Focus, focus, focus; we're all aware that greater focus yields better and faster results. MI brings a focused approach to your microarray experiments with whole genome microarrays and our highly focused MI PathArray microarrays targeting specific gene pathways.
For whole genome studies, MI offers our well-proven MI ReadyArray and OpArrays assays. Arrays are available for any organism in MI's diverse probe collection including human, mouse, rat and other animals, plants, and a wide variety of microbes including bacterial genomes, plant-associated microbes, yeast, and other fungi. We can supplement any of the MI genomic probe sets with your custom probes, or utilize multiple probe sets. You'll find that each array offers exceptional quality backed by MI service.
MI features two microarrays to assay gene expression of the human genome. The MI ReadyArray is based on the HEEBO collection of long oligo probes; the OpArray is based on the AROS collection of long oligo probes. Both human genome microarrays offer extensive gene expression coverage of potential transcripts.
Featuring 48,958 probes precision arrayed onto a single microarray slide, this human whole gene expression array contains probes from the Stanford/Illumina collaboration on the HEEBO (Human Exonic Evidence Based Oligonucleotide) set of long oligos.
MI proprietary spotting buffers, arraying technology, microarray fabrication expertise on a variety of surfaces, and quality control verification of each production lot insures dependable microarray consistency among production lots and gene expression experiments. All MI microarray products are backed by warranty to meet our exacting specifications.
This long oligo microarray contains 35,035 oligonucleotide probes, representing approximately 25,100 unique genes and 39,600 transcripts. A subset of the total set (31,387 probes) are contained within the span of a single exon to provide the microarray detection precision at the transcript and gene levels. Of these 31,387 single exon probes, 26,283 of them are suitable for Comparative Genome Hybridization (CGH) studies.
Based on the Ensembl human database build (NCBI-35c), with a full coverage on NCBI human Refseq dataset (04/04/2005), the Human MI ReadyArray also integrates a significant portion of unique full-length cDNA clone sequences from the H-Invitational Database (release 1.8). A variety of data sources were used to provide gene expression coverage for genes from the human mitochondrial genome, RNA genes, microRNA genes, the endogenous human viral genes and the exogenous reporter genes.
Two different microarrays to assay the mouse genome are available through MI. The MI ReadyArray is based on the MEEBO collection of long oligo probes; the OpArray is based on the M. musculus AROS collection of long oligo probes. Both arrays offer excellent coverage of potential transcripts.
Featuring 38,467 probes precision arrayed onto a single slide, our mouse whole genome expression array features probes from the Stanford/Illumina collaboration on the MEEBO (Mouse Exonic Evidence Based Oligonucleotide)
Set.
MI proprietary spotting buffers, arraying technology, microarray fabrication expertise on a variety of surfaces, and quality control verification of each production lot insures dependable microarray consistency among production lots and gene expression experiments. All MI microarray products are backed by warranty to meet our exacting specifications.
Mouse OpArray contains 35,852 long oligo probes representing approximately 25,000 genes and about 38,000 gene transcripts based on the Ensembl Mouse Database release 26.33b.1, Mouse Genome Sequencing Project, NCBI RefSeq, Riken full-length cDNA clone sequences, and other GenBank sequences. On this gene expression microarray for the mouse genome, 21,335 mouse NCBI RefSeq gene transcript sequences are represented. These gene expression probes allow detection of alternative splicing variants using common, partial common and individual transcript oligos.
Our MI ReadyArray for the rat genome now features an update of 11,986 new gene expression probes to complement the 27,232 transcript probes developed for the original MI rat microarray. Precision arrayed onto a single slide, our rat gene expression array features microarray probes from the Operon Biotechnologies' Array Ready Oligo Set version 3.0 and Operon's update of that microarray probe set produced in 2008.
MI proprietary spotting buffers, arraying technology, microarray fabrication expertise on a variety of surfaces, and quality control verification of each production lot insures dependable microarray consistency among production lots and gene expression experiments. All MI products are backed by warranty to meet our exacting specifications.
Bos taurus - The Bos taurus microarray set has 8329 long oligo probes developed in collaboration with University of Michigan representing 8329 putative genes from the B. taurus genome. Gene sequences used for probe design were obtained from TIGR Cattle Gene Index Release 11 and GenBank.
