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
(21)		   SAGE RsaI
(0)		   SAGE Sau3A
(0)		   MPSS
(1)		   GeneChip
(28)		   Tiling Array
(115)		   cDNA Array
(214)		   Oligo Array
(375)		   Bead Array
(2)		   Protein Array
(0)		   Antibody
(0)		   RT-PCR
(1)		   HT-Seq
(240)		   Other
(6)		   All
(1,004)		  
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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.
61 GPL9759 QIMR/Agilent-023536 Schistosoma japonicum 44k array_New 2009 Sj 45,220 QIMR 2009-12-07 Agilent Technologies Schistosoma japonicum
Schistosoma japonicum		 Oligo Array in situ oligonucleotide, QIMR/Agilent-023536 Schistosoma japonicum 44k array_New 2009 Sj, Arrays of this design have barcodes that begin with 16023536 or 2523536. 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.
62 GPL3821 QIMR Schistosoma 22k oligonucleotide array 20,301 Agilent Technologies 2006-05-29 Agilent Technologies Schistosoma japonicum,Schistosoma mansoni
Schistosoma japonicum,Schistosoma mansoni		 Oligo Array in situ oligonucleotide, QIMR Schistosoma 22k oligonucleotide array, This microarray contains 19,221 non-control 60-mer probes designed to sequences sourced from the Chinese sequencing team (http://schistosoma.chgc.sh.cn/) as of Dec 2004 and from the TIGR Schistosoma mansoni Gene Index (SmGI) release 5.0. Agilent's 22k control grid with eQC targets is also implemented.
63 GPL8088 Princeton Lewis-Sigler Institute Plasmodium 8.5K array version 1 8,448 Princeton University 2009-01-16 Lewis-Sigler Institute Microarray Facility Plasmodium falciparum
Plasmodium falciparum		 Oligo Array spotted oligonucleotide, Princeton Lewis-Sigler Institute Plasmodium 8.5K array version 1, Llinas lab print 8-18-2006
64 GPL16492 Plasmodium Vivax Custom 244k Array designed by Genotypic Technology Pvt. Ltd. & Prof.Ashis K Das (AMADID:019103) 243,504 Genotypic Technology 2013-01-10 Agilent Technologies Plasmodium vivax
Plasmodium vivax		 Oligo Array in situ oligonucleotide, Plasmodium Vivax Custom 244k Array designed by Genotypic Technology Pvt. Ltd. & Prof.Ashis K Das (AMADID:019103),
65 GPL6269 Plasmodium falciparum Rathod Lab 8832 8,832 University of Washington 2007-12-12 Rathod Lab, University of Washington, USA Plasmodium falciparum
Plasmodium falciparum		 Oligo Array spotted oligonucleotide, Plasmodium falciparum Rathod Lab 8832,
66 GPL6187 Plasmodium falciparum Rathod Lab 8096 8,096 University of Washington 2007-11-28 Rathod Lab, University of Washington, USA Plasmodium falciparum
Plasmodium falciparum		 Oligo Array spotted oligonucleotide, Plasmodium falciparum Rathod Lab 8096,
67 GPL16484 Plasmodium falciparum Custom 244k Array designed by Genotypic Technology Pvt. Ltd. & Prof.Ashis K Das (AMADID:019056) 241,399 Genotypic Technology 2013-01-09 Agilent Technologies Plasmodium falciparum 3D7
Plasmodium falciparum 3D7		 Oligo Array in situ oligonucleotide, Plasmodium falciparum Custom 244k Array designed by Genotypic Technology Pvt. Ltd. & Prof.Ashis K Das (AMADID:019056),
68 GPL10386 PFGRC Trypanosoma cruzi Oligonucleotide Array v2 26,496 University of Georgia 2010-05-05 PFGRC - Pathogen Functional Genomics Resource Center Trypanosoma cruzi
Trypanosoma cruzi		 Oligo Array spotted oligonucleotide, PFGRC Trypanosoma cruzi Oligonucleotide Array v2, There are 192 spot differences between GPL8132 (ie, version 1) and the version 2 array. Column 'Corresponding v1 ID' identifies the 192 divergent array features.
