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
(9)
  SAGE RsaI
(0)
  SAGE Sau3A
(0)
  MPSS
(1)
  GeneChip
(14)
  Tiling Array
(10)
  cDNA Array
(79)
  Oligo Array
(252)
  Bead Array
(0)
  Protein Array
(0)
  Antibody
(0)
  RT-PCR
(2)
  HT-Seq
(81)
  Other
(1)
  All
(450)
 
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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 GPL18504 LC Sciences Chicken miRNA Array 865 Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences 2014-03-31 LC Sciences Gallus gallus
Gallus gallus
Oligo Array in situ oligonucleotide, LC Sciences Chicken miRNA Array, 789 unique probes
2 GPL18470 Illumina HiSeq 2500 (Xenopus (Silurana) tropicalis) 0 2014-03-26 Xenopus (Silurana) tropicalis
Xenopus tropicalis
HT Sequencing high-throughput sequencing, Illumina HiSeq 2500 (Xenopus (Silurana) tropicalis),
3 GPL18463 Illumina HiSeq 2000 (Gasterosteus aculeatus) 0 2014-03-25 Gasterosteus aculeatus
Gasterosteus aculeatus
HT Sequencing high-throughput sequencing, Illumina HiSeq 2000 (Gasterosteus aculeatus),
4 GPL18442 Agilent-021323 Zebra Finch AgilentSongbird2 Oligoarray 44,969 Agilent Technologies 2014-03-19 Agilent Taeniopygia guttata
Taeniopygia guttata
Oligo Array in situ oligonucleotide, Agilent-021323 Zebra Finch AgilentSongbird2 Oligoarray, Part #: G2514F and AMADID #: 021323 The Agilent songbird array contains over 43K unique transcripts, many of which can be used to distinguish between specific splice variants. The sequences used for generating features (probes) on the array are from sequencing projects performed at the Keck Center of the University of Illinois, at Rockefeller University by Xiao-Chieng Li, and at Duke University. All of these sequences are stored in the songbirdtranscriptome.net website. In addition to these sequences, over 450 features on the array were designed from clones found in genbank.
5 GPL18413 Illumina HiSeq 2500 (Danio rerio) 0 2014-03-12 Danio rerio
Danio rerio
HT Sequencing high-throughput sequencing, Illumina HiSeq 2500 (Danio rerio),
6 GPL18378 [ZebGene-1_1-st] Affymetrix Genechip Zebrafish ST Genome Array 1.1, brainarray version 15 [zebgene11st_Dr_ENTREZG] 23,877 Affymetrix, Inc. 2014-03-05 Affymetrix Danio rerio
Danio rerio
GeneChip in situ oligonucleotide, [ZebGene-1_1-st] Affymetrix Genechip Zebrafish ST Genome Array 1.1, brainarray version 15 [zebgene11st_Dr_ENTREZG], Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html
7 GPL18368 [ChiGene-1_0-st] Affymetrix Chicken Gene 1.0 ST Array [probeset version] 165,995 Affymetrix, Inc. 2014-03-04 Affymetrix Gallus gallus
Gallus gallus
GeneChip in situ oligonucleotide, [ChiGene-1_0-st] Affymetrix Chicken Gene 1.0 ST Array [probeset version], Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html #%create_date=Mon Apr 15 11:23:16 2013 PDT #%chip_type=ChiGene-1_0-st-v1 #%lib_set_name=ChiGene-1_0-st #%lib_set_version=v1 #%genome-species=Gallus gallus #%genome-version=galgal3 #%genome-version-ucsc=galgal3 #%genome-version-create_date=2006-05-00 #%genome-lifted-method=NONE #%genome-lifted_from-species=Gallus gallus #%genome-lifted_from-version-ucsc=galgal3 #%netaffx-annotation-date=2012-09-15 #%netaffx-annotation-netaffx-build=33 #%netaffx-annotation-tabular-data-version=1.1 #%netaffx-annotation-tabular-format-version=1.1 #%netaffx-annotation-data-type=probe_set #%netaffx-annotation-docgen-method=module:affy/annotation_update/builder; exec:create-download-file.pl #%netaffx-annotation-docgen-version=8487 #%netaffx-annotation-url-transcript=www.affymetrix.com/analysis/netaffx/gene/transcript.affx?pk= #%netaffx-annotation-url-mrna=www.affymetrix.com/analysis/netaffx/gene/rna.affx?pk=
8 GPL18366 [ChiGene-1_0-st] Affymetrix Chicken Gene 1.0 ST Array [transcript (gene) version] 20,425 Affymetrix, Inc. 2014-03-04 Affymetrix Gallus gallus
Gallus gallus
GeneChip in situ oligonucleotide, [ChiGene-1_0-st] Affymetrix Chicken Gene 1.0 ST Array [transcript (gene) version], Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html #%create_date=Mon Oct 1 15:31:00 2012 PDT #%chip_type=ChiGene-1_0-st-v1 #%lib_set_name=ChiGene-1_0-st #%lib_set_version=v1 #%genome-species=Gallus gallus #%genome-version=galgal3 #%genome-version-ucsc=galgal3 #%genome-version-create_date=2006-05-00 #%genome-lifted-method=NONE #%genome-lifted_from-species=Gallus gallus #%genome-lifted_from-version-ucsc=galgal3 #%netaffx-annotation-date=2012-09-15 #%netaffx-annotation-netaffx-build=33 #%netaffx-annotation-tabular-data-version=1.1 #%netaffx-annotation-tabular-format-version=1.1 #%netaffx-annotation-data-type=transcript_cluster #%netaffx-annotation-docgen-method=module:affy/annotation_update/builder; exec:create-download-file.pl #%netaffx-annotation-docgen-version=8487 #%netaffx-annotation-url-transcript=www.affymetrix.com/analysis/netaffx/gene/transcript.affx?pk= #%netaffx-annotation-url-mrna=www.affymetrix.com/analysis/netaffx/gene/rna.affx?pk=
9 GPL18231 Agilent-025355 Danio rerio ZV8400K 420,288 Massachusetts General Hospital 2014-01-28 Agilent Technologies Danio rerio
Danio rerio
Oligo Array in situ oligonucleotide, Agilent-025355 Danio rerio ZV8400K, ZV8 array Arrays of this design have barcodes that begin with 16025355 or 2525355. 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.
