| 1 |
GPL8393 |
Proprietary Affymetrix NHP GeneChip® Array for Cynomolgus genome derived from Biogen Idec |
51,886 |
University of Louisville |
2009-04-03 |
Affymetrix |
Macaca fascicularis
 |
GeneChip |
in situ oligonucleotide, Proprietary Affymetrix NHP GeneChip® Array for Cynomolgus genome derived from Biogen Idec, Biogen Idec’s (NASDAQ: BIIB) proprietary Affymetrix NHP GeneChip® Array platform. This microarray chip contains a comprehensive representation of the Cynomolgus genome derived from Biogen Idec’s proprietary sequencing efforts, from which Gene Logic (www.genelogic.com/) subsequently obtained the exclusive rights to provide as a service (personal communication, Jun Mano, Gene Logic). |
| 2 |
GPL9155 |
NimbleGen_Rhesus macaque_38K_DNA methylation array |
385,065 |
The Weizmann Institute |
2009-09-04 |
NimbleGen |
Macaca mulatta
 |
Oligo Array |
in situ oligonucleotide, NimbleGen_Rhesus macaque_38K_DNA methylation array, Annotation in this record based on the NCBI Jan. 2006 rhesus macaque (Macaca mulatta) draft assembly  v.1.0. Array Design: We collected a set of human ESC bivalent domains (Bernstein, Mikkelsen et al. 2006), and combined them with additional methylation related domains and control regions. We mapped these regions from the human genome to the rhesus genome using the UCSC liftOver program and tiled them with probes at 100 bp resolution (Roche-Nimblegen). 080318_Tanay_RockefellerU_RheMac2_ChIP.ndf and 080318_Tanay_RockefellerU_RheMac2_ChIP.pos included as supplementary files |
| 3 |
GPL9360 |
SMD Print_1597 Macaca mulatta |
45,220 |
Stanford Microarray Database (SMD) |
2009-10-06 |
Stanford Functional Genomics Facility, Stanford School of Medicine |
Macaca mulatta
|
cDNA Array |
spotted DNA/cDNA, SMD Print_1597 Macaca mulatta, |
| 4 |
GPL206 |
QtsA cDNA clones |
668 |
National Institute of Infectious Diseases |
2002-08-13 |
|
Macaca fascicularis
|
cDNA Array |
spotted DNA/cDNA, QtsA cDNA clones, We determined 512 full-insert sequences of cDNAs derived form cynomolgus monkey testis. An aliquot of the same DNA preparation used in the 5’-end-sequencing reactions provided material for the PCRs. Inserts were amplified by PCR using 5’-CTTCTGCTCTAAAAGCTGCG-3’ as a forward primer and 5’-CGACCTGCAGCTCGAGCACA-3’ as a reverse primer, in a volume of 100 µl. Successful amplification was confirmed by agarose gel electrophoresis. When the first PCR failed to amplify enough products, the first PCR products were amplified again. Samples of approximately 300 µg /ml DNA in 2 x Solution-T reagent (Takarabio) were printed on duplicate glass-slides with a GMS 417 arrayer (Genetic MicroSystems). Keywords = cynomolgus monkey, testis, QtsA |
| 5 |
GPL5396 |
Macaca fascicularis GeneChip |
10,114 |
National Institute of Biomedical Innovation |
2007-06-18 |
Affymetrix |
Macaca fascicularis
|
GeneChip |
in situ oligonucleotide, Macaca fascicularis GeneChip, Macaca fascicularis GeneChip CDF file is linked as a supplementary file at the foot of this record. |
| 6 |
GPL16449 |
LC Sciences Papio hamadryas miRNA array [UT_D110128] |
10,044 |
LC sciences |
2013-01-03 |
LC Sciences |
Papio hamadryas
 |
Oligo Array |
in situ oligonucleotide, LC Sciences Papio hamadryas miRNA array [UT_D110128], Custom miRNA microarray targeting the mature miRNAs of Papio hamadryas |
| 7 |
GPL16458 |
LC Sciences Papio hamadryas miRNA array [UT_D110128 reporter name] |
3,312 |
LC sciences |
2013-01-07 |
LC Sciences |
Papio hamadryas
|
Oligo Array |
in situ oligonucleotide, LC Sciences Papio hamadryas miRNA array [UT_D110128 reporter name], Custom miRNA microarray targeting the mature miRNAs of Papio hamadryas |
| 8 |
GPL13216 |
NimbleGen rhesus macaque promoter |
383,671 |
Kunming Institute of Zoology |
2011-02-23 |
NimbleGen |
Macaca mulatta
|
Oligo Array |
in situ oligonucleotide, NimbleGen rhesus macaque promoter, Annotation in this record based on UCSC rheMac2 The tilling array of orthologous regions of the NimbleGen human hg18 refseq promoter array (GPL9448) |
| 9 |
GPL13234 |
NanoString nCounter Gama2 Gene Expression Custom CodeSet |
