Gene Expression Omnibus (GEO) Overview

[ Top ] > [ 2007-10 ]

Vertebrates
(8)

Invertebrates
(16)

Viruses
(0)

Phages
(0)

Unclassified
(5)

SAGE NlaIII
(0)

SAGE RsaI
(0)

SAGE Sau3A
(0)

MPSS
(0)

GeneChip
(0)

Tiling Array
(0)

cDNA Array
(0)

Oligo Array
(5)

Bead Array
(0)

Protein Array
(0)

Antibody
(0)

RT-PCR
(0)

HT-Seq
(0)

Other
(0)

All
(5)

	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	GPL6253	JCVI PFGRC Plasmodium Sal-1 18K v1 array designed primarily based on strain Sal-1	17,218	J. Craig Venter Institute	2007-12-06	JCVI PFGRC	unidentified	Oligo Array	spotted oligonucleotide, JCVI PFGRC Plasmodium Sal-1 18K v1 array designed primarily based on strain Sal-1, This set includes 16120 oligonucleotides, has 18240 spots distributed in 48 blocks.
2	GPL6123	UCD_Ronald_XOarray_5K_V1.0	10,080	University of California, Davis	2007-11-13	Microarray Core Facility. University of California, Davis	unidentified,Xanthomonas oryzae pv. oryzicola BLS256	Oligo Array	spotted oligonucleotide, UCD_Ronald_XOarray_5K_V1.0,
3	GPL6055	University of Adelaide microarray facility Exiqon LNA miRNA microarray_version8.1	1,487	CSIRO	2007-10-25	University of Adelaide microarray facility	Arabidopsis thaliana,Caenorhabditis elegans,Drosophila melanogaster,Gallus gallus,Macaca mulatta,Homo sapiens,Bos taurus,Mus musculus,Rattus norvegicus	Oligo Array	spotted oligonucleotide, University of Adelaide microarray facility Exiqon LNA miRNA microarray_version8.1,
4	GPL6298	miMAX microRNA Array	1,231	National Institutes of Health	2007-12-18	Rutgers University	Caenorhabditis elegans,Drosophila melanogaster,Homo sapiens,Mus musculus,Rattus norvegicus	Oligo Array	spotted oligonucleotide, miMAX microRNA Array, http://cord.rutgers.edu/mirmax/index.html
5	GPL6012	A genome proxy array for profiling marine micobial communities	428	University of Arizona	2007-10-15	DeLong Lab	uncultured crenarchaeote 4B7,Prochlorococcus marinus subsp. pastoris str. CCMP1986,uncultured marine alpha proteobacterium,uncultured marine gamma proteobacterium EBAC31A08,uncultured marine group II euryarchaeote 37F11,uncultured proteobacterium,uncultur	Oligo Array	spotted oligonucleotide, A genome proxy array for profiling marine micobial communities, *Design Overview* The prototype microarray targeted thirteen BAC or fosmid genome fragments (20-160kb) from both bacteria and archaea (Table 1), recovered from a variety of marine habitats (Table 2), as well as the cyanobacterium Prochlorococcus MED4. These clones were originally sequenced because of the presence of taxonomic marker or specific functional genes. This array consisted of sets of 70-bp oligonucleotides targeting each genome or genome fragment (Fig. 1), dispersed along the target sequences with no more than one probe per gene, and excluding rRNA genes as targets. The probes were selected solely based on theoretical thermodynamic properties and GC content (~40%); that is, probe selection did not focus on specific genes or regions, but simply produced the Ã¢â‚¬Å“optimalÃ¢â‚¬Â probes for each genome proxy based on the probesÃ¢â‚¬â„¢ predicted hybridization properties. rRNA genes were excluded, because this probe design approach, which avoids sequence alignments and considerations of RNA secondary structure, would be unlikely to result in useful rRNA probes. Furthermore, rRNA probes of traditional design could not be included on the array because their appropriate hybridization conditions would be very different from those of this arrayÃ¢â‚¬â„¢s probes.

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