Caenorhabditis elegans AROS - The Caenorhabditis elegans AROS contains 19,873 long oligo probes representing 20,445 C. elegans gene transcripts. The 19,873 microarray probes were designed from the WormPep DNA Release 75 (March 2002) database, developed and maintained by the Sanger Institute. The C. elegans sequencing project was completed by the Sanger Institute and Washington University School of Medicine. All probes were designed to be fully contained within the open reading frame (ORF). C_elegans_AROS_genelist
C.elegans MI ReadyArray - Featuring the oligo microarray probes developed for ~23,000 C. elegans genes by the Genome Sequencing Center at Washington University, the C. elegans MI ReadyArray provides easy and quick access to this unique resource for investigators interested in gene expression. Microarray probes were selected from sequence unique to each gene with proximity to the 3' end and with a minimum of secondary structure potential. The melting temperatures (Tm) of all oligo probes were uniformly held to within +/- 3°C, based on nearest neighbor calculations.
Dog MI ReadyArray - The Dog MI ReadyArray for study of Canis familiaris contains 25,383 long oligo probes for gene expression. The design parameters targeted probe placement to be fully contained within a single exon, making this microarray probe set also applicable for CGH (comparative genome hybridization) experiments. These MI Dog ReadyArray probes are able to detect alternative splice variants from Ensembl C. familiaris release 44.2b genebuild which is based on the CanFam 2.0 whole genome shotgun assembly (May 2006) provided by the Broad Institute. CanFam 2.0 genebuild predicts 27,310 gene transcripts and 1,926 RNA genes. In this microarray probe set, 27,039 transcripts are covered by at least one microarray probe providing essentially full gene expression coverage of the canine nuclear and mitochondrial genomes.
Drosophila melanogaster - The Drosophila melanogaster microarray set contains 14,593 long oligo probes representing 13,664 genes and 17,899 transcripts. The design directly deals with alternative splicing variants using common, partial common, or individual transcript oligos to assay gene expression. All 14,593 probes are designed from gene transcript sequences from the Gadfly release 3.1 database whole_genome_transcript_dmel_RELEASE3-1.FASTA (Berkeley Drosophila Genome Project )
Gallus gallus - MI prints microarrays for the chicken genome using the Roslin/ARK Chicken Array set of 20,673 long oligo probes designed by ARK. This microarray probe set includes 18,363 oligos designed from ENSEMBL-predicted gene transcripts, the BBSRC fully-sequenced set and the DT40 full length sequencing set. In addition, genes important in developmental genes, probes previously used on other arrays, precursor RNA's for micro RNA's and ~30 microRNAs were included in this gene expression set. ARK researchers can be contacted for additional annotation information through their website at www.ark-genomics.org
Sus scrofa - The 13,297 microarray probes of the Sus scrofa oligo set were designed to represent S. scrofa gene sequences that were also highly similar to a known human, mouse, or pig gene. The annotation available for this probe set relies on SSGI.release_10 data. In the Release 10 data there were 611 oligos that did not map to the genome.
Xenopus tropicalis - Our Xenopus tropicalis microarray contains 10,898 long oligo probes representing 10,898 transcripts. These gene expression transcript sequences were derived from a large scale Xenopus tropicalis EST project carried out at the Wellcome Trust/Cancer Research UK Gurdon Institute in Cambridge, supplemented by ESTs from NCBI.
Arabidopsis thaliana - Our Arabidopsis thaliana microarray contains 29,110 long oligo probes and representing 26,173 protein-coding genes, 28,964 protein-coding gene transcripts, and 87 microRNA genes from A. thaliana. All gene expression probes were designed based on the file ATH1.cdna from the ATH1 release 5.0 of the TIGR A. thaliana genome annotation database and release 4.0 of the miRNA Registry at the Sanger Institute.
Annotation of the microarray probe set was based on TAIR Version 7. Among the data included are TAIR ID, gene symbol and description, chromosome coordinates, RefSeq cross-reference, and gene ontology terms. These data allow detection of alternative splicing variants using common, partial common, or individual transcript oligos.
