| 1 |
GPL1743 |
Zebrafish nucleotide array |
15,174 |
Leiden University |
2004-12-10 |
|
Danio rerio
 |
Oligo Array |
spotted oligonucleotide, Zebrafish nucleotide array, Microarrays of the MWG 14k Zebrafish Oligonucleotide Set were produced using the facilities of the Leiden Genome Technology Center (http://www.lgtc.nl). Oligonucleotides were dissolved in 150mM phosphate buffer (pH 8.5) to a concentration of 20 µM. With Omnigrid 100 (Genemachines) oligonucleotides were spotted on Codelink activated slides (Amersham Biosciences) according to the Amersham Codelink protocol and as described in (‘t Hoen et al 2003 and Meijer et al 2004). Microarrays were spotted according to the MIAME guidelines with 15.532 unique zebrafish oligonucleotides from the MWG oligonucleotide set. Ambion’s arraycontrol oligonucleotides (8 sense oligos) and 3 custom designed oligonucleotides were spotted together with the MWG oligonucleotide set. Spotted Codelink activated slides were treated with blocking solution and washed according to the manufacturer’s instructions. |
| 2 |
GPL1695 |
yeast intergenic array |
6,814 |
University of Geneva |
2004-11-08 |
|
Saccharomyces cerevisiae
 |
Oligo Array |
spotted oligonucleotide, yeast intergenic array, -Platform: amino-silane coated glass slides (GAPS II, Corning) -S. cerevisiae intergenic regions amplified from S288C genomic DNA (ResGen) using the intergenic region primer oligonucleotides (ResGen) (Harismendy et al. EMBO J. 22(18): 4738-4747, 2003). The primers allow the amplification of the sequence located on either side of elements such as open reading frames, tRNAs, small nuclear RNAs, Ty elements, solo δ, etc. A complete description of the primers can be obtained on the web site (ftp://ftp.resgen.com/pub/genepairs/yeast_intergenic). -The PCR products were purified and spotted using an automated arrayer (MicroGrid II, BioRobotics) |
| 3 |
GPL1483 |
WUSTL Brugia malayi v.1 |
7,056 |
Washington Univeristy School of Medicine |
2004-10-06 |
|
Brugia malayi
 |
Oligo Array |
spotted oligonucleotide, WUSTL Brugia malayi v.1, B. malayi clusters for arrays were selected from 8392 clusters generated and posted at the website http://nema.cap.ed.ac.uk/nematodeESTs/nembase These clusters were derived from > 20 cDNA libraries that represent the major B. malayi life cycle stages. They represent approximately ~40% of the total number of predicted genes for B. malayi. Clusters with multiple ESTs, predicted homology by BLAST, and sequence permitting design of a unique 65-mer oligonucleotides were chosen for inclusion on the array. Oligos were synthesized from the consensus sequence of selected clusters (n=3569) by standard methods by Illumina (San Diego, CA). The oligonucleotides (50nM in 3x SSC with 0.75M betaine) were printed in duplicate on MWG Epoxy slides (MWG Biotech Inc, High point, NC) by a locally constructed linear servo arrayer (after the DeRisi model, http://derisilabs.ucsf.edu/ ). Keywords = brugia malayi nematode worm parasite filaria filariasis |
| 4 |
GPL1746 |
tRNA microarray |
2,304 |
University of Chicago |
2004-12-13 |
|
Escherichia coli,Bacillus subtilis,Saccharomyces cerevisiae
 |
Oligo Array |
spotted oligonucleotide, tRNA microarray, The array contains probes complementary to the full length tRNAs in E. coli, B. subtilis and S. cerevisiae. It can be used to measure tRNA amounts and tRNA charging levels after tagging of all tRNAs based on their 3' CCA by ligation with a tagging oligonucleotide. |
| 5 |
GPL1771 |
T. elongatus 2.5k oligoarray |
5,408 |
Nagoya University |
2004-12-28 |
|
Thermosynechococcus elongatus BP-1
 |
Oligo Array |
spotted oligonucleotide, T. elongatus 2.5k oligoarray, Microarray using 45-mer unmodified oligonucleotide that contains 2,397 genes (95%) of the thermophilic cyanobacterium Thermosynechococcus elongatus BP-1. Keywords = thermophilic cyanobacteria Keywords = unmodified oligonucleotide |
| 6 |
GPL1519 |
Soll albicans |
14,112 |
The University of Iowa |
2004-10-19 |
|
Candida albicans
 |
Oligo Array |
spotted oligonucleotide, Soll albicans, C. albicans Array-Ready Genome Oligo Set Version 1.1 (Qiagen, Valencia, CA) was resuspended at a concentration of 20uM in 150mM sodium phosphate buffer (pH 8.5). Oligos were printed in duplicate blocks on Code Link slides (Amersham Biosciences) at Microarray, Inc. DNA coupling and post-coupling processing of printed microarray slides were done according to the manufacturere's instructions (Amersham Biosciences). |