69 GPL8132 PFGRC Trypanosoma cruzi Oligonucleotide Array v1 26,496 University of Georgia 2009-01-29 PFGRC - Pathogen Functional Genomics Resource Center Trypanosoma cruzi
Trypanosoma cruzi		 Oligo Array spotted oligonucleotide, PFGRC Trypanosoma cruzi Oligonucleotide Array v1,
70 GPL14373 Penaeus monodon 2.2k microarray 2,240 University of the Sunshine Coast 2011-09-02 Combimatrix Penaeus monodon
Penaeus monodon		 Oligo Array spotted oligonucleotide, Penaeus monodon 2.2k microarray, Microarray construction. A total of 1152 sequences were selected from the cDNA libraries created for this study together with an additional 387 sequences obtained from P. monodon EST collections from publicly available databases (GenBank (http://www.ncbi.nlm.nih.gov)) for inclusion as probes on the microarrays. Oligonucleotide microarrays were produced by CombiMatrix corporation (Mukilteo, USA) using the CustomArray™ 4×2K platform which contains four identical, independent 2240-feature microarrays on each slide. Between two and five oligonucleotide probes were designed and incorporated on each microarray for each of the selected transcripts.
71 GPL6667 P. vivax exon array v1.0 using oligos designed by Z. Bozdech and G. Hu 22,575 Barcelona Centre for International Health Research 2008-03-31 Agilent Plasmodium vivax
Plasmodium vivax		 Oligo Array in situ oligonucleotide, P. vivax exon array v1.0 using oligos designed by Z. Bozdech and G. Hu,
72 GPL11353 Oyster Crassostrea gigas microarray v1 31,918 Universite de caen 2010-12-22 Agilent Crassostrea gigas
Crassostrea gigas		 Oligo Array in situ oligonucleotide, Oyster Crassostrea gigas microarray v1, design id 025380 4 x 44K control grid IS-45220-4-V1_4x44K_GX_EQC_V20060608
73 GPL9109 Operon_malaria_8K 7,391 Council for Scientific and industrial Research 2009-08-27 Operon Plasmodium falciparum
Plasmodium falciparum		 Oligo Array spotted oligonucleotide, Operon_malaria_8K,
74 GPL3824 Oligo array for Plasmodium berghei 5,283 Johns Hopkins School of Public Health 2006-05-30 Agilent Plasmodium berghei
Plasmodium berghei		 Oligo Array in situ oligonucleotide, Oligo array for Plasmodium berghei, This microarray is a high-resolution, high performance 60-mer oligonucleotide array that represents the Plasmodium berghei transcriptome.
75 GPL4336 Okazaki Fly 22k Microarray v2 22,575 National Institute for Basic Biology 2006-09-17 Agilent Drosophila melanogaster
Drosophila melanogaster		 Oligo Array in situ oligonucleotide, Okazaki Fly 22k Microarray v2,
76 GPL10728 NKI-AVL Drosophila 4C 36K v. 2.0 (AMADID016016) 36,194 NKI-AVL 2010-07-26 Agilent Technologies Drosophila melanogaster
Drosophila melanogaster		 Oligo Array in situ oligonucleotide, NKI-AVL Drosophila 4C 36K v. 2.0 (AMADID016016),
77 GPL10652 NimbleGen_Schmidtea mediterranea_385k array 16,797 University of Illinois, Urbana-Champaign 2010-07-07 NimbleGen Schmidtea mediterranea
Schmidtea mediterranea		 Oligo Array in situ oligonucleotide, NimbleGen_Schmidtea mediterranea_385k array, NimbleGen design name 2007-11-06_Smed_ESTs_4_expr, NimbleGen design ID 6642. An expression design for 16,797 ESTs from Schmidtea mediterranea with ten 60-mer probes per gene. Each probe is replicated twice. The design includes random GC and other control probes. The Platform data table reflects a condensed representation of the expression array's replicate (SEQ_ID) features. The .ndf file is linked below as supplementary file.