Medicago truncatula - The Medicago truncatula microarray probe set assays 16,086 ESTs for this species. All gene expression probes were designed from The Institute of Genome Research (TIGR) Gene Index Database MtGI Release 5.0, released on May 3, 2002. These data now reside at http://compbio.dfci.harvard.edu/tgi/cgi-bin/tgi/gimain.pl?gudb=medicago
Magnaporthe grisea - The Magnaporthe grisea microarray set contains 11,676 long oligo probes representing 11,676 open reading frames (ORFs) from Magnaporthe grisea. Predicted ORFs were downloaded from the Whitehead Institute/MIT Center for Genome Research for the design of this gene expression resource. Additional information can be found at http://compbio.dfci.harvard.edu/tgi/cgi-bin/tgi/gimain.pl?gudb=m_grisea
Oryza sativa - Developed in a cooperative research partnership with the Beijing Genome Institute (BGI), these 60,727 microarray probes were designed by BGI and provide gene expression data for 55,427 genes from a variety of sources for both the Oryza sativa Indica and Japonica rice genomes. BGI provided annotation of the gene sequences for Oryza sativa Indica and Japonica genomes.
Pisum sativum - The Pisum sativum microarray probe set contains 5,220 long oligonucleotide probes representing 5,220 genes of Pisum sativum genome.
Prunus persica - - The Prunus persica microarray probes are a subset of the full genome. This gene expression set focused on genes expected to play a role in flowering, contains 4,806 long oligos.
Rhizobium leguminosarum - Our Rhizobium leguminosarum microarray probe set contains 7,413 70-mer oligonucleotide probes representing 7,413 genes from Rhizobium genome and seven plasmids associated with this microbe including pRL7, pRL8, pRL9, pRL10, pRL11, pRL12 and UPM791. Gene sequences used for oligo design were obtained from Sanger Institute.
Sinorhizobium meliloti - Our Sinorhizobium genome oligo probe set for microarrays contains 6,205 long oligo probes representing 6,205 ORFs from Sinorhizobium meliloti strain 1021 and two S. meliloti-associated plasmids, pSymA and pSymB. All source sequences for the design process were obtained from National Center of Biotechnology Information (NCBI) data. More information is available at: http://www.ncbi.nlm.nih.gov/genomeprj?term=Sinorhizobium meliloti
Solanum lycopersicum (L esculentum) - For this microarray probe set, most of 12,160 oligos were designed from sequences from the Cornell University SGN UniGene Lycopersicon combined build #3 database . Additionally, a small number of gene expression probes (93) were designed from GenBank sequences. Gene descriptions were obtained from their original sources. The gene descriptions for SGN UniGene sequences were BLAST annotations based on arabidopsis and other GenBank sequences. Additional information on tomato genome can be found at http://compbio.dfci.harvard.edu/tgi/cgi-bin/tgi/gimain.pl?gudb=tomato
Vitis vinifera - Vitis vinifera microarray probe set contains 14,562 gene expression probes for transcripts from The Institute for Genomic Research (TIGR) Grape Gene Index (VvGI), release 3. The complete grape gene index was downloaded from the former TIGR website; more current data can be found at http://compbio.dfci.harvard.edu/tgi/cgi-bin/tgi/gimain.pl?gudb=grape
Zea mays - Zea mays microarray set ontains 57,452 long oligonucleotide probes represent 57,452 genes from the maize genome. Gene sequences used for probe design were obtained from TIGR Maize Gene Index Release 14 and the Maize Oligonucleotide Array Project.
Bacillus anthracis - Our gene expression microarray for Bacillus anthracis and other Bacillus genomes associated with anthrax contains 7,787 long oligo probes designed to detect open reading frames (ORFs) in the following: B. anthracis strain Ames, B. anthracis strain A2012, B. cereus ATCC 14579. B. anthracis-associated plasmids pXO1, pXO2 (from both Ames and A2012) and B. cereus-associated plasmid pBClin15. Annotation of the microarray probes includes information for all the strains detailed above and the B. anthracis strain Sterne. Among the data included are gene start and end coordinates, strand information, and protein name and PID to allow further investigation of your results.
Bordetella pertussis – The Bordetella pertussis microarray contains 3,582 long oligo probes representing 3800 open reading frames (ORFs) of B. pertussis strain Tohama I genome. Annotation of the gene expression probes includes gene ID and description.
Campylobacter coli - Our Campylobacter coli long oligo probe set contains 2,074 probes available for microarray printing. Design of the probe sequences was accomplished so researchers could potentially place the probes from this set and those from the C. jejuni probe set listed below onto the same microarray.
Campylobacter jejuni - Campylobacter jejuni long oligo probe set for microarrays contains 1,601 open reading frames (ORFs) from C. jejuni subsp. jejuni NCTC 11168 (GenBank sequence AL111168) and the C. jejuni associated plasmids 81-176 pVir, and pCJ01. All 1,601 probes were designed to lie within predicted ORFs.