101 |
Johns Hopkins School of Medicine |
2011-02-28 |
NanoString Technologies |
Macaca nemestrina
 |
Other |
other, NanoString nCounter Gama2 Gene Expression Custom CodeSet, Gama2 CodeSet is specific for inflammatory genes. Gama2 CodeSet Probe count: 92 In brief, a multiplexed probe library is made with two sequence-specific probes (Capture and Reporter) for each gene of interest. The first probe, a Capture probe, contains a 35- to 50-base sequence complementary to a particular target mRNA plus a short common sequence coupled to an affinity tag such as biotin. The second probe, the Reporter probe, contains a second 35- to 50-base sequence complementary to the target mRNA, which is coupled to a color-coded tag that provides the detection signal. The tag consists of a single-stranded DNA molecule, the backbone, annealed to a series of complementary in vitro transcribed RNA segments each labeled with a specific fluorophore. The linear order of these differently colored RNA segments creates a unique code for each gene of interest. Capture and Reporter probes are synthesized in 96-well plates using a semi-automated process. |
| 10 |
GPL5949 |
Nimblegen Macaque Whole genome CGH 385K array |
385,001 |
Harvard Medical School |
2007-10-01 |
Nimblegen Systems, Inc. |
Macaca mulatta
|
Oligo Array |
in situ oligonucleotide, Nimblegen Macaque Whole genome CGH 385K array, |
| 11 |
GPL2722 |
HMS Macaca mulatta 2.7K V1.0 |
2,675 |
Harvard Medical School |
2005-08-05 |
Dept. of Genetics, Harvard Medical School |
Macaca mulatta
|
cDNA Array |
spotted DNA/cDNA, HMS Macaca mulatta 2.7K V1.0, |
| 12 |
GPL13762 |
NimbleGen 12-plex Gene Expression Array for Cynomolgus monkey (135K) |
20,048 |
F.Hoffmann-La Roche AG |
2011-06-23 |
NimbleGen |
Macaca fascicularis
|
Oligo Array |
in situ oligonucleotide, NimbleGen 12-plex Gene Expression Array for Cynomolgus monkey (135K), The NimbleGen design is based on the Cynomolgus monkey genome/transcriptome version: v3 transcriptome. An expression design with 20,047 probe sets for 25,798 transcripts including transcript variants covering 16,896 genes with six 60-mer probes (PM) per probe set. The number of replicates is 1 - i.e., only one set of probes on the array. The design includes random GC and other control probes. NimbleGen design name: 091006_Cynomolgus_ERCC_expr_HX12 Native array description files: 091006_Cynomolgus_ERCC_expr.ndf 091006_Cynomolgus_ERCC_expr.ngd The Platform data table reflects a condensed representation of the expression array's replicate (SEQ_ID) features. The .ndf and .ngd files are linked below as supplementary files. Transcript identifiers are composed as follows: The Macaca fascicularis ID_REF is composed of a human NCBI GeneID and a human NCBI RefSeq transcript ID orthologous to the Macaca fascicularis transcript (note that the category NM is omitted for the predicted Cynomolgus transcripts). Example: ID_REF = 10000_005465_cyno_0m0 = Cynomolgus transcript orthologous to human NCBI GeneID 10000 and human NCBI RefSeq ID NM_005465. |
| 13 |
GPL9903 |
Agilent-022770 Macaca mulatta 951K rheMac2 TargetedRegionsRSmith |
974,016 |
Brigham and Women's Hospital |
2010-01-13 |
Agilent Technologies |
Macaca mulatta
|
Oligo Array |
in situ oligonucleotide, Agilent-022770 Macaca mulatta 951K rheMac2 TargetedRegionsRSmith, Targeted Regions with large backbone Arrays of this design have barcodes that begin with 16022770 or 2522770. 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. |
| 14 |
GPL10157 |
Agilent-024422 SurePrint G3 Chimpanzee CGH Microarray 4x180K (Feature Number version) |
180,880 |
Agilent Technologies |
2010-03-09 |
Agilent Technologies |
Pan troglodytes
 |
Oligo Array |
in situ oligonucleotide, Agilent-024422 SurePrint G3 Chimpanzee CGH Microarray 4x180K (Feature Number version), SurePrint G3 Chimpanzee CGH Microarray 4x180K Arrays of this design have barcodes that begin with 16024422 or 2524422. Data table annotations based on build panTro2:GSCv2.1:Mar2006. 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. |
| 15 |
GPL10158 |
