title: [MoGene-1_0-st] Affymetrix Mouse Gene 1.0 ST Array  [alternative CDF: Brainarray MoGene10stv1_Mm_REFSEQ version 14]

status: Public on Apr 28 2011

city: La Jolla

first: Rachid

last: Karam

state: CA

department: Reproductive Medicine

country: USA

institute: UCSD

organism: Mus musculus

technology: in situ oligonucleotide

distribution: custom-commercial

manufacture_protocol:
See manufacturer's web site
This is identical to GPL6246 but a custom cdf environment was used to extract data. ANNOTATION: chip library files are provided as supplementary files below, and can be downloaded at: http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/CDF_download.asp as Package name MoGene10stv1_Mm_REFSEQ version 14.


title: Agilent-035137 Catostomus snyderi array [Probe Name]

status: Public on Dec 04 2013

city: Costa Mesa

first: Alvine

middle: C

last: Mehinto

address: 3535 Harbor Blvd, Suite 110

institute: Southern California Coastal Water Research Project

organism: Catostomus snyderi

description:
This is the Probe Name version of GPL15985 [Feature Number version]
Arrays of this design have barcodes that begin with 16035137 or 2535137.
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.

manufacture_protocol: see manufacturer's web site at http://www.agilent.com/


title: 090828_Populus_135K_EXP

status: Public on Feb 26 2013

city: Vancouver

first: Ilga

last: Porth

address: 2424 Main Mall

country: Canada

institute: University of British Columbia

organism: Populus trichocarpa

description:
The Populus Gene Expression 12x135K Array is based on 48,146 nuclear gene models from version 1.1 of the Populus trichocarpa genome assembly and annotation (described in Tsai et al., 2011, In: Genetics, Genomics and Breeding of Poplar; Editors: C.P. Joshi, S. DiFazio, C. Kole, CRC Press)
native array description file = 090828_Populus_135K_EXP.ndf
native array description file = 090828_Populus_135K_EXP.ngd

manufacture_protocol: Details about the manufacture of the Populus Gene Expression 12x135K Array can be found at http://www.nimblegen.com/products/expression/eukarya/populus/12x135k/index.html


title: Vibrio vulnificus whole genome TwinChip

status: Public on Feb 27 2013

city: Seoul

first: Jonggyu

last: Lim

address: Gwanak 599

country: South Korea

institute: Seoul National University

organism: Vibrio vulnificus CMCP6

technology: spotted oligonucleotide

description:
The V. vulnificus whole genome TwinChip has two blocks, up (upper) and dn (lower).

Vibrio vulnificus MO6-24/O and iscR mutant

distribution: non-commercial

manufacture_protocol: The V. vulnificus whole genome TwinChip was manufactured and kindly provided by the 21C Frontier Microbial Genomics and Applications Center (Daejeon, South Korea).


title: [Blactisa520677F] Custom Affymetrix Bifidobacteria Genome Array

status: Public on Feb 28 2013

city: Logan

first: Taylor

middle: S

last: Oberg

state: UT

address: 8700 Old Main

department: NDFS

institute: Utah State University

organism:
Bifidobacterium longum
Bifidobacterium animalis subsp. lactis

manufacture_protocol: see manufacturer's web site


title: Agilent-022089 sim-sech.v.1.3

city: East Setauket

first: Deniz

last: Erezyilmaz

state: NY

address: CMM 440

department: Biochemistry

institute: Stony Brook University

organism: Drosophila melanogaster

description:
simulans sechellia CGH Corrected genomic locations v.1.3

Arrays of this design have barcodes that begin with 16022089 or 2522089.

