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
(3)
  SAGE RsaI
(0)
  SAGE Sau3A
(1)
  MPSS
(0)
  GeneChip
(21)
  Tiling Array
(15)
  cDNA Array
(77)
  Oligo Array
(142)
  Bead Array
(4)
  Protein Array
(0)
  Antibody
(0)
  RT-PCR
(2)
  HT-Seq
(91)
  Other
(3)
  All
(359)
 
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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 GPL17150 NimbleGen Sus scrofa 2.1M CGH array [120529_Sscr_10_2_WG_JH_CGH_HX1] 2,167,769 China Agriculture University 2013-05-11 NimbleGen Sus scrofa
Sus scrofa domestica
Oligo Array in situ oligonucleotide, NimbleGen Sus scrofa 2.1M CGH array [120529_Sscr_10_2_WG_JH_CGH_HX1], Annotation in this record based on NCBI Sscrofa 10.2 2.1M probes in total
2 GPL11314 NimbleGen Bos taurus UMD3.0 2.1M WG HD CGH 2,166,464 United States Department of Agriculture 2010-12-14 NimbleGen Systems, Inc. Bos taurus
Bos taurus
Oligo Array in situ oligonucleotide, NimbleGen Bos taurus UMD3.0 2.1M WG HD CGH, This array was designed based on Btau_UMD3.0. The Btau_UMD3.1 assembly is identical in almost all respects to UMD3.0. All chromosomes are unchanged. For additional information, see http://www.cbcb.umd.edu/research/bos_taurus_assembly.shtml . The supplementary file 'GPL11314_Btau_4.0.txt' contains the results of LIFTOVER (default setting) to convert the positions of probes from UMD3.0 to Btau_4.0. About 95% (~2,066,000) of the probes were converted successfully.
3 GPL11335 NimbleGen Dog Whole-Genome CGH 2.1M Tiling Array (CanFam2_CGH_HX1) 2,164,507 University of Washington 2010-12-18 NimbleGen Canis lupus familiaris
Canis lupus familiaris
Tiling Array in situ oligonucleotide, NimbleGen Dog Whole-Genome CGH 2.1M Tiling Array (CanFam2_CGH_HX1), gw2.1 genome-wide aCGH, with probes spread across the canFam2 genome assembly with 2164507 probes. designfile: CanFam2_CGH_HX1.ndf designname: CanFam2_CGH_HX1 designid: 7995 Genome build: canFam2
4 GPL9220 NimbleGen Agrsci Bovine 6.3M v1, Design 2 2,144,401 Aarhus University, Faculty of Agricultural Sciences 2009-09-17 NimbleGen Bos taurus
Bos taurus
Tiling Array in situ oligonucleotide, NimbleGen Agrsci Bovine 6.3M v1, Design 2, High density, custom Nimblegen HD2 CGH tiling arrays were planned in 3 designs. Each design covers a specific set of chromosomes with 2.1M probes, which yields 420 bp of average probe spacing (301 bp median probe spacing). Design_ID: 8026 Design_name: 080804_Btau4_design2_CGH_03 Description: HX1 CGH for Bos taurus release 4.0, chr 1,4,6,7,9,13,15,20,22,26,27,M; selection at i300w50. Annotation in this array is based on the bovine genome assembly, version 4.0 (Btau_4.0). Probe sequences are available in the 'PROBE_SEQUENCE' column of the 'GPL9220_080804_Btau4_design2_CGH_HX1.ndf' supplementary file.
