Gene Expression Omnibus (GEO) Overview Version：2013-04-06Japanese 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
(3,705)		   Primates
(37)		   Rodents
(1,748)		   Mammals
(295)		   Vertebrates
(402)		   Invertebrates
(1,004)		   Plants
(2,170)		   Bacteria
(1,636)		   Viruses
(78)		   Phages
(8)		   Unclassified
(399)		   All
(11,528)		  
  SAGE NlaIII
(37)		   SAGE RsaI
(0)		   SAGE Sau3A
(1)		   MPSS
(9)		   GeneChip
(78)		   Tiling Array
(226)		   cDNA Array
(558)		   Oligo Array
(799)		   Bead Array
(0)		   Protein Array
(0)		   Antibody
(0)		   RT-PCR
(0)		   HT-Seq
(432)		   Other
(26)		   All
(2,170)		  
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 GPL7299 Agilent-015059 Arabidopsis 3 Oligo Microarray 4x44K G2519F (Probe Name version) 37,553 Agilent Technologies 2008-09-12 Agilent Technologies Arabidopsis thaliana
Arabidopsis thaliana		 MPSS in situ oligonucleotide, Agilent-015059 Arabidopsis 3 Oligo Microarray 4x44K G2519F (Probe Name version), The content on this microarray is derived from the ATH1 v.5 database of The Institute for Genomic Research (TIGR) and from the Arabidopsis MPSS database at the University of Delaware. Nearly 40,000 features represents 28,500 genes from TIGR and more than 10,000 unannotated transcripts from University of Delaware. This microarray will be useful for scientists studying gene activity associated with various plant organ functions, stages of growth, and biotic and abiotic stresses. *** The ID column includes the Agilent Probe Names. A different version of this platform with the Agilent Feature Extraction feature numbers in the ID column is assigned accession number GPL6177.
2 GPL7270 Agilent-012600 Arabidopsis 3 Oligo Microarray G4142A (Probe Name version) 37,494 Agilent Technologies 2008-09-09 Agilent Technologies Arabidopsis thaliana
Arabidopsis thaliana		 MPSS in situ oligonucleotide, Agilent-012600 Arabidopsis 3 Oligo Microarray G4142A (Probe Name version), The content on this microarray is derived from the ATH1 v.5 database of The Institute for Genomic Research (TIGR) and from the Arabidopsis MPSS database at the University of Delaware. Nearly 40,000 features represents 28,500 genes from TIGR and more than 10,000 unannotated transcripts from University of Delaware. This microarray will be useful for scientists studying gene activity associated with various plant organ functions, stages of growth, and biotic and abiotic stresses. *** The ID column includes the Agilent Probe Names. A different version of this platform with the Agilent Feature Extraction feature numbers in the ID column is assigned accession number GPL2871.
3 GPL7013 IPPE Rice MPSS 111,161 Institute of Plant Physiology and Ecology,Shanghai Institutes for Biological Sciences 2008-07-01 Oryza sativa
Oryza sativa		 MPSS MPSS, IPPE Rice MPSS, All MPSS was performed as described by Mineno et al.(Nucleic Acids Res. 2006 1765:1771).
4 GPL6177 Agilent-015059 Arabidopsis 3 Oligo Microarray 4x44K G2519F (Feature Number version) 45,220 Agilent Technologies 2007-11-21 Agilent Technologies Arabidopsis thaliana
Arabidopsis thaliana		 MPSS in situ oligonucleotide, Agilent-015059 Arabidopsis 3 Oligo Microarray 4x44K G2519F (Feature Number version), The content on this microarray is derived from the ATH1 v.5 database of The Institute for Genomic Research (TIGR) and from the Arabidopsis MPSS database at the University of Delaware. Nearly 40,000 features represents 28,500 genes from TIGR and more than 10,000 unannotated transcripts from University of Delaware. This microarray will be useful for scientists studying gene activity associated with various plant organ functions, stages of growth, and biotic and abiotic stresses. Arrays of this design have barcodes that begin with 16015059 or 2515059. 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. *** A different version of this platform with the Agilent Probe names in the ID column is assigned accession number GPL7299.
5 GPL5800 Arabidopsis mRNA MPSS signatures 297,313 University of Manchester 2007-09-04 MPSS Arabidopsis thaliana
Arabidopsis thaliana		 MPSS MPSS, Arabidopsis mRNA MPSS signatures, mRNA MPSS signatures capture the 17 bases from near the 3' end of poly(A)+ transcripts. All MPSS was performed as described by Brenner et al. (Nat Biotechnol. 2000 18:630).
6 GPL3776 Rice small RNA MPSS signatures 299,454 University of Delaware 2006-05-17 Oryza sativa
Oryza sativa		 MPSS MPSS, Rice small RNA MPSS signatures, small RNA MPSS signatures represent the 5' end of endogenous small RNA (e.g. miRNA and siRNA that average 21-24 nt). These molecules are typically associated with gene silencing, not mRNA expression. All MPSS was performed essentially as described by Brenner et al. (Nat Biotechnol. 2000 18:630). The specific modifications to the method for the MPSS sequencing of small RNAs are described in the paper Lu et al. (Science 2005, 309:1567).
7 GPL3777 Rice mRNA MPSS signatures 249,990 University of Delaware 2006-05-17 Oryza sativa
Oryza sativa		 MPSS MPSS, Rice mRNA MPSS signatures, mRNA MPSS signatures capture the 17 bases from near the 3' end of poly(A)+ transcripts All MPSS was performed as described by Brenner et al. (Nat Biotechnol. 2000 18:630).
8 GPL2871 Agilent-012600 Arabidopsis 3 Oligo Microarray (4142A (Feature Number version) 44,290 Agilent Technologies 2005-09-23 Agilent Technologies Arabidopsis thaliana
Arabidopsis thaliana		 MPSS in situ oligonucleotide, Agilent-012600 Arabidopsis 3 Oligo Microarray (4142A (Feature Number version), The content on this microarray is derived from the ATH1 v.5 database of The Institute for Genomic Research (TIGR) and from the Arabidopsis MPSS database at the University of Delaware. Nearly 40,000 features represents 28,500 genes from TIGR and more than 10,000 unannotated transcripts from University of Delaware. This microarray will be useful for scientists studying gene activity associated with various plant organ functions, stages of growth, and biotic and abiotic stresses. Arrays of this design have barcodes that begin with 16012600 or 2512600. 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. *** A different version of this platform with the Agilent Probe names in the ID column is assigned accession number GPL7270.
9 GPL2675 Small RNA identification in Arabidopsis thaliana using modified MPSS 181,582 University of Delaware 2005-07-26 Arabidopsis thaliana
Arabidopsis thaliana		 MPSS MPSS, Small RNA identification in Arabidopsis thaliana using modified MPSS, All MPSS was performed essentially as described by Brenner et al. (Nat Biotechnol. 2000 18:630). The specific modifications to the method for the MPSS sequencing of small RNAs are described in the paper associated with this dataset (Lu et al., 2005). The signatures with "flag = 1" match to tRNAs, rRNAs, snoRNAs and snRNAs.
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