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.


title: Affymetrix Mouse Gene 1.1 ST array using a CDF [CDF:mogene11stv1mmentrezgcdf; mogene11stv1mmentrezg.db version: 15.1.0]

status: Public on Jun 06 2014

city: Wageningen

first: Peter

last: van Baarlen

address: De Elst 1

department: Animal Sciences

country: Netherlands

institute: Wageningen University

description: find at: http://nmg-r.bioinformatics.nl/NuGO_R.html

manufacture_protocol: This array is identical to GPL11533 but a custom, remapped CDF environment is used to extract data. This is version 15.1.0 of the remapped CDF. The CDF for various platforms can be found via the link http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/CDF_download.asp  and  via http://nmg-r.bioinformatics.nl/NuGO_R.html (search for appropriate CDF .db and version no.)


title: Illumina HiSeq 2000 (Atelerix albiventris)

last: GEO

organism: Atelerix albiventris

technology: high-throughput sequencing

distribution: virtual


title: AB 5500xl Genetic Analyzer (Pseudomonas aeruginosa PAO1)

organism: Pseudomonas aeruginosa PAO1


title: Illumina Genome Analyzer IIx (Neisseria lactamica 020-06)

status: Public on Feb 22 2013

organism: Neisseria lactamica 020-06


title: Agilent-026176 Alcanivorax borkumensis SK2 (Probe Name version)

city: Frankfurt

first: Daniela

middle: Jasmin

last: Näther

address: Max-von-Laue-Str. 9

department: Molecular Biosciences

country: Germany

institute: Goethe University Frankfurt

organism: Alcanivorax borkumensis SK2

description:
Alcanivorax borkumensis SK2 Gene expression array

Arrays of this design have barcodes that begin with 16026176 or 2526176.

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.


title: Print231_NHGRI

status: Public on Dec 22 2013

city: Bethesda

first: Yuelin

middle: Jack

last: Zhu

state: MD

address: 9000 Rockville Pike

department: Genetics Branch, Center for Cancer Research

institute: NCI

organism: Homo sapiens

technology: spotted DNA/cDNA

manufacture_protocol: This is a cDNA microarray spotted on glass prepared from PCR amplification of clones from the IMAGE Consortium cDNA library. The PCR and printing protocols, as well as more information about the IMAGE clone library, are detailed on the web site http://research.nhgri.nih.gov/microarray/main.html  and have also been published in Current Protocols in Human Genetics. RNA extraction and labeling protocols used are published (PMID 14970650) as are the data extraction and processing methods (PMID 12217912).


title: AB SOLiD 4 System (Bartonella henselae)

organism: Bartonella henselae


title: UMN AtDEFL 1.0

status: Public on Feb 23 2013

city: Minneapolis

first: Kevin

middle: A

last: Silverstein

state: MN

address: 599 Walter Library, 117 Pleasant St SE

department: Minnesota Supercomuting Institute

institute: Universtiy of Minnesota

organism: Arabidopsis thaliana

manufacture_protocol: The UMN AtDEFL 1.0 array was manufactured using standard proprietary procedures at Affymetrix, Inc.


title: UMN MtDEFL 1.0

organism: Medicago truncatula

manufacture_protocol: The UMN MtDEFL 1.0 array was manufactured using standard proprietary procedures at Affymetrix, Inc.


title: University of Padova_Sparus aurata_4x44K_v2.0

city: Legnaro (PD)

first: Serena

last: Ferraresso

state: Padova

address: Viale dell'Università

department: Dept of Comparative Biomedicine and Food Science

country: Italy

institute: University of Padova

organism: Sparus aurata

description: GE 4x44k oligo microarray that covers 21,497 unique transcripts of the gilthead sea bream (Sparus aurata). Oligonucleotides, 60-mer plus a “linker”, are synthesized directly on glass slide using the Agilent’s SurePrint Tecnology ; oligo design was carried out by eArray and sense and anti-sense probes were designed for each ESTs cluster. Both independent probes designed for the same transcript are named with an univocal ID;  the anti-sense probes are distinguished by suffix _AS. Probe was positively completed for 21,382 sequences with sense orientation and for 21,269 sequences with anti-sense orientation, for a total of 42,651 probes.

