Gene Expression Omnibus (GEO) Overview

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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.

Human
(85)

Plants
(60)

Phages
(0)

SAGE RsaI
(0)

SAGE Sau3A
(0)

MPSS
(0)

Bead Array
(0)

Protein Array
(0)

Antibody
(0)

RT-PCR
(0)

HT-Seq
(23)

Other
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All
(60)

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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	GPL13228	Cryptococcus neoformans 243K tiling chip	243,504	UC San Francisco	2011-02-25	Agilent	Cryptococcus neoformans	Tiling Array	in situ oligonucleotide, Cryptococcus neoformans 243K tiling chip,
2	GPL13221	NCSU Payne_Aspergillus Flavus_22683_AFLAVUSa520391F [probe-level]	150,338	North Carolina State University - Center for Integrated Fungal Research	2011-02-24	Affymetrix	Zea mays,Aspergillus flavus,Aspergillus oryzae	GeneChip	in situ oligonucleotide, NCSU Payne_Aspergillus Flavus_22683_AFLAVUSa520391F [probe-level],
3	GPL12620	Nimblegen Maize Whole-Genome Microarray 385K (VersionV1_4a.53)	92,492	Iowa State University	2011-02-01	NimbleGen Systems Inc.	Zea mays	Tiling Array	in situ oligonucleotide, Nimblegen Maize Whole-Genome Microarray 385K (VersionV1_4a.53), This platform version is based on gene-models (probe-sets) from Maize RefGen V1(4a.53) using the expression probes only. The original design is a custom NimbleGen design which used 385k probes. The array design has 330803 expression probes and 58339 tiling probes. Zea maize design from customer-provided regions with expression and tiling probes were placed into two different containers: 330803 expression probes (5 probes per gene, no additional replicates) and 58339 tiling probes (probe spacing of 45bp).
4	GPL11575	Agilent 024417 Saccharomyces bayanus and Saccharomyces cerevisiae (SMD Print_1667)	62,976	Stanford University	2011-01-18	Agilent	Saccharomyces bayanus,Saccharomyces cerevisiae	cDNA Array	spotted DNA/cDNA, Agilent 024417 Saccharomyces bayanus and Saccharomyces cerevisiae (SMD Print_1667),
5	GPL13192	Conway Institute Candida parapsilosis 5834 v1.1	45,220	University Colege Dublin Conway Institute	2011-02-18	Agilent	Candida parapsilosis	Oligo Array	in situ oligonucleotide, Conway Institute Candida parapsilosis 5834 v1.1, The Cpag_IDs can be downloaded as a .zip file from the Broad institute page at the following link: http://www.broadinstitute.org/annotation/genome/lodderomyces_elongisporus/MultiDownloads.html
6	GPL11528	Agilent-022520 Brassica napus 4x44K	43,803	Genotypic Technology	2011-01-18	Agilent Technologies	Brassica napus	Oligo Array	in situ oligonucleotide, Agilent-022520 Brassica napus 4x44K,
7	GPL12621	Agilent-021169 Arabidopsis 4 Oligo Microarray (V4) (Probe Name version)	43,663	Agilent Technologies	2011-02-02	Agilent Technologies	Arabidopsis thaliana	Oligo Array	in situ oligonucleotide, Agilent-021169 Arabidopsis 4 Oligo Microarray (V4) (Probe Name version), Arabidopsis 4 Oligo Microarray (V4) Arrays of this design have barcodes that begin with 16021169 or 2521169. 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 Names. A different version of this platform with the Agilent Feature Extraction feature numbers in the ID column is assigned accession number GPL9020.
8	GPL13294	NimbleGen A. thaliana Gene Expression 12x135K Array TAIR 9.0	32,627	Max Planck Institute for Plant Breeding Research	2011-03-17	NimbleGen	Arabidopsis thaliana	Oligo Array	in situ oligonucleotide, NimbleGen A. thaliana Gene Expression 12x135K Array TAIR 9.0,
9	GPL11375	CapitalBio 29k Arabidopsis Genome Array	31,200	Institute of Genetics and Developmental Biology, Chinese Academy of sciences	2011-01-03	CapitalBio Corporation	Arabidopsis thaliana	Oligo Array	spotted oligonucleotide, CapitalBio 29k Arabidopsis Genome Array,
10	GPL13299	CombiMatrix 90K Petunia inflata array	29,306	University of Verona	2011-03-18	University of Verona -Department of Biotecnology- Plant Functional Genomics Centre	Petunia integrifolia subsp. inflata	Oligo Array	in situ oligonucleotide, CombiMatrix 90K Petunia inflata array, 29,163 specific oligos (35-40mer) were designed on Petunia inflata tentative consensus (TC) sequences (JI359155 - JI387099), and by using the program design OligoArray 2.1 (Rouillard et al. 2003). As negative controls, nine bacterial oligonucleotides sequences provided by CombiMatrix were utilized. The 90K TomatArrayTM 1.0 was designed with four replicates of each probe randomly distributed across the array to allow measurement of the variability within the array. All the procedures provided were performed as indicated by CombiMatrix protocols available at the CombiMatrix website (www.combimatrix.com).
