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
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Rodents
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Phages
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Unclassified
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All
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SAGE NlaIII
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SAGE Sau3A
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MPSS
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Protein Array
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Antibody
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HT-Seq
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All
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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	GPL6193	[MoEx-1_0-st] Affymetrix Mouse Exon 1.0 ST Array [probe set (exon) version]	1,256,831	Affymetrix, Inc.	2007-11-30	Affymetrix	Mus musculus	GeneChip	in situ oligonucleotide, [MoEx-1_0-st] Affymetrix Mouse Exon 1.0 ST Array [probe set (exon) 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=Wed Mar 11 17:52:51 2009 PDT #%chip_type=MoEx-1_0-st-v1 #%lib_set_name=MoEx-1_0-st #%lib_set_version=v1 #%genome-species=Mus musculus #%genome-version=mm9 #%genome-version-ucsc=mm9 #%genome-version-ncbi=37 #%genome-version-create_date=2007-07 #%netaffx-annotation-date=2009-03-16 #%netaffx-annotation-netaffx-build=28
2	GPL6194	[RaEx-1_0-st] Affymetrix Rat Exon 1.0 ST Array [probe set (exon) version]	1,064,901	Affymetrix, Inc.	2007-11-30	Affymetrix	Rattus norvegicus	GeneChip	in situ oligonucleotide, [RaEx-1_0-st] Affymetrix Rat Exon 1.0 ST Array [probe set (exon) 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 Mar 16 20:01:52 2009 PDT #%chip_type=RaEx-1_0-st-v1 #%lib_set_name=RaEx-1_0-st #%lib_set_version=v1 #%genome-species=Rattus norvegicus #%genome-version=rn4 #%genome-version-ucsc=rn4 #%genome-version-ncbi=HGSC v3.4 #%genome-version-create_date=2004-11 #%netaffx-annotation-date=2009-03-16 #%netaffx-annotation-netaffx-build=28
3	GPL6182	NimbleGen custom murine genomic tiling array	385,180	UIUC	2007-11-23	NimbleGen	Mus musculus	Tiling Array	in situ oligonucleotide, NimbleGen custom murine genomic tiling array, annotations based on mm5 genome build
4	GPL6096	[MoEx-1_0-st] Affymetrix Mouse Exon 1.0 ST Array [transcript (gene) version]	283,952	Affymetrix, Inc.	2007-11-08	Affymetrix	Mus musculus	GeneChip	in situ oligonucleotide, [MoEx-1_0-st] Affymetrix Mouse Exon 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=Wed Mar 11 17:52:08 2009 PDT #%chip_type=MoEx-1_0-st-v1 #%lib_set_name=MoEx-1_0-st #%lib_set_version=v1 #%genome-species=Mus musculus #%genome-version=mm9 #%genome-version-ucsc=mm9 #%genome-version-ncbi=37 #%genome-version-create_date=2007-07 #%netaffx-annotation-date=2009-03-16 #%netaffx-annotation-netaffx-build=28
5	GPL6093	Mouse custom CGH oligo array 244K (015151)	243,504	National Institute of Radiological Sciences	2007-11-07	Agilent	Mus musculus	Oligo Array	in situ oligonucleotide, Mouse custom CGH oligo array 244K (015151),
6	GPL6091	Agilent-014695 Mouse Genome CGH Microarray 244A (G4415A) - alternative version	235,402	The University of Manchester	2007-11-07	Agilent Technologies	Mus musculus	Oligo Array	in situ oligonucleotide, Agilent-014695 Mouse Genome CGH Microarray 244A (G4415A) - alternative version, This is an alternative version of the official Agilent platform assigned accession number GPL4092. The ID column represents the Agilent Probe names. This microarray is AgilentÃ¢â‚¬â„¢s premium product for mouse DNA copy-number profiling. Over 235,000 60-mer oligonucleotide probes, specifically optimized for copy-number measurement, span coding and non-coding genomic sequences with median spacing of 6.2 kb and 15.2 kb respectively. This microarray is designed for use with AgilentÃ¢â‚¬â„¢s optimized assay protocols, enabling researchers to use nanogram levels of total genomic DNA without complexity reduction.
7	GPL5986	MIT/SharpLab Mouse ES cell 454 2007	78,368	MIT	2007-10-10		Mus musculus	HT Sequencing	other, MIT/SharpLab Mouse ES cell 454 2007, High throughput sequencing of mouse embryonic stem cell short RNAs, 16-30nt fraction. Libraries were made from J1 ES cells before and 5 days after demethylation with 5-aza-deoxycytidine, and from Dicer-conditional ES cell lines before and after deletion of Dicer's floxed region. Adaptor ligation required 5' monophosphates and 3' hyrdoxyls.