manufacture_protocol: See SurePrint Technology at manufacturer's web site http://agilent.com/


title: Illumina HiSeq 2000 (Citrus aurantiifolia)

status: Public on Feb 21 2013

organism: Citrus x aurantiifolia


title: Yale Lu Human/Mouse microRNA v2.0

city: New Haven

first: Stephen

last: Mastriano

state: CT

address: 10 Amistad Street

department: Genetics

institute: Yale University

organism:
Homo sapiens
Mus musculus
human gammaherpesvirus 4

description: miRBase release version 19

manufacture_protocol: Luminex xMap beads were coupled with animo-labeled antisense oligonucleotides to microRNAs


title: LC Sciences Human Frog Zebrafish miRNA 1.4K (G4.2miRHumanFrogZebrafish_15)

city: Houston

first: Christoph

last: Eicken

state: TX

address: 2575 W. Bellfort

institute: LC Sciences, LLC

organism:
Danio rerio
Pipidae
Homo sapiens

description: miRNA microarray with 100% coverage of unique mature miRNAs listed in miRBase version 15 for human, frog, pipid frog, zebrafish

manufacture_protocol: Arrays are made based µParaflo microfluidic technology (Atactic Technologies). On the µParaflo microfluidic chip, each detection probe consists of a chemically modified nucleotide coding segment complementary to target microRNA (from miRBase, http://miRBase.org) or other RNA (control or customer defined sequences) and a spacer segment of polyethylene glycol to extend the coding segment away from the substrate. The detection probes are made by in situ synthesis using PGR (photogenerated reagent) chemistry.


title: Agilent-020166 Candida albicans 8 x 15k Custom Expression Array

status: Public on Feb 20 2013

city: Providence

first: Richard

middle: J

last: Bennett

state: RI

address: 171 Meeting St

department: Molecular Microbiology and Immunology

institute: Brown University

organism: Candida albicans

manufacture_protocol: Agilent


title: Agilent-017298 chicken Array (017298_D_20070718)

status: Public on Feb 17 2013

city: Ames

first: Derrick

middle: Jamaal

last: Coble

state: IA

address: 2254 Kildee Hall

department: Animal Science

institute: Iowa State University

organism: Gallus gallus


title: Agilent-028516 Custom human mapping supercoiling array (CN1)

city: Edinburgh

first: Nick

last: Gilbert

address: Crewe Rd South

department: Institute of Genetics and Molecular Medicine

country: United Kingdom

institute: The University of Edinburgh

description: Mapping supercoiling

distribution: commercial


title: Illumina HiSeq 2000 (Mycobacterium gilvum PYR-GCK)

organism: Mycolicibacterium gilvum PYR-GCK


title: Agilent-030568 Custom Oryzias latipes microarray (UT2010)

city: Kyoto

first: Tokiro

last: Ishikawa

address: Kitashirakawa-oiwake, Sakyo-ku

department: Biophysics

country: Japan

institute: Graduate School of Science, Kyoto University

organism: Oryzias latipes

description:
Arrays of this design have barcodes that begin with 16030568 or 2530568.
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.


title: Nimblegen_Human_720K_Chr11extra

description:
HG19 NCBI37
Tiling probes across Chr11 and parts of Chr17 and Chr22
120625_HG19_chr11extra_NG_CGH.ndf
120625_HG19_chr11extra_NG_CGH.pos

manufacture_protocol: see manufacturer's web site www.nimblegen.com


title: NimbleGen-Geobacter metallireducens GS-15-v1.0

status: Public on Feb 18 2013

city: Amherst

first: Jessica

middle: Amber

last: Smith

state: MA

address: 203 Morrill Science Center IVN

department: Microbiology

institute: UMASS Amherst

organism: Geobacter metallireducens GS-15

description:
4-plex expression for Geobacter metallireducens GS-15; from http://www.ncbi.nlm.nih.gov/nuccore/NC_007517 and http://www.ncbi.nlm.nih.gov/nuccore/NC_007515
3,627 starting genes; 9 probes per target, 45-60mer probes, 3557 exemplars for 3627 genes, 3 copies of each probe on the array.

