Gene Expression Omnibus (GEO) Overview

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.

Mammals
(0)

Vertebrates
(0)

Invertebrates
(10)

Plants
(23)

Bacteria
(22)

Viruses
(0)

Phages
(0)

Unclassified
(1)

All
(91)

SAGE NlaIII
(0)

SAGE RsaI
(0)

SAGE Sau3A
(0)

MPSS
(0)

GeneChip
(2)

Tiling Array
(0)

cDNA Array
(2)

Oligo Array
(18)

Bead Array
(0)

Protein Array
(0)

Antibody
(0)

RT-PCR
(0)

HT-Seq
(0)

Other
(0)

All
(22)

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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	GPL10091	Agilent-020923 ICEclcB13	1,120	University of Lausanne	2010-02-22	Agilent Technologies	Pseudomonas knackmussii	Oligo Array	in situ oligonucleotide, Agilent-020923 ICEclcB13, clc element of strain B13 Arrays of this design have barcodes that begin with 16020923 or 2520923. 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.
2	GPL10375	Lactobacillus johnsonii NCC533 Agilent 11K	10,807	NestlÃƒÂ© Research Center	2010-05-02	Agilent technologies	Lactobacillus johnsonii	Oligo Array	in situ oligonucleotide, Lactobacillus johnsonii NCC533 Agilent 11K,
3	GPL10537	Agilent-021782 Custom Staphylococcus aureus V6 Array	7,266	Genomic Research Laboratory	2010-06-14	Agilent	Staphylococcus aureus	Oligo Array	in situ oligonucleotide, Agilent-021782 Custom Staphylococcus aureus V6 Array, Staphylococcus aureus 564 Staphylococcus aureus UAMS-1 Staphylococcus aureus Newman Staphylococcus aureus SA113
4	GPL10685	Desulfotomaculum reducens MI-1 6.5K 080812_DR_MI-1_BLR_EXP	6,516	University of NeuchÃƒÂ¢tel	2010-07-14	NimbleGen	Desulfotomaculum reducens MI-1	Oligo Array	in situ oligonucleotide, Desulfotomaculum reducens MI-1 6.5K 080812_DR_MI-1_BLR_EXP, whole genome expressio nORF array for Desulfotomaculum reducens MI-1;Starting number of sequences: 3423;Sequences with probes: 3258;Exemplars: 88;Sequence with no probes: 78; 2 replicates on the array
5	GPL11137	Agilent 023389 GRL_V7_Staphylococcus_aureus	15,600	Genomic Research Laboratory	2010-10-28	Agilent	Staphylococcus aureus	Oligo Array	in situ oligonucleotide, Agilent 023389 GRL_V7_Staphylococcus_aureus, 60-mers oligonucleotide probes, in-situ synthesis
6	GPL11581	Agilent-021656 Sphingomonas wittichii RW1 [Feature Name version]	15,744	Eawag	2011-01-19	Agilent Technologies	Sphingomonas wittichii RW1	Oligo Array	in situ oligonucleotide, Agilent-021656 Sphingomonas wittichii RW1 [Feature Name version], Sphingomonas wittichii RW1 Arrays of this design have barcodes that begin with 16021656 or 2521656. 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.
7	GPL13532	Agilent 020458 GRL_Staphylococcus_epidermidis	15,447	Genomic Research Laboratory	2011-05-13	Agilent	Staphylococcus epidermidis	Oligo Array	in situ oligonucleotide, Agilent 020458 GRL_Staphylococcus_epidermidis, 60-mers oligonucleotide probes, in-situ synthesis
8	GPL13937	Agilent 014867 GRL_Staphylococcus_aureus_V5-11K	10,807	Genomic Research Laboratory	2011-07-18	Agilent	Staphylococcus aureus	Oligo Array	in situ oligonucleotide, Agilent 014867 GRL_Staphylococcus_aureus_V5-11K, 60-mers oligonucleotide probes, in-situ synthesis
9	GPL15091	EPFL 4x44k OGT MTB microarray (both strands condense version)	20,702	EPFL	2012-01-05	OGT	Mycobacterium tuberculosis	Oligo Array	spotted oligonucleotide, EPFL 4x44k OGT MTB microarray (both strands condense version), The forward and reverse strand is combined on this version of the platform. The supplementary files contain the oligonucleotide sequence for both strands and the array layout.
10	GPL15144	EPFL 4x44k OGT MTB microarray	42,434	EPFL	2012-01-19	OGT	Mycobacterium tuberculosis	Oligo Array	spotted oligonucleotide, EPFL 4x44k OGT MTB microarray,
11	GPL17037	Febit L. monocytogenes EGD-e DNA Micorarray	10,869	University of Zurich	2013-04-18	Febit Biomed GmbH, Heidelberg, Germany	Listeria monocytogenes EGD-e	Oligo Array	in situ oligonucleotide, Febit L. monocytogenes EGD-e DNA Micorarray,