78 GPL8456 NimbleGen_2005-05-10_Plasmodium_3D7_WG 385,585 NCMLS Radboud Universiteit 2009-04-17 NimbleGen Plasmodium falciparum
Plasmodium falciparum		 Oligo Array in situ oligonucleotide, NimbleGen_2005-05-10_Plasmodium_3D7_WG, Annotation in this record based on NCBI Plasmodium falciparum 3D7 strain 2005-05-10 Initial oligos were selected at 4bp interval in clusters of 10 oligos. Masking for repetitive elements was done by generating a histogram of 15-mer frequency in the genome and removing oligos with an average 15-mer frequency greater than 100. Oligos were of variable length (45bp to 83bp, median length of 56bp) and the median Tm was 68.7°C. Uniqueness was ascertained by determining the number of exact 45-mer matches of each oligo in the genome. The best oligo from each cluster of 10 was selected based on average 15-mer frequency, uniqueness, Tm, and base pair composition rules. The final set of oligos was arranged using ArrayScribe array design software (NimbleGen Systems Inc.). Arrays were constructed as described previously/
79 GPL7221 NimbleGene-P.tetrauerlia-variousSETs-50mer-v1 387,837 Laboratoire Biométrie et Biologie Evolutive 2008-08-28 NimbleGen Paramecium tetraurelia
Paramecium tetraurelia		 Oligo Array in situ oligonucleotide, NimbleGene-P.tetrauerlia-variousSETs-50mer-v1, The grid of features is 768x1024 (X, Y). It consists of 11 different SETs as described below. SET01 : Probes that match annotated transcripts. Each transcript has 6 probes (3 on the forward strand and 3 on the reverse strand). SET02 : Probes for complete tilling of 4 scaffolds : SCAFFOLD_106, SCAFFOLD_142, SCAFFOLD_164, SCAFFOLD_96. The probes cover both strands of the 4 scaffolds with a 25 nucleotides overlap. SET03 : Probes designed specifically to distinguish spliced and unspliced transcripts from the 4 scaffolds described in SET02. For each annotated intron, one probe covers the genomic sequence, centered on the middle of the intron (since introns in P. tetraurelia are between 20 and 30 nt length these probes contain the full sequence of the intron and a few bases from the surronding exons) while an other probe covers the spliced version of the transcript, centered on the exon-exon junction site. SET04 : Probes that match 219 annotated tRNAs. Each tRNAs has 4 probes (2 on the forward and 2 on the reverse strand). SET05 : Probes that match 3 non-codgin RNAs of particular interrest : AB059619, MS2B and PTU45433. Each ncRNA is fully tilled by the probes on both strands. SET06 : Probes that match the rDNA. SET07 : Probes designed specifically to study retention and expression of known IESs in paramecium (see Duret & al. Genome Res. 2008; 18(4):585-96 for more informations about IESs). SET08 : Probes that match 74 known transposons. Each transposons is fully coverd by tilling on both strands. SET09 : Tilling of both strands for 51Gmic gene. SET10 : Probes that match the mitochondrial genome (both strands) SET11 : Probes designed to distinguish spliced and unspliced transcripts from 6137 annotated genes confirmed by EST alignment. The protocol is the same than described for SET03. RANDOM : random probes.
80 GPL4573 NimbleGen/UW-Madison_Drosophila_whole_genome_v1 13,450 Clemson University 2006-11-19 NimbleGen Systems, Inc Drosophila melanogaster
Drosophila melanogaster		 Oligo Array in situ oligonucleotide, NimbleGen/UW-Madison_Drosophila_whole_genome_v1,
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