manufacture_protocol: High-density DNA array prepared with Maskless Array Synthesizer (MAS) technology. See manufacturer's website at http://www.nimblegen.com/.


title: University of Victoria/Caren Helbing Laboratory Frog MAGEX DNA array version 2008

city: Victoria

first: Nik

last: Veldhoen

state: BC

address: PO Box 3055 STN CSC

department: Biochemistry & Microbiology

institute: University of Victoria

organism:
Xenopus laevis
Aquarana catesbeiana
Lithobates pipiens

manufacturer: Microarray Facility of The Prostate Centre at Vancouver General Hospital (Vancouver, BC, Canada)

manufacture_protocol: MAGEX 2008 cDNA microarrays were printed on Erie C28 aminosilane (ThermoFisher Scientific) coated slides with a QArraymax microarray printer equipped with ArrayIt Stealth Technology SMP2 quill pins (TeleChem International Inc.) in a 48-pin tool that deposited ~ 0.1ng cDNA pieces per spot.  The cDNA fragments were spotted in 16 subgrids, each subgrid is 11x11 containing 119 spots (plus 2 blanks) with a spot pitch of 220 microns.  The spots have a diameter range of 80-100 microns and are spotted in triplicate, twice on each slide (i.e. two identical arrays (or fields) per slide).  Each subgrid also included negative controls (empty spots, 3X SSC buffer-only spots, and Arabidopsis thaliana PCR product) and corner markers (a 68 base GFP (Green Fluorescent Protein) oligo provided by the Microarray Facility of The Prostate Centre at Vancouver General Hospital).


title: SMD Print_1370 cpbl

status: Public on Feb 14 2013

city: Liverpool

first: Michael

last: Griffiths

address: 8 West Derby Street

institute: Institute of Infection and Global Health, University of Liverpool

manufacturer: Stanford Functional Genomics Facility, Stanford School of Medicine

manufacture_protocol: Material is transferred from microtiter plate wells to the slide surface by an automated print head


title: SMD Print_1188 lc-54


title: Illumina Genome Analyzer IIx (Acinetobacter oleivorans DR1)

status: Public on Feb 15 2013

organism: Acinetobacter oleivorans DR1


title: Agilent-023741 Mparatuberculosis K10 Genome Array (Feature Number version)

status: Public on Feb 16 2013

city: Ithaca

first: Jenn-Wei

last: Chen

institute: Cornell University

organism: Mycobacterium avium subsp. paratuberculosis K-10

description:
Mycobacterium paratuberculosis K10 whole genome array.

Arrays of this design have barcodes that begin with 16023741 or 2523741.

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.

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.

manufacture_protocol: See manufacturer's web site at http://www.agilent.com/.


title: CapitalBio 36K Mouse Genome Array

city: Beijing

first: Li-Xin

last: Wang

address: Fuxing Road

department: Hematology

country: China

institute: Chinese PLA General Hospital

organism: Mus musculus

manufacture_protocol: as described in CapitalBio Corporation Manual


title: NimbleGen human 42M CGH array, 55 of 60 [2007-05-18_HG18_Sanger_CGH_55]

status: Public on Feb 12 2013

city: Toronto

first: Andy

last: Pang

state: ON

address: MaRS Centre - East Tower, 101 College Street, Room 14-701

institute: The Centre for Applied Genomics

organism: Homo sapiens

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_55.ndf

manufacture_protocol: See manufacturer's web site (www.nimblegen.com).


title: NimbleGen human 42M CGH array, 60 of 60 [2007-05-18_HG18_Sanger_CGH_60]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_60.ndf


title: NimbleGen human 42M CGH array, 59 of 60 [2007-05-18_HG18_Sanger_CGH_59]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_59.ndf


title: NimbleGen Human ENCODE Tiling Array [Design name: 2007-06-27_MOD_ENCODE_0307_50mer]

first: Damian

last: Wojtowicz

address: 8600 Rockville Pike; Rm 8N811N

institute: NCBI/NLM/NIH

description:
Annotation in this record based on human hg16 genome version.
Modification to standard ENCODE design. Added tiling of cMyc to array.