Chlamydophila pneumoniae - The Chlamydophila pneumoniae microarray set contains 1,350 long oligo probes representing three strains of C. pneumonia; CWL029, AR39, and TW-183.
Clostridium acetobutylicum - Clostridium acetobutylicum, sequenced by the former Genome Therapeutics Corporation in 2001, is offered as a microarray doe gene expression research in support of the current interest in biofuel research. Our microarray probe set detects alternative splice variants from C. acetobutylicum, an organism of high interest for those researching alternative fuels. The annotation of the C. acetobutylicum genome predicts 3,844 genes which include 3,672 protein coding genes and 107 structural RNAs. Of those, 3842 are covered by the 4,231 probes on the array. Annotation data includes transcript ID and probe position within the transcript.
Escherichia coli - Our E. coli probe set for microarrays contains 9308 long oligos to investigate four strains of Escherichia coli and three E. coli-associated plasmids. Within the probe set there are:
Among these gene expression probes for the E. coli-associated plasmids, 3 plasmid genes in OSAK1, 10 genes in pO157_Sakai and 97 genes in pO157_EDL933 are present in the probe set.
Haemophilus influenza - The microarray probe set for the Haemophilus influenzae genome contains 1,714 long oligos to investigate 1,714 Haemophilus influenzae strain Rd open reading frames (ORFs).
Helicobacter pylori - Helicobacter pylori microarray set containing 1903 non-redundant oligonucleotide probes and control probes was designed to assay H. pylori 26695, a 1,667,867 bp circular DNA genome. Synonymous names for this helicobacter strain are Helicobacter pylori ATCC700392, Helicobacter pylori KE26695, and Helicobacter pylori (strain 26695).
Lactobacillus sakei - Our Lactobacillus sakei oligo probe set was based on the genome annotations of L. sakei strain 23K from Flore Lactique et Environnement Carne (FLEC) Laboratory (Institut National de la Recherche Agronomique, JOUY-EN-JOSAS, France). It contains 2,000 oligonucleotide probes available for microarray fabrication.
The set consists of eight subsets of probes:
Listeria monocytogenes - These microarray ready oligos are 2,857 ORF-derived probes from Listeria monocytogenes strain EGD. All oligo probes were designed for 100% identity for the primary EGD strain but were also selected so that 877 L. innocua ORFs were also represented. The genelist contains oligo sequence information for all of the oligo probes and their corresponding L. monocytogenes and L. innocua ORFs.
Mycobacterium tuberculosis - Our Mycobacterium tuberculosis microarray probe set contains 4,505 long oligos representing 3,926 ORFs from the M. tuberculosis H37RV strain. These same oligo probes also represent 3,811 ORFs from the CDC-1551 strain. The data for microarray probe design were obtained from Mycobacterium tuberculosis H37RV strain data from the Sanger Institute. An additional 573 oligo probes for M. tuberculosis CDC-1551 strain as sequenced by TIGR were also included in this set.
Mycoplasma pneumonia – The microarray probe set for Mycoplasma pneumoniae was designed from data for M. pneumoniae strain M129 (ATCC 29342) and contains 741 oligonucleotide probes, representing all gene sequences and a variety of control probes.
Rhizobium leguminosarum - Our Rhizobium leguminosarum microarray probe set contains 7,413 70-mer oligonucleotide probes representing 7,413 genes from Rhizobium genome and seven plasmids associated with this microbe including pRL7, pRL8, pRL9, pRL10, pRL11, pRL12 and UPM791. Gene sequences used for oligo probe design were obtained from the Sanger Institute.
Salmonella - Salmonella microarray probe set contains 5,578 long oligo probes designed within 4,451 ORFs from Salmonella typhimurium LT2, 2510 ORFs from S. typhi, and probes for ORFs from Salmonella-associated plasmids pSLT, pSC101, pHCM1, pHCM2, and R27.
Sinorhizobium meliloti - Our Sinorhizobium genome oligo probe set for microarrays contains 6,205 long oligo probes representing 6,205 ORFs from Sinorhizobium meliloti strain 1021 and two S. meliloti-associated plasmids, pSymA and pSymB. All source sequences for the design process were obtained from National Center of Biotechnology Information (NCBI) data. More information is available at: http://www.ncbi.nlm.nih.gov/genomeprj?term=Sinorhizobium meliloti
Streptococcus mitis - The Streptococcus mitis oligo probe set was designed based on S. mitis strain B6 genome assembled and annotated by the scientists at the Laboratory of Professor Regine Hakenbeck (Department of Microbiology, University of Kaiserslautern, Germany, 67663). The 2,489 microarray probes in this oligo probe set represent all gene sequences as well as a selected group of intergenic sequences from the B6 genome.