11	GPL13260	Arizona Arabidopsis Oligonucleotide Microarrays Version 3.0	29,254	NRC-PBI	2011-03-09	Arizona Arabidopsis Oligonucleotide Microarray	Arabidopsis thaliana	Oligo Array	spotted oligonucleotide, Arizona Arabidopsis Oligonucleotide Microarrays Version 3.0,
12	GPL13298	CombiMatrix 90K Petunia axillaris array	27,748	University of Verona	2011-03-18	University of Verona -Department of Biotecnology- Plant Functional Genomics Centre	Petunia axillaris	Oligo Array	in situ oligonucleotide, CombiMatrix 90K Petunia axillaris array, 27,594 specific oligos (35-40mer) were designed on Petunia axillaris tentative consensus (TC) sequences (JI332784-JI359154), and by using the program design OligoArray 2.1 (Rouillard et al. 2003). As negative controls, nine bacterial oligonucleotides sequences provided by CombiMatrix were utilized. The 90K TomatArrayTM 1.0 was designed with four replicates of each probe randomly distributed across the array to allow measurement of the variability within the array. All the procedures provided were performed as indicated by CombiMatrix protocols available at the CombiMatrix website (www.combimatrix.com).
13	GPL13139	NimbleGen Leptosphaeria maculans whole genome 385K array v1	27,558	INRA	2011-02-08	NimbleGen	Leptosphaeria maculans	Oligo Array	in situ oligonucleotide, NimbleGen Leptosphaeria maculans whole genome 385K array v1, The Leptosphaeria maculans custom-exon array (385K) manufactured by Roche NimbleGen Systems Limited (Madison, WI) contains fourteen independent, non-identical, 60-mer probes per gene model, each being duplicated on the array. Included in the oligoarray are 12,396 predicted gene models, 63 genes encoding small secreted proteins not included in the predicted gene models, 1316 clustered EST that did not match with the gene models, 8651 random 60-mer control probes and labelling controls. Native array description file: 090417_L_maculans_expr.ndf Native array description file: 090417_L_maculans_expr.ngd
14	GPL11381	Eurogentec Schizosaccharomyces pombe IGR+ORF array (J120E)	22,176	Karolinska Inst	2011-01-04	Eurogentec AG	Schizosaccharomyces pombe	cDNA Array	spotted DNA/cDNA, Eurogentec Schizosaccharomyces pombe IGR+ORF array (J120E),
15	GPL13124	National Institute of Fruit Tree Science/Fruit Genome Research Team -Pyrus pyrifolia-ver024595	21,741	National Institutes of Fruit Tree Science	2011-02-04	Agilent	Pyrus pyrifolia	Oligo Array	spotted oligonucleotide, National Institute of Fruit Tree Science/Fruit Genome Research Team -Pyrus pyrifolia-ver024595, Agilent design ID: 024595
16	GPL13230	[ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array [Custom CDF: ATH1-121501.TAIR10]	21,428	The University of Texas at Austin	2011-02-27	Affymetrix	Arabidopsis thaliana	GeneChip	in situ oligonucleotide, [ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array [Custom CDF: ATH1-121501.TAIR10], custom CDF file based on TAIR10 annotation.
17	GPL11444	Derived from GPL9545 - The Genome Center at Washington University, Candida albicans 20K array	19,078	NIH/NIAID	2011-01-13	The Genome Center at Washington University	Candida albicans	Oligo Array	spotted oligonucleotide, Derived from GPL9545 - The Genome Center at Washington University, Candida albicans 20K array,
18	GPL11639	GenoToul/Biopuces Yeast 22x22 (Oligo-Set_Contol-Toulouse-Yeast v1.1.2)	15,488	ICVV/CSIC	2011-01-21	GenoToul/Biopuces	Saccharomyces cerevisiae	Oligo Array	spotted oligonucleotide, GenoToul/Biopuces Yeast 22x22 (Oligo-Set_Contol-Toulouse-Yeast v1.1.2),
19	GPL13220	Agilent Arabidopsis 1 Microarray	14,420	Nara Institute of Science and Technology	2011-02-24	Agilent Technologies	Arabidopsis thaliana	cDNA Array	spotted DNA/cDNA, Agilent Arabidopsis 1 Microarray, G4135A
20	GPL11376	FSU-Schco1-Microarray v1.0	13,441	Friedrich-Schiller-University	2011-01-03	febit biomed gmbh, Heidelberg, Germany	Schizophyllum commune	Oligo Array	spotted oligonucleotide, FSU-Schco1-Microarray v1.0, The microarray used in the present study contains probes for the 13,181 predicted gene models. It is based primarily upon the FilteredModels3 of Schizophyllum commune v1.0 genome project. Corresponds to S. commune strain H4-8 (A4,6; B3,2).

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