title: Agilent custom 180K MA array platform

first: Ishminder

last: Mann

address: 9000 Rockville pike

institute: National Cancer Institute, NIH

organism: synthetic construct

manufacture_protocol: This protein binding microarray (PBM) involved binding GST-tagged proteins to custom-designed, double-stranded 180K Agilent microarrays in order to determine their sequence binding preferences. The method is described in Berger et al., Nature Biotechnology 2006.


title: NimbleGen human 42M CGH array, 51 of 60 [2007-05-18_HG18_Sanger_CGH_51]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_51.ndf


title: NimbleGen human 42M CGH array, 57 of 60 [2007-05-18_HG18_Sanger_CGH_57]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_57.ndf


title: NimbleGen human 42M CGH array, 50 of 60 [2007-05-18_HG18_Sanger_CGH_50]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_50.ndf


title: NimbleGen human 42M CGH array, 58 of 60 [2007-05-18_HG18_Sanger_CGH_58]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_58.ndf


title: NimbleGen human 42M CGH array, 54 of 60 [2007-05-18_HG18_Sanger_CGH_54]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_54.ndf


title: NimbleGen human 42M CGH array, 56 of 60 [2007-05-18_HG18_Sanger_CGH_56]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_56.ndf


title: NimbleGen Human Whole Genome CGH array [100718_HG18_WG_CGH_v3.1_HX12]

city: Madison

first: Inc

last: Nimblegen Systems

state: WI

address: 504 S. Rosa Road

institute: NimbleGen Systems, Inc.

description:
Build: Hg18, NCBI 36
60mer probes.


title: NimbleGen human 42M CGH array, 53 of 60 [2007-05-18_HG18_Sanger_CGH_53]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_53.ndf


title: SMD Print_1162 lc-51


title: NimbleGen human 42M CGH array, 52 of 60 [2007-05-18_HG18_Sanger_CGH_52]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_52.ndf


title: NimbleGen human 42M CGH array, 46 of 60 [2007-05-18_HG18_Sanger_CGH_46]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_46.ndf


title: NimbleGen human 42M CGH array, 44 of 60 [2007-05-18_HG18_Sanger_CGH_44]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_44.ndf


title: Agilent-026817 University_Surrey_HumanSleep_44k_v1

city: Guildford

first: Emma

last: Laing

address: Stag Hill

institute: University of Surrey

manufacture_protocol: Agilent Ink-jet in situ synthesised technology


title: NimbleGen human 42M CGH array, 49 of 60 [2007-05-18_HG18_Sanger_CGH_49]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_49.ndf


title: NimbleGen human 42M CGH array, 48 of 60 [2007-05-18_HG18_Sanger_CGH_48]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_48.ndf


title: NimbleGen human 42M CGH array, 36 of 60 [2007-05-18_HG18_Sanger_CGH_36]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_36.ndf


title: NimbleGen human 42M CGH array, 43 of 60 [2007-05-18_HG18_Sanger_CGH_43]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_43.ndf


title: NimbleGen human 42M CGH array, 47 of 60 [2007-05-18_HG18_Sanger_CGH_47]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_47.ndf


title: NimbleGen human 42M CGH array, 35 of 60 [2007-05-18_HG18_Sanger_CGH_35]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_35.ndf


title: NimbleGen human 42M CGH array, 33 of 60 [2007-05-18_HG18_Sanger_CGH_33]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_33.ndf


title: NimbleGen human 42M CGH array, 41 of 60 [2007-05-18_HG18_Sanger_CGH_41]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_41.ndf


title: NimbleGen human 42M CGH array, 42 of 60 [2007-05-18_HG18_Sanger_CGH_42]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_42.ndf