| 7 |
GPL1705 |
SARST microarray |
1,200 |
University of British Columbia |
2004-11-12 |
|
Bacteria
 |
Oligo Array |
spotted oligonucleotide, SARST microarray, Comparison of hexachlorocyclohexane (HCH) contaminated soils from Spain with a community-specific microarray. These results are being submitted for publication and represent the first use of microarrays for analysis of soil DNA and the first community-specific microarray design. Keywords = SARST Keywords = microarray Keywords = RSTs Keywords = soil Keywords = bacteria |
| 8 |
GPL1717 |
Rosetta/Merck PatternID Mouse_25k_v1.1 |
23,536 |
Rosetta Inpharmatics (Merck & Co.) |
2004-11-23 |
|
Mus musculus
 |
Oligo Array |
spotted oligonucleotide, Rosetta/Merck PatternID Mouse_25k_v1.1, Oligonucleotide array on glass. Contains 60mer probes designed against 23,000+ mouse genes arrayed on Agilent ink-jet arrays. This array design and associated expression data described in Nature publication, Vol 422(6929):297-302. Keywords = mouse genetics gene expression oligonucleotide |
| 9 |
GPL1749 |
Rosetta (Merck) Human 25k v2.2.1 |
23,880 |
Rosetta Inpharmatics |
2004-12-15 |
|
Homo sapiens
 |
Oligo Array |
spotted oligonucleotide, Rosetta (Merck) Human 25k v2.2.1, Agilent oligonucleotide array on glass. Contains 60-mer probes (60-mer) Submitted for Nature publication Lim et al. Keywords = Human 25k/Functional ID |
| 10 |
GPL1476 |
RNG-MRC_MM25k_NICE |
25,344 |
IPMC/CNRS |
2004-10-01 |
|
Mus musculus
|
Oligo Array |
spotted oligonucleotide, RNG-MRC_MM25k_NICE, RNG-MRC_MM25k_NICE |
| 11 |
GPL1680 |
Rat liver oligo array |
1,920 |
University of Missouri-Columbia |
2004-11-03 |
|
Rattus norvegicus
 |
Oligo Array |
spotted oligonucleotide, Rat liver oligo array, Rat liver oligo array |
| 12 |
GPL1747 |
Ramaciotti Centre 10k combined Rat Oligo |
23,040 |
St Vincents Institute |
2004-12-13 |
|
Rattus norvegicus
|
Oligo Array |
spotted oligonucleotide, Ramaciotti Centre 10k combined Rat Oligo, Compugen and Operon oligo sets |
| 13 |
GPL1517 |
NIAID - Mmad |
14,592 |
National Institute of Allergy and Infectious Diseases |
2004-10-19 |
|
Mus musculus
|
Oligo Array |
spotted oligonucleotide, NIAID - Mmad, Printing by NIAID / Microarray Research Facility Surface type: non-adsorptive, polylysine-coated glass Attachment: covalent, (UV-treated polylysine) Array description: The custom microarrays are manufactured by the Microarray Research Facility of the National Institute of Allergy and Infectious Diseases (NIH/NIAID). Microarrays are printed with an Omnigrid robotic arrayer by Genomic Solutions (http://www.genomicsolutions.com ) that is fitted with a printhead and 32 SMP3 print tips from Telechem (http://www.arrayit.com ). The mouse microarray (Mmad) probe set is based on 70mer oligonucleotides from Qiagen's Mouse Genome Oligo Set V1.0 (http://oligos.qiagen.com/arrays/omad.php ) -- version 1.0 contains oligo IDs M000001_01 through M006868_01 of the version 1.1 set listed at this URL. Oligonucleotide probes are distributed into 384-well polypropylene plates (Genetix, 384 micro array) and dissolved in 4XSSC print buffer at a normalized 25 micromolar concentration. The Mmad microarray spot densities are 190 microns (center-to-center). Each probe is printed in duplicate as side-by-side features. The microarrays are printed on Fisher Premium microscope slides (cat# 12-544-1) coated with poly-L-lysine and post-processed according to the procedures on the Stanford website: http://cmgm.stanford.edu/pbrown/protocols/index.html . |
| 14 |
GPL1536 |
NCI/LMT Mm_FCRF_CGEN oligo |
22,272 |
NCI |
2004-10-25 |
|
Mus musculus
|
Oligo Array |