5 GPL9664 NimbleGen agrsci porcine 2.1M v1 2,143,371 Aarhus University, Faculty of Agricultural Sciences 2009-11-12 NimbleGen Sus scrofa
Sus scrofa domestica
Oligo Array in situ oligonucleotide, NimbleGen agrsci porcine 2.1M v1, Annotation in this record based on the porcine pre genome assembly, version 6 native array description files: Sscorfa_U_Aarhus_CB_cgh_HX1.ndf Sscorfa_U_Aarhus_CB_cgh_HX1.pos
6 GPL9219 NimbleGen Agrsci Bovine 6.3M v1, Design 1 2,128,916 Aarhus University, Faculty of Agricultural Sciences 2009-09-17 NimbleGen Bos taurus
Bos taurus
Tiling Array in situ oligonucleotide, NimbleGen Agrsci Bovine 6.3M v1, Design 1, High density, custom Nimblegen HD2 CGH tiling arrays were planned in 3 designs. Each design covers a specific set of chromosomes with 2.1M probes, which yields 420 bp of average probe spacing (301 bp median probe spacing). Design_ID: 8023 Design_name: 080804_Btau4_design1_CGH_03 Description: HX1 CGH for Bos taurus release 4.0, chr 8,12,18,19,21,28,29,U,X; chrU is all chrUn scaffolds concatenated with 10-base run of N's as separator; selection at i200w50. Annotation in this array is based on the bovine genome assembly, version 4.0 (Btau_4.0). Probe sequences are available in the 'PROBE_SEQUENCE' column of the 'GPL9219_080804_Btau4_design1_CGH_HX1.ndf' supplementary file.
7 GPL9221 NimbleGen Agrsci Bovine 6.3M v1, Design 3 2,121,777 Aarhus University, Faculty of Agricultural Sciences 2009-09-17 NimbleGen Bos taurus
Bos taurus
Tiling Array in situ oligonucleotide, NimbleGen Agrsci Bovine 6.3M v1, Design 3, High density, custom Nimblegen HD2 CGH tiling arrays were planned in 3 designs. Each design covers a specific set of chromosomes with 2.1M probes, which yields 420 bp of average probe spacing (301 bp median probe spacing). Design_ID: 8029 Design_name: 080804_Btau4_design3_CGH_03 Description: HX1 CGH for Bos taurus release 4.0, chr 2,3,5,10,11,14,16,17,23,24,25; selection at i300w50. Annotation in this array is based on the bovine genome assembly, version 4.0 (Btau_4.0). Probe sequences are available in the 'PROBE_SEQUENCE' column of the 'GPL9221_080804_Btau4_design3_CGH_HX1.ndf' supplementary file.
8 GPL17952 NimbleGen Horse CGH 3x1.4M Whole-Genome Tiling Array [121114_EquCab2_SW_CGH_UX3] 1,402,459 College of Life Sciences Chinese Inner Mongolia Agricultural University 2013-11-19 NimbleGen Equus caballus
Equus caballus
Tiling Array in situ oligonucleotide, NimbleGen Horse CGH 3x1.4M Whole-Genome Tiling Array [121114_EquCab2_SW_CGH_UX3], Format:3x1.4M Source: NCBI Build:Equus caballus EquCab2.0 Probe Length: 50-75mer Median Probe Spacing: 1650 bp
9 GPL18417 NimbleGen Sheep CGH 3x1.4M Whole-Genome Tiling Array [121109_Sheep_oviAri1_WG_SW_CGH] 1,400,000 NimbleGen Systems, Inc. 2014-03-13 NimbleGen Ovis aries
Ovis aries
Tiling Array in situ oligonucleotide, NimbleGen Sheep CGH 3x1.4M Whole-Genome Tiling Array [121109_Sheep_oviAri1_WG_SW_CGH], Build: Oav1,NCBI83 Median Probe Spacing: 1325
10 GPL17683 Agilent-044516 S.Scrofa 1M regional Tiling Array 042564 974,016 Leibniz Institute for Farm Animal Biology 2013-09-05 Agilent Technologies Sus scrofa
Sus scrofa domestica
Tiling Array in situ oligonucleotide, Agilent-044516 S.Scrofa 1M regional Tiling Array 042564, Including 37 Pig genomic regions (SS10) and 4 gene regions (SS10.2), Arrays of this design have barcodes that begin with 16044516 or 2544516. 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.