8	GPL6114	Univ of Liverpool Agilent Mouse TIR QTL regions 56K CGH Array	56,084	The University of Manchester	2007-11-09	Agilent	Mus musculus	Oligo Array	in situ oligonucleotide, Univ of Liverpool Agilent Mouse TIR QTL regions 56K CGH Array, Probes on the array were from NCBI mouse build version 34. The probes cover 3 regions (which are known trypanosoniasis infection response QTLs): Chr1 from 94999974 to 124998700 Chr5 from 75000128 to 88999877 Chr17 from 29000114 to 33999682 For the chromosome 1 region there are 40k probes, the chosen region for probe design was from 95Mb to 125Mb. For the chromosome 5 region there are 40k probes, the chosen region for probe design was from 75Mb to 89Mb. For the chromosome 17 region there are 17k probes, the chosen region for probe design was from 29Mb to 34Mb
9	GPL5955	MaPTOL for REST	49,833	The Scripps Research Institute	2007-10-02	Scripps Research Institute	Mus musculus	Other	other, MaPTOL for REST,
10	GPL6105	Illumina mouse-6 v1.1 expression beadchip	46,632	Illumina Inc.	2007-11-08	Illumina Inc.	Mus musculus	Bead Array	oligonucleotide beads, Illumina mouse-6 v1.1 expression beadchip, The MouseWG-6 v1.1 Expression BeadChip contains six wholegenome gene expression arrays allowing six samples to be hybridized to a single chip. BeadChip content was created by combining proven sources, including the Mouse Exonic Evidence Based Oligonucleotide (MEEBO) set, the RIKEN FANTOM 22-5 database, and the National Center for Biotechnology Information (NCBI) Reference Sequence (RefSeq) database. Please use the GEO Data Submission Report Plug-in v1.0 for Gene Expression which may be downloaded from https://icom.illumina.com/icom/software.ilmn?id=234 to format the normalized and raw data. These should be submitted as part of a GEOarchive. Instructions for assembling a GEOarchive may be found at http://www.ncbi.nlm.nih.gov/projects/geo/info/spreadsheet.html
11	GPL5943	Emory_University Mouse-6 Expression BeadChip 47K	46,628	Emory University	2007-10-01	Illumina Inc.	Mus musculus	Bead Array	oligonucleotide beads, Emory_University Mouse-6 Expression BeadChip 47K, The Sentrix Mouse-6 BeadChip can be used to study expression of over 47,000 mouse transcripts based on MEEBO, RefSeq and RIKEN FANTOM2 content. researchers can generate whole-genome expression profiles for 6 samples in parallel on a single BeadChip. Each array is composed of 3 micron features with average feature redundancy of 30-fold . All features are QCed by a sequential hybridization process called array decoding. The probes are fully screened all-full-length 50-mers and the assay requires 50-100ng of total RNA input.
12	GPL6238	mouse-6 v1.1 (Illumina)	46,628	NCBI/NLM/NIH	2007-12-04	Illumina Inc.	Mus musculus	Bead Array	oligonucleotide beads, mouse-6 v1.1 (Illumina), This platform represents the commercially-available Illumina mouse-6 v1.1 expression beadchip, but is not intended for general use. Please contact the GEO staff if you need help submitting Illumina data.
13	GPL6283	Illumina Sentrix mouse-6.v1 bead array	46,133	NCBI/NLM/NIH	2007-12-14	Illumina	Mus musculus	Bead Array	oligonucleotide beads, Illumina Sentrix mouse-6.v1 bead array,
14	GPL6333	Illumina Mouse Ref-6 V1	46,120	NCBI/NLM/NIH	2007-12-31	Illumina, Inc.	Mus musculus	Bead Array	oligonucleotide beads, Illumina Mouse Ref-6 V1,
15	GPL6099	Illumina mouse-6 v1.0 expression beadchip	46,005	Illumina Inc.	2007-11-08	Illumina Inc.	Mus musculus	Bead Array	oligonucleotide beads, Illumina mouse-6 v1.0 expression beadchip, The Mouse-6 BeadChip can be used to study expression of over 47,000 mouse transcripts based on MEEBO, RefSeq and RIKEN FANTOM2 content. researchers can generate whole-genome expression profiles for 6 samples in parallel on a single BeadChip. Please use the GEO Data Submission Report Plug-in v1.0 for Gene Expression which may be downloaded from https://icom.illumina.com/icom/software.ilmn?id=234 to format the normalized and raw data. These should be submitted as part of a GEOarchive. Instructions for assembling a GEOarchive may be found at http://www.ncbi.nlm.nih.gov/projects/geo/info/spreadsheet.html
16	GPL6330	Print_850	42,624	Stanford University	2007-12-27	Stanford Functional Genomics Facility, Stanford School of Medicine	Mus musculus	cDNA Array	spotted DNA/cDNA, Print_850,
17	GPL6328	Print_1128	40,704	Stanford University	2007-12-27	Stanford Functional Genomics Facility, Stanford School of Medicine	Mus musculus	cDNA Array	spotted DNA/cDNA, Print_1128,
18	GPL6329	Print_1149	40,704	Stanford University	2007-12-27	Stanford Functional Genomics Facility, Stanford School of Medicine	Mus musculus	cDNA Array	spotted DNA/cDNA, Print_1149,
19	GPL6231	VMSR Mus musculus MEEBO 38.5K v1.0	38,515	Vanderbilt University	2007-12-03	Microarrays, Inc.	Mus musculus	Oligo Array	spotted oligonucleotide, VMSR Mus musculus MEEBO 38.5K v1.0, Full genome M. musculus array containing all oligonucleotides from the MEEBO mouse genome set (http://mmc.ucsf.edu/Meebo.html).
20	GPL6015	Operon Mouse 36k v4.0	37,632	Stanford School of Medicine	2007-10-16	German Cancer Research Center, Department of Molecular Genetics	Mus musculus	Oligo Array	spotted oligonucleotide, Operon Mouse 36k v4.0, The array format contains of 36480 spots in 48 subarrays each of which is build of 28 columns, 27 whole rows and 4 spots within a 28th row. This number includes empty buffer spots, sporadic replicates of single oligos and control sequences. Each subarray is printed by one spotting pin. The distance between spot centers is about 155Ã‚Âµm. Spot diameter is approximately 100Ã‚Âµm.

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