drosophila melanogaster
Drosophila melanogaster
cDNA Array spotted DNA/cDNA, Drosophila Incyte arrays, Klebes/Kornberg v1, The array was assembled using amplicons representing approximately 93% of the genes predicted in version 1.0 of the Drosophila genome from sequences released by the Berkeley Drosophila Genome Project and Celera Genomics in March 2000. The amplicons represent approximately 75% of the genes predicted in the January 2003 release 3.1 Drosophila genome annotation update. Incyte in-house algorithms were used to develop gene-specific primers averaging 20 nucleotides in length that were used to PCR amplify one exon or exon fragment from every predicted gene in the fly genome. The regions amplified to build the array ranged in size from 150 to 600 bp with an average size of 410 bp. Additionally, non-Drosophila sequences (Adenovirus, GFP) were spotted for spiking controls, background control, and orientation purposes. Hybridized slides were read with a GenePix 4000A scanner (Axon Instruments, Foster City, CA).
9 GPL1972 Dictyostelium discoideum cDNA Microarray 6000 15,552 Institute for Biochemistry 1 2005-04-19 Dictyostelium discoideum
Dictyostelium discoideum
cDNA Array spotted DNA/cDNA, Dictyostelium discoideum cDNA Microarray 6000, Spotted cDNAs array on glass. The current Dictyostelium DNA microarray carries approximately 5,400 non-redundant ESTs from the Dictyostelium cDNA project, partial sequences of 450 known genes and appropriate positive and negative controls"
10 GPL17438 Agilent-028789 ATTA-V1 [Probe name version] 91,665 Max Planck Institute for Chemical Ecology 2013-07-12 Agilent Technologies Atta vollenweideri
Atta vollenweideri
Oligo Array in situ oligonucleotide, Agilent-028789 ATTA-V1 [Probe name version], Atta vollenweideri_Antennae Arrays of this design have barcodes that begin with 16028789 or 2528789. Orientation: Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software. The ID column represents the Agilent Probe Name.
11 GPL17003 UHN Microarray Centre Drosophila melanogaster D14k3 13,885 University of Kiel, Germany 2013-04-10 University Health Network Microarray Centre (www.microarrays,ca, Toronto, Canada) Drosophila melanogaster
Drosophila melanogaster
Oligo Array spotted oligonucleotide, UHN Microarray Centre Drosophila melanogaster D14k3,
12 GPL14623 Agilent-029288 Hydra vulgaris 45J haep_celerav02_1.0 45,220 zoological institute Kiel 2011-09-26 Agilent Technologies Hydra vulgaris
Hydra vulgaris
Oligo Array in situ oligonucleotide, Agilent-029288 Hydra vulgaris 45J haep_celerav02_1.0, Hydra vulgaris (AEP) Arrays of this design have barcodes that begin with 16029288 or 2529288. Orientation: Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software. The ID column represents the Agilent Feature Extraction feature number. Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface). To match data scanned on an Axon scanner, use the RefNumber column contained in the Agilent-provided GAL file as the ID_REF column in sample submissions.
13 GPL14372 Agilent-025090 P.pacificus-version2 105,072 Max Planck Institute for Developmental Biology 2011-09-02 Agilent Technologies Pristionchus pacificus
Pristionchus pacificus
Oligo Array in situ oligonucleotide, Agilent-025090 P.pacificus-version2, P.pacificus transcriptome version 2 : 2009-08-13 Arrays of this design have barcodes that begin with 16025090 or 2525090. Orientation: Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software. The ID column represents the Agilent Feature Extraction feature number. Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface). To match data scanned on an Axon scanner, use the RefNumber column contained in the Agilent-provided GAL file as the ID_REF column in sample submissions.
14 GPL1404 MJArray Fly 32,448 Forschungszentrum Karlsruhe 2004-08-11 Drosophila melanogaster
Drosophila melanogaster
cDNA Array spotted DNA/cDNA, MJArray Fly, The array was assembled using amplicons that were obtained using the Incyte primer set. The set is identical to the one used to produce platform GPL20, primer sequences can be viewed in that platform. We included a reference to the ID of GPL20. The amplicons represent approximately 93% of the genes predicted in version 1.0 of the Drosophila genome from sequences released by the Berkeley Drosophila Genome Project and Celera Genomics in March 2000. The amplicons represent approximately 75% of the genes predicted in the January 2003 release 3.1 Drosophila genome annotation update. The regions amplified to build the array ranged in size from 150 to 600 bp with an average size of 410 bp. PCR fragments were amplified and each amplicon was quality control tested for DNA concentration, purity, and fragment size. A total of 11,796 reactions led to a single product of correct size and sufficient amount (marked as ok in column GENE_NAME). The 675 reactions that produced multiple products were run on a gel again and the band of the correct size was excised cloned into pCR TOPO 2.1 (Invitrogen). The 2034 reactions where no band was visible was also subjected to a 'blind' clone-attempt. Those 2709 cloning-reactions led to 2033 positive clones, that were included on the array and marked as 'clone!' in column GENE_NAME. Non sequence-verified clones were not included in the current study. A mixture of all these 2033 clones was used to make a titration dilution as a hybridisation control (Incyte Amplification Titration Standard, IATS) that is included in each of the 48 blocks of our array. Arrays were spotted with a Omnigrid 100 (GeneMachines) with 24 SMP3 pins (Telechem). By having two identical subarrays next to each other on each slide, we obtain 48 blocks with 26 rows and 26 columns each. Spot to spot spacing is 150 micron, average spot diameter is 100 micron.
15 GPL13217 Agilent Manduca sexta 37K 37,175 Max Planck Institute for Chemical Ecology 2011-02-23 Agilent Manduca sexta
Manduca sexta
Oligo Array in situ oligonucleotide, Agilent Manduca sexta 37K,