title: NimbleGen human 42M CGH array, 40 of 60 [2007-05-18_HG18_Sanger_CGH_40]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_40.ndf


title: NimbleGen human 42M CGH array, 45 of 60 [2007-05-18_HG18_Sanger_CGH_45]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_45.ndf


title: NimbleGen human 42M CGH array, 39 of 60 [2007-05-18_HG18_Sanger_CGH_39]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.
REPLACE
Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_39.ndf


title: NimbleGen human 42M CGH array, 37 of 60 [2007-05-18_HG18_Sanger_CGH_37]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_37.ndf


title: NimbleGen human 42M CGH array, 34 of 60 [2007-05-18_HG18_Sanger_CGH_34]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_34.ndf


title: NimbleGen human 42M CGH array, 31 of 60 [2007-05-18_HG18_Sanger_CGH_31]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_31.ndf


title: NimbleGen human 42M CGH array, 38 of 60 [2007-05-18_HG18_Sanger_CGH_38]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_38.ndf


title: NimbleGen human 42M CGH array, 28 of 60 [2007-05-18_HG18_Sanger_CGH_28]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_28.ndf


title: NimbleGen human 42M CGH array, 26 of 60 [2007-05-18_HG18_Sanger_CGH_26]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_26.ndf


title: NimbleGen human 42M CGH array, 24 of 60 [2007-05-18_HG18_Sanger_CGH_24]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_24.ndf


title: NimbleGen human 42M CGH array, 20 of 60 [2007-05-18_HG18_Sanger_CGH_20]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_20.ndf


title: NimbleGen human 42M CGH array, 23 of 60 [2007-05-18_HG18_Sanger_CGH_23]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_23.ndf


title: NimbleGen human 42M CGH array, 32 of 60 [2007-05-18_HG18_Sanger_CGH_32]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_32.ndf


title: NimbleGen human 42M CGH array, 27 of 60 [2007-05-18_HG18_Sanger_CGH_27]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_27.ndf


title: NimbleGen human 42M CGH array, 30 of 60 [2007-05-18_HG18_Sanger_CGH_30]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_30.ndf


title: NimbleGen human 42M CGH array, 22 of 60 [2007-05-18_HG18_Sanger_CGH_22]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_22.ndf


title: NimbleGen human 42M CGH array, 19 of 60 [2007-05-18_HG18_Sanger_CGH_19]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_19.ndf


title: NimbleGen human 42M CGH array, 25 of 60 [2007-05-18_HG18_Sanger_CGH_25]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_25.ndf


title: NimbleGen human 42M CGH array, 21 of 60 [2007-05-18_HG18_Sanger_CGH_21]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_21.ndf


title: NimbleGen human 42M CGH array, 18 of 60 [2007-05-18_HG18_Sanger_CGH_18]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_18.ndf


title: NimbleGen human 42M CGH array, 29 of 60 [2007-05-18_HG18_Sanger_CGH_29]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_29.ndf


title: NimbleGen human 42M CGH array, 16 of 60 [2007-05-18_HG18_Sanger_CGH_16]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_16.ndf


title: NimbleGen human 42M CGH array, 15 of 60 [2007-05-18_HG18_Sanger_CGH_15]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_15.ndf


title: NimbleGen human 42M CGH array, 14 of 60 [2007-05-18_HG18_Sanger_CGH_14]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_14.ndf


title: NimbleGen human 42M CGH array, 13 of 60 [2007-05-18_HG18_Sanger_CGH_13]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_13.ndf


title: NimbleGen human 42M CGH array, 11 of 60 [2007-05-18_HG18_Sanger_CGH_11]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_11.ndf


title: NimbleGen human 42M CGH array, 12 of 60 [2007-05-18_HG18_Sanger_CGH_12]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_12.ndf


title: NimbleGen human 42M CGH array, 10 of 60 [2007-05-18_HG18_Sanger_CGH_10]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_10.ndf