spotted oligonucleotide, NCI/LMT Mm_FCRF_CGEN oligo, Printing by the NCI-Frederick/LMT Microarray Research Facility Surface type: Surface type: amino-silane coated glass Corning CMT-GAPS II (http://www.corning.com) Attachment: covalent, (UV-treated) Array description: The custom arrays are manufactured by the NCI Frederick Laboratory of Molecular Technology Microarray Facility (NIH/NCI/SAIC/LMT). Microarrays are printed with BioRobotics TAS II robotic arrayer from Genomic Solutions (http://www.genomicsolutions.com) that is fitted with a printhead containing 32 SMP3 printing pins from Telechem International (http://www.arrayit.com). The mouse microarray (Mm_FCRF_CGEN oligo) probe set is based on 22,271 65mer oligonucleotides from Compugen Mouse Genome Oligo Set V1.0 (http://www.labonweb.com). The set includes 17,815 Unique UniGene Clusters that mapped into build #120. Oligonucleotide probes are distributed into 384-well polypropylene plates (Genetix, 384 micro array) and dissolved in 3XSSC print buffer at a normalized 25 micromolar concentration. The Mm_FCRF_CGEN oligo microarray spot densities are 165 microns (center-to-center) and one spot is printed per probe per slide. The microarrays are printed on Corning CMT-GAPS II slides (Item #40004) coated with amino-silane and post-processed according to the manufacturer's protocol. |
| 15 |
GPL1528 |
NCI/ATC Hs-OperonV2 |
22,242 |
NCI |
2004-10-22 |
Printing by the NCI /ATC Microarray Facility |
Homo sapiens
|
Oligo Array |
spotted oligonucleotide, NCI/ATC Hs-OperonV2, Attachment: UV cross-linked Array description: The custom arrays are manufactured by the NCI Advanced Technology Center Microarray Facility (NIH/NCI/CCR/ATC). Microarrays are printed with GeneMachines robotic arrayer from Genomic Solutions (http://www.genomicsolutions.com) that is fitted with a printhead containing 32 SMP3 printing pins from Telechem International (http://www.arrayit.com). |
| 16 |
GPL1699 |
MWG rat 10k oligo set |
10,000 |
Oklahoma State University |
2004-11-11 |
|
Rattus norvegicus
|
Oligo Array |
spotted oligonucleotide, MWG rat 10k oligo set, Normal rat transcriptomes of six organs: lung, heart, kidney, liver, spleen and brain were obtained using a novel DNA microarray hybridization system. In this system, six organs were hybridized simultaneously on one glass slide. Keywords = Transcriptome Keywords = parallel hybridization Keywords = microarray |
| 17 |
GPL1537 |
Mouse XM microarray set |
39,309 |
University of Toronto |
2004-10-27 |
|
Mus musculus
|
Oligo Array |
spotted oligonucleotide, Mouse XM microarray set, Agilent custom 60-mer oligonucleotide arrays |
| 18 |
GPL1482 |
M1, M3, M18 GAS Array |
7,344 |
University of Maryland, College Park |
2004-10-06 |
|
Streptococcus pyogenes
 |
Oligo Array |
spotted oligonucleotide, M1, M3, M18 GAS Array, oligonucleotide array containing unique ORFs rom M1, M3 and M18 Streptococcus pyogenes |
| 19 |
GPL1770 |
LGTCmuOLIs2 |
16,416 |
Leiden University Medical Center |
2004-12-26 |
|
Mus musculus
|
Oligo Array |
spotted oligonucleotide, LGTCmuOLIs2, spotted olibonucleotide microarray using Sigma-Genosys oligonucleotide library |
| 20 |
GPL1713 |
GBC_FOAR03_0001 |
28,800 |
University of British Columbia |
2004-11-18 |
|
Arabidopsis thaliana
 |
Oligo Array |
spotted oligonucleotide, GBC_FOAR03_0001, The Arabidopsis Genome Oligo Set Version 1.0 (Operon Biotechnologies, Huntsville, AL, USA) consists of 26090 70mer oligonucleotides (http://operon.com/arrays/oligosets_arabidopsis.php). As positive controls, we included oligos for twelve housekeeping genes (Operon). As negative controls, we synthesized four oligonucleotides specific for human genes with no similarity to any Arabidopsis gene and included twelve oligonucleotides with no similarity to any Arabidopsis gene (Operon). We used a PCR amplified green fluorescent protein (GFP) cDNA (Invitrogen, Carlsbad, CA, USA) as an orientation marker. Oligonucleotides were resuspended in 384 well flat bottom plates (Nunc, Rochester, NY, USA) to a concentration of 100 mM in 3 x SSC. Oligos were printed on MicroGrid II robots using Microspot 10k pins (Biorobotics, Huntington, UK) depositing approximately 0.5 nl (0.0075 pmole) of each oligo onto EZ rays aminosilane slides (Apogent Discoveries, Hudson, NH, USA). The pitch of the grid used for this library was 0.2 mm. Oligos were UV cross linked at 3000 x 100 μJ using a UV Stratalinker 2400 (Stratagene, La Jolla, CA, USA). We spotted single spots for 25,792 of the 26090 target oligonucleotides (due to software problems the print run was terminated shortly before completion); in addition, each subgrid contained six replicate spots of each of the four human negative controls, three spots of equally distributed Operon negative controls, a single spot of each of the twelve house keeping controls, and GFP marker on each corner of the s Keywords = GenomeBC-Forestry Keywords = 26k array v.1 |
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