12	GPL3401	Affymetrix custom Bradyrhizobium japonicum strain USDA 110 19K array	18,968	ETH ZÃƒÂ¼rich	2006-01-31	Affymetrix	Bradyrhizobium japonicum	GeneChip	in situ oligonucleotide, Affymetrix custom Bradyrhizobium japonicum strain USDA 110 19K array, 11 um high-density, whole genome array representing all 8317 annotated B. japonicum strain USDA 110 open reading frames plus 51 RNA genes and intergenic regions of >40 bp
13	GPL3931	Staphylococcus_aureus_v4_GRL	8,455	Genomic Research Laboratory	2006-06-28	Agilent	Staphylococcus aureus	Oligo Array	in situ oligonucleotide, Staphylococcus_aureus_v4_GRL, 60-mers oligonucleotide probes, in-situ synthesis on 1
14	GPL3961	Genomic Research Laboratory Rickettsia conorii 0.7 k	768	Genomic Research Laboratory	2006-06-30	UnitÃƒÂ© des Rickettsies, CNRS-UMR6020, IFR48, FacultÃƒÂ© de MÃƒÂ©decine, 27, Bd Jean Moulin, Marseille, France	Rickettsia conorii	cDNA Array	spotted DNA/cDNA, Genomic Research Laboratory Rickettsia conorii 0.7 k,
15	GPL4618	Agilent Escherichia coli 2.7K aCGH custom-array	2,753	Genomic Research Laboratory	2006-12-01	Agilent	Escherichia coli	Oligo Array	in situ oligonucleotide, Agilent Escherichia coli 2.7K aCGH custom-array, Microarray designed on E. coli K12 genome sequence containing 2700 probes covering 60% of the 4488 ORFs Used for comparative genomic hybridization of environmental isolates of E.coli Platform GPL4618 is derived from two distinct microarray designs containing 8.4K features for the 1st version and 22K features for the last version; both the 8.4K and 22K arrays contain oligos representing S.aureus AND E.coli). The E.coli probes are EXACTLY THE SAME on both the 8.4K and 22K arrays, ie, the same number of probes, the same sequences, and the same ORFs. The only difference concerns S.aureus probes (more probes, different sequences, and matching ORFs from newly sequenced S.aureus strains) which don't have any relevance to the GPL4618-related study and, thus, have not been included in GPL4618.
16	GPL5958	Lactobacillus johnsonii NC533 microarray project	1,876	NestlÃƒÂ© Research Center	2007-10-04	Eurogentec - parc industriel d'Ivoz-Ramet 21 - 4400 - Ivoz-Ramet - Belgium	Lactobacillus johnsonii NCC 533	cDNA Array	spotted DNA/cDNA, Lactobacillus johnsonii NC533 microarray project,
17	GPL6336	Dehalococcoides ethenogenes strain 195 1.6K	1,624	Eawag	2008-01-02	Affymetrix (Santa Clara, CA)	Dehalococcoides ethenogenes 195	GeneChip	in situ oligonucleotide, Dehalococcoides ethenogenes strain 195 1.6K,
18	GPL7040	GRL Rickettsia conorii str. Malish 7 5k array	4,969	Genomic Research Laboratory	2008-07-10	Agilent	Rickettsia conorii str. Malish 7	Oligo Array	in situ oligonucleotide, GRL Rickettsia conorii str. Malish 7 5k array, Oligonucleotide set of 5,098 probes resulting to a final coverage of 97% for ORFs and 32% for inter-ORFs (considering a length > 40bp) of R.conorii strain Malish 7.
19	GPL7137	Agilent-017903 Staphylococcus aureus V5 Bis 15K (basic)	6,608	Genomic Research Laboratory	2008-08-05	Agilent	Staphylococcus aureus,Staphylococcus aureus subsp. aureus NCTC 8325,Staphylococcus aureus subsp. aureus COL,Staphylococcus aureus subsp. aureus Mu50,Staphylococcus aureus subsp. aureus N315,Staphylococcus aureus subsp. aureus MW2,Staphylococcus aureus sub	Oligo Array	in situ oligonucleotide, Agilent-017903 Staphylococcus aureus V5 Bis 15K (basic), 60-mers oligonucleotide probes, in-situ synthesis
20	GPL8129	Bifidobacterium longum NCC2705 Agilent 11K	10,807	NestlÃƒÂ© Research Center	2009-01-29	Agilent technologies	Bifidobacterium longum NCC2705	Oligo Array	in situ oligonucleotide, Bifidobacterium longum NCC2705 Agilent 11K,

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