10 GPL18171 Illumina HiSeq 1500 (Danio rerio) 0 2014-01-15 Danio rerio
Danio rerio
HT Sequencing high-throughput sequencing, Illumina HiSeq 1500 (Danio rerio),
11 GPL18150 Illumina HiSeq 1000 (Oncorhynchus mykiss) 0 2014-01-08 Oncorhynchus mykiss
Oncorhynchus mykiss
HT Sequencing high-throughput sequencing, Illumina HiSeq 1000 (Oncorhynchus mykiss),
12 GPL18037 UNBSJ rainbow darter 110K v1.0 109,440 University of New Brunswick 2013-12-08 invitrogen Etheostoma caeruleum
Etheostoma caeruleum
Oligo Array in situ oligonucleotide, UNBSJ rainbow darter 110K v1.0, Please note that the platform annotations are based on top blast hits, not probe design. There is no gene annotation for rainbow darter on the database so far.
13 GPL18038 UNBSJ rainbow darter 15k v2.0 14,948 University of New Brunswick 2013-12-08 invitrogen Etheostoma caeruleum
Etheostoma caeruleum
Oligo Array in situ oligonucleotide, UNBSJ rainbow darter 15k v2.0, Please note that the platform annotations are based on top blast hits, not probe design. There is no gene annotation for rainbow darter on the database so far.
14 GPL17951 Exiqon miRCURY LNA microRNA microarray v.11.0 208 Chubu University 2013-11-19 Exiqon Danio rerio
Danio rerio
Oligo Array spotted oligonucleotide, Exiqon miRCURY LNA microRNA microarray v.11.0, The grid file of the miRCURY LNA microRNA microarray v.11.0 is based on miRbase version 16.0(Zebrafish).
15 GPL17947 NimbleGen Zebrafish 12x135K Array based on Zv9 [090818_Zv7_EXPR] 15,649 University of Idaho 2013-11-18 NimbleGen Danio rerio
Danio rerio
Oligo Array in situ oligonucleotide, NimbleGen Zebrafish 12x135K Array based on Zv9 [090818_Zv7_EXPR], Each probe is replicated 3 times. The design includes random GC and other control probes. The NimbleGen 12-plex zebrafish microarray 090818_Zv7_EXPR was designed based on the Sanger Zv7 zebrafish genome build. This Platform represents a custom NimbleGen Design File (NDF) that was based on zebrafish genome build (Sanger Zv9). Probe sequences from the NimbleGen microarray (113,549 probes) were aligned to Ensembl Zv9 transcripts (53,067) using the Sequence Search and Alignment by Hashing Algorithm (SSAHA2; parameters -kmer 13, -skip 2, -seeds 2, -score 12, -cmatch 9, -ckmer 6). Alignments were filtered based on the following conditions: (probe length – number of mismatches) ≤ 4, no gapped alignments, common strand per transcript (+/-), probes had only one matching gene, ≥ 3 probes per transcript, and only canonical transcripts (15,650 remaining transcripts). The Platform data table reflects a condensed representation of the custom NDF's SEQ_ID features.
16 GPL17944 Illumina HiSeq 2000 (Nothobranchius furzeri) 0 2013-11-18 Nothobranchius furzeri
Nothobranchius furzeri
HT Sequencing high-throughput sequencing, Illumina HiSeq 2000 (Nothobranchius furzeri),
17 GPL17917 Agilent-024502 Dicentrarchus labrax oligonucleotide-microarray (LOQ) (Probe Name version) 24,260 Institute of Marine Sciences (ICM-CSIC) 2013-11-12 Agilent Technologies Dicentrarchus labrax
Dicentrarchus labrax
Oligo Array in situ oligonucleotide, Agilent-024502 Dicentrarchus labrax oligonucleotide-microarray (LOQ) (Probe Name version), Oligonucleotide probes were used to construct a high-density seabass microarray based on the Agilent 4 × 44 K design format (http://www.agilent.com/), which covers 13,199 unique transcripts of Dicentrarchus labrax. Oligonucleotides, 60-mer plus a “linker”, are synthesized directly on glass slides using the Agilent’s SurePrint Tecnology; oligo design was carried out by Agilent. This microarray includes 6275 annotated transcripts, each with x3 specific probes, and 4516 ESTs with 1 probe/target sequence.
18 GPL17872 Agilent Pimephales promelas 15K 15,268 ERDC 2013-10-31 Agilent Pimephales promelas
Pimephales promelas
Oligo Array in situ oligonucleotide, Agilent Pimephales promelas 15K,
19 GPL17832 Illumina HiSeq 2000 (Megalobrama amblycephala) 0 2013-10-24 Megalobrama amblycephala
Megalobrama amblycephala
HT Sequencing high-throughput sequencing, Illumina HiSeq 2000 (Megalobrama amblycephala),
20 GPL17765 AB SOLiD 3 Plus System (Symphysodon aequifasciata) 0 2013-09-24 Symphysodon aequifasciata
Symphysodon aequifasciata
HT Sequencing high-throughput sequencing, AB SOLiD 3 Plus System (Symphysodon aequifasciata),
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