title: NimbleGen human 42M CGH array, 9 of 60 [2007-05-18_HG18_Sanger_CGH_09]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_09.ndf


title: NimbleGen human 42M CGH array, 8 of 60 [2007-05-18_HG18_Sanger_CGH_08]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_08.ndf


title: NimbleGen human 42M CGH array, 7 of 60 [2007-05-18_HG18_Sanger_CGH_07]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_07.ndf


title: NimbleGen human 42M CGH array, 4 of 60 [2007-05-18_HG18_Sanger_CGH_04]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_04.ndf


title: NimbleGen human 42M CGH array, 17 of 60 [2007-05-18_HG18_Sanger_CGH_17]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_17.ndf


title: NimbleGen human 42M CGH array, 3 of 60 [2007-05-18_HG18_Sanger_CGH_03]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_03.ndf


title: NimbleGen human 42M CGH array, 6 of 60 [2007-05-18_HG18_Sanger_CGH_06]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_06.ndf


title: NimbleGen human 42M CGH array, 2 of 60 [2007-05-18_HG18_Sanger_CGH_02]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_02.ndf


title: NimbleGen human 42M CGH array, 1 of 60 [2007-05-18_HG18_Sanger_CGH_01]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_01.ndf


title: Illumina Genome Analyzer IIx (Mus musculus x Mus spretus)

status: Public on Feb 11 2013

last: GEO

organism: Mus musculus x Mus spretus


title: 454 GS FLX Titanium (Arabidopsis thaliana)

organism: Arabidopsis thaliana


title: NimbleGen human 42M CGH array, 5 of 60 [2007-05-18_HG18_Sanger_CGH_05]

description:
The NimbleGen platform consists of 20 NimbleGen HD2 chips, each containing 2.1M probes, and each chip is further subdivided into 3 equal-sized subarrays containing about 726K probes. The probes were designed according to NimbleGen's standard protocol, targeting the NCBI Build 36 genome, with the exception that no homology filter was applied, allowing coverage of segmentally duplicated regions. The design provides 1 probe per 50bp average density across the genome.

Genomic annotation is based on NCBI human build 36.
Native array description file: 2007-05-18_HG18_Sanger_CGH_05.ndf


title: LC_MRA-1050_miRHoneybee_17

status: Public on Feb 07 2013

organism: Apis mellifera

description: Honeybee miRNA microarray with 100% coverage of unique mature miRNAs listed in miRBase version 17.


title: NimbleGen_MM9_3x720K_Refseq_Promoter [090618_MM9_Refseq_Prom_ChIP]

status: Public on Feb 09 2013

city: Heidelberg

first: James

middle: P

last: Reddington

address: Meyerhofstrasse 1

institute: EMBL


title: SARS_Oikopleura_WG_til

status: Public on Feb 05 2013

city: Bergen

first: Fekadu

last: Yadetie

address: Thormøhlensgt. 55

country: Norway

institute: Sars International Centre for Marine Molecular Biology

organism: Oikopleura dioica

description:
O. dioica custom-made whole genome tiling array with 2,173,626 oligonucleotide features including 13,936 random negative controls. The probes have 50-75 bases size range and cover the entire 70 Mb genome with average overlap between adjacent probes of approximately 30 bases.
native array description file: SARS_Oikopleura_WG_til.ndf
native array description file: SARS_Oikopleura_WG_til.pos, SARS_Oikopleura_WG_til_probe_locations.gff


title: Agilent-037644 Vibrio harveyi 15.7K Vharveyi_2011

status: Public on Feb 08 2013

city: Bloomington

first: Julia

last: van Kessel

state: IN

address: 1001 E 3rd Street, Biology Building

department: Biology

institute: Indiana University

organism: Vibrio harveyi

description: Design ID: Agilent-037644; Vharveyi_2011

manufacture_protocol: see manufacturer's web site at http://www.agilent.com/


title: MRA-1001_miRHuman_18 (miRNA named version)

first: Christoph

last: Eicken

address: 2575 W. Bellfort

institute: LC Sciences, LLC

description:
Human miRNA microarray with 100% coverage of unique mature miRNAs listed in miRBase version 18.
This file is an alternative platform file for GPL16591.