Agilent-024419 SurePrint G3 Rhesus Macaque CGH Microarray 4x180K (Feature Number version) |
180,880 |
Agilent Technologies |
2010-03-09 |
Agilent Technologies |
Macaca mulatta
|
Oligo Array |
in situ oligonucleotide, Agilent-024419 SurePrint G3 Rhesus Macaque CGH Microarray 4x180K (Feature Number version), SurePrint G3 Rhesus Macaque CGH Microarray 4x180K Arrays of this design have barcodes that begin with 16024419 or 2524419. Data table annotations based on build rheMac2:Mmul_051212:Jan2006. 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. |
| 16 |
GPL16026 |
Agilent-026806 M. mulatta (Rhesus) Oligo Microarray v2 (Feature Number version) |
45,220 |
Agilent Technologies |
2012-09-07 |
Agilent Technologies |
Macaca mulatta
|
Oligo Array |
in situ oligonucleotide, Agilent-026806 M. mulatta (Rhesus) Oligo Microarray v2 (Feature Number version), M. mulatta (Rhesus) Oligo Microarray v2 Arrays of this design have barcodes that begin with 16026806 or 2526806. 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. |
| 17 |
GPL9861 |
Agilent-015421 Rhesus Macaque Gene Expression Microarray (Feature Number version) |
45,220 |
Agilent Technologies |
2010-01-07 |
Agilent Technologies |
Macaca mulatta
|
Oligo Array |
in situ oligonucleotide, Agilent-015421 Rhesus Macaque Gene Expression Microarray (Feature Number version), M. mulatta (Rhesus) Oligo Microarray 4x44K Arrays of this design have barcodes that begin with 16015421 or 2515421. 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. *** A different version of this platform with the Agilent Probe names in the ID column is assigned accession number GPL14569. |
| 18 |
GPL16027 |
Agilent-026806 M. mulatta (Rhesus) Oligo Microarray v2 (Probe Name Version) |
43,663 |
Agilent Technologies |
2012-09-07 |
Agilent Technologies |
Macaca mulatta
|
Oligo Array |
in situ oligonucleotide, Agilent-026806 M. mulatta (Rhesus) Oligo Microarray v2 (Probe Name Version), M. mulatta (Rhesus) Oligo Microarray v2 Arrays of this design have barcodes that begin with 16026806 or 2526806. 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. |
| 19 |
GPL14569 |
Agilent-015421 Rhesus Macaque Gene Expression Microarray (Probe Name Version) |
20,278 |
Agilent Technologies |
2011-09-12 |
Agilent Technologies |
Macaca mulatta
|
Oligo Array |
in situ oligonucleotide, Agilent-015421 Rhesus Macaque Gene Expression Microarray (Probe Name Version), M. mulatta (Rhesus) Oligo Microarray 4x44K Arrays of this design have barcodes that begin with 16015421 or 2515421. 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. *** The ID column includes the Agilent Probe Names. A different version of this platform with the Agilent Feature Extraction feature numbers in the ID column is assigned accession number GPL9861 |
| 20 |
GPL3535 |
[Rhesus] Affymetrix Rhesus Macaque Genome Array |
52,865 |
Affymetrix, Inc. |
2006-03-09 |
Affymetrix |
Macaca mulatta
|
GeneChip |
in situ oligonucleotide, [Rhesus] Affymetrix Rhesus Macaque Genome Array, 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 The GeneChip Rhesus Macaque Genome Array enables researcher to study gene expression in the rhesus animal model by simultaneously interrogating over 47,000 M. mulatta transcripts. Additionally, the Rhesus Genome Array contains several relevant viral organisms for studying host-disease immune response. The sequence information for this array was selected from public data sources including data from the University of Nebraska, the Baylor School of Medicine - Rhesus Macaque Whole Genome Shotgun Assembly (October 1, 2004), and GenBank STSs, ESTs, and mRNAs up to March 30, 2005. Additionally, probe sets were designed to interrogate rhesus transcripts orthologous to the 3' end of human transcripts (GeneChip Human Genome U133 Plus 2.0 Array and RefSeq sequences up to March 2005). Acknowledgements: Affymetrix, Inc. would like to acknowledge Dr. Rob Norgren from the University of Nebraska for his invaluable input into the design of the Rhesus Genome Array. Keywords = high density oligonucleotide array |
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