Streptococcus pneumonia - Streptococcus pneumoniae microarray probe set covers both genes and intergenic regions of two S. pneumoniae stains: R6 and TIGR4. The design of these microarray probes maximizes the efficiency of probe representation over the homologous regions between the two genomes by utilizing a heuristic search algorithm for design of common oligo probes. Of the 2,879 microarray probes in the set 2,108 cover genes and intergenic regions identical in both genomes. Strain-specific oligos (314 from strain R6, 454 from strain TIGR4) can be used to establish identity of the sample strain.
Vibrio salmonicida - With 4,231 microarray probes, Vibrio salmonicida was designed for detection of transcripts from V. salmonicida strain LFI1238 in collaboration with Prof. Nils-Peder Willassen (Institute of Medical Biology, University of Tromso). Vibrio salmonicida is a gram negative marine bacterium that is a cause of cold-water vibriosis in Atlantic salmon and is related to the human pathogens V. cholerae, V. parahemolyticus, and V. vulnificus. The V. salmonicida chromosome is ~4.2 Mb with a G/C content of ~45%. There are two large plasmids of ~ 450 and ~250 kb, along with several smaller plasmids.
Candida albicans - Our C. albicans oligo probe set contains both the original manually-curated microarray probes from the work by Braun et al. and the gene sequences from C. albicans genome assembly 19. The manually-curated gene sequences of C. albicans genome were published by Braun et al. are accessible at the website of the C. albicans Annotation Work Group (http://candida.bri.nrc.ca/candida/index.cfm). Additional sequence is taken from the C. albicans Genome Database. Microarray probes for the C. albicans mitochondrial genome are also included.
Magnaporthe grisea - The Magnaporthe grisea microarray set contains 11,676 oligo probes representing 11,676 ORFs from M. grisea as predicted in data available from the Whitehead Institute/MIT Center for Genome Research for the design.
Saccharomyces cerevisiae – Two microarray probe sets are available for S. cerevisiae as detailed below. The first is known as the original AROS yeast genome oligo probe set; the second microarray set (YBOX) builds additional functionality onto the original AROS microarray probe set.
Saccharomyces cerevisiae AROS – S. cerevisiae AROS probe set contains long oligos representing 6,388 S. cerevisiae ORFs designed from data obtained from the Saccharomyces Genome Database maintained by Stanford University.
Saccharomyces cerevisiae YBOX - The 3,072 long oligo probes comprising the YBOX set (Yeast Brown lab Oligo eXtension) were designed in Pat Brown's lab at Stanford University. Inclusion of the YBOX probes enhances the capabilities of the S. cerevisiae AROS by enabling analysis of the expression patterns of multiple features of the yeast genome in addition to ORFs. YBOX includes an extensive set of positive and negative control sequences to allow for quantitative assessment of microarray hybridization quality and data normalization. Probes for the following extended features were included in the YBOX design.
Gramella forsetii KT0831 - Whole genome analysis of genomic sequence and predicted gene for the marine Bacteroidetes formerly known as the Cytophaga-Flavobacteria-Bacteroides KT0831 resulted in the renaming of this organism to Gramella forsetii KT0831. G. forsetii KT0831 exhibits the ability to degrade high molecular weight organic matter, a preference for polymeric carbon sources and a clear capability for surface adhesion. This microarray set contains 3,552 oligo probes representing all unique ORFs. Probe design was based on annotation provided by the Amman laboratory of the Max Planck Institute for Marine Biology prior to publication in Genbank and EMBL. The complete sequence and annotation can now be retrieved from Genbank (NC_008571).
Plasmodium falciparum - Plasmodium falciparum oligo probes were designed in collaboration with Joe Derisi while he was studying with Pat Brown at Stanford University. This microarray probe set continues to be actively used by researchers around the world for research into the causative organism of malaria.
Rhodopirellula baltica – The Rhodopirellula baltica microarray probe set contains an oligo probe for each of the 7,353 ORFs from Rhodopirellula baltica (Pirellula sp. strain 1) derived from GenBank accession BX119912.