11 GPL17469 Agilent-046637 Sus scrofa CGH array 965,079 China Agriculture University 2013-07-18 Agilent Technologies Sus scrofa
Sus scrofa domestica
Oligo Array in situ oligonucleotide, Agilent-046637 Sus scrofa CGH array, Arrays of this design have barcodes that begin with 16046637 or 2546637. The ID column represents the Agilent Probe Name. genome build: Sscrofa10.2
12 GPL6507 Solexa sequencing of small RNAs from short-beaked echidna (18-24 nt) 945,309 Cold Spring Harbor Laboratory 2008-02-19 Illumina Tachyglossus aculeatus
Tachyglossus aculeatus
HT Sequencing other, Solexa sequencing of small RNAs from short-beaked echidna (18-24 nt),
13 GPL17479 IRCGP Canine 720K v1.0 719,390 Catholic University of Korea 2013-07-22 NimbleGen Canis lupus familiaris
Canis lupus familiaris
Oligo Array in situ oligonucleotide, IRCGP Canine 720K v1.0, 1. We used a NimbleGen custom 720K canine whole-genome array platform (Roche NimbleGen, Penzberg, Germany), designed from the UCSC dog genome build of May 2005 (Broad/canFam2). 2. This array is comprised of 385,000 probes evenly distributed throughout the unique sequence of the genome as a backbone and an additional ~330,000 probes which were designed based on previously reported dog CNV regions. 3. The average probe spacing for our custom array platform was ~3.3 Kb. 4. The array-CGH experiments were performed according to the manufacturer’s instructions.
14 GPL16165 NimbleGen pig CGH array 719,336 Huazhong Agricultural University 2012-10-10 NimbleGen Sus scrofa
Sus scrofa domestica
Oligo Array in situ oligonucleotide, NimbleGen pig CGH array, Platform is based on Sus scrofa genome version 9.0. NimbleGen design ID 549111 native array description file: 110221_SusScr2_YR_CGH.ndf native array description file: 110221_SusScr2_YR_CGH.pos
15 GPL6505 Solexa sequencing of small RNAs from platypus (18-24 nt) 596,512 Cold Spring Harbor Laboratory 2008-02-19 Illumina Ornithorhynchus anatinus
Ornithorhynchus anatinus
HT Sequencing other, Solexa sequencing of small RNAs from platypus (18-24 nt),
16 GPL6583 MPI_Chen_domestic_dog_Solexa_2007 438,950 MPI molecular genetics 2008-03-14 Canis lupus familiaris
Canis lupus familiaris
Other other, MPI_Chen_domestic_dog_Solexa_2007,
17 GPL14675 Agilent-027318 Horse_Whole_Genome_equCab2_Exon_Array V1 420,288 Texas A&M University 2011-10-05 Agilent Technologies Equus caballus
Equus caballus
Oligo Array in situ oligonucleotide, Agilent-027318 Horse_Whole_Genome_equCab2_Exon_Array V1, Arrays of this design have barcodes that begin with 16027318 or 2527318. 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.
18 GPL15316 Agilent-027178 Dog Whole Ensembl Gene Array 2-2-2010 024881 420,288 Texas A&M University 2012-03-06 Agilent Technologies Canis lupus familiaris
Canis lupus familiaris
Oligo Array in situ oligonucleotide, Agilent-027178 Dog Whole Ensembl Gene Array 2-2-2010 024881, CanFam2.0 Arrays of this design have barcodes that begin with 16027178 or 2527178. 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.
19 GPL16181 Agilent-024881 Bovine Whole Genome Array 400K 7-31 420,288 Texas A&M University 2012-10-16 Agilent Technologies Bos taurus
Bos taurus
Oligo Array in situ oligonucleotide, Agilent-024881 Bovine Whole Genome Array 400K 7-31, Array design based on the bosTau4.0 (Baylor 4.0) assembly. Arrays of this design have barcodes that begin with 16024881 or 2524881. 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.
20 GPL16182 Agilent-025320 Bovine Whole Genome Array 400K 9-8-09 420,288 Texas A&M University 2012-10-16 Agilent Technologies Bos taurus
Bos taurus
Oligo Array in situ oligonucleotide, Agilent-025320 Bovine Whole Genome Array 400K 9-8-09, Array design based on the bosTau4.0 (Baylor 4.0) assembly. Arrays of this design have barcodes that begin with 16025320 or 2525320. 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.
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