title: Agilent-027516 VPC Human 180K v2

status: Public on Feb 04 2013

city: Brisbane

first: Colleen

last: Nelson

state: Queensland

address: 199 Ipswich Road

department: Institute of Health and Biomedical Innovation; Vancouver Prostate Centre

country: Australia

institute: Queensland University of Technology; University of British Columbia

description: annotation from RefSeq and EntrezGene Database (downloaded: December, 2011)

first: Melanie

middle: L

last: Lehman

manufacture_protocol: SurePrint G3 4x180K format, feature and microarray designed using eArray


title: MRA-1050_miRHoneybee_17 (miRNA named version)

city: Houston

description:
Honeybee miRNA microarray with 100% coverage of unique mature miRNAs listed in miRBase version 17.
This file is an alternative platform file for GPL16599.


title: Illumina Genome Analyzer IIx (Panagrellus redivivus)

status: Public on Feb 01 2013

organism: Panagrellus redivivus


title: Illumina HiSeq 2000 (Mus musculus x Mus spretus)


title: Illumina HiSeq 2000 (Xanthomonas oryzae pv. oryzae)

organism: Xanthomonas oryzae pv. oryzae


description:
Agilent Design ID: 015539
The Agilent-015539 human custom 244k CGH array was designed to target 9,018 Celera R27C sequences >500bp in length that were unmatched sequences when compared to the NCBI reference assembly (NCBI Build 35). These scaffold sequences were repeat masked before probes were designed. The median spacing between 60-mer probes in the unmatched sequences was 10bp.

manufacture_protocol: See protocol for Agilent Human Genome CGH 244A array.


title: LC_MRA-1001_miRHuman_18

status: Public on Feb 06 2013

description: Human miRNA microarray with 100% coverage of unique mature miRNAs listed in miRBase version 18.

manufacture_protocol: Arrays are made based on µParaflo microfluidic technology (Atactic Technologies). On the µParaflo microfluidic chip, each detection probe consists of a chemically modified nucleotide coding segment complementary to a target microRNA (from miRBase, http://miRBase.org) or other RNA (control or customer-defined sequences) and a spacer segment of polyethylene glycol to extend the coding segment away from the substrate. The detection probes are made by in situ synthesis using PGR (photogenerated reagent) chemistry.


title: SABiosciences Human miRNome miRNA PCR Array [MAH-3200G]

city: México.

first: Ruth

last: Ruiz-Esparza

address: Centro Médico Nacional Siglo XXI, IMSS, México,

department: Pediatría

country: Mexico

institute: Instituto Mexicano del Seguro Social

technology: RT-PCR

description:
PCR assay
RT2 miRNA PCR Array:
Human Genome V2.0 Complete (384-well)_Plates 1 & 2
Catalog Number: MAH-3200G
SABiosciences Human Pediatric Astrocytomes IMSS

manufacture_protocol: see manufacturer's website


title: University of Verona Bifidobacterium 35K array

city: Parma

first: Marco

last: Ventura

address: Viale delle Scienze 11/A

department: Dept. Life Sciences

institute: University of Parma

organism: Bifidobacterium

manufacturer: University of Verona - Scientific and Technological Department - Plant Functional Genomics Centre

manufacture_protocol: Probes are directly synthesized on a 90k Combimatrix array by an in situ oligo synthesis system developed by Combimatrix Corporation (Mukilteo, USA) using the Combimatrix CustomArray synthesizer. Standard synthesis protocol provided by Combimatrix was used.


title: PIQOR(TM) Cell death human, sense (562)

city: Bergisch Gladbach

first: Silvia

last: Rueberg

address: Friedrich-Ebert-Str. 68

department: Genomic Services

institute: Miltenyi Biotec GmbH

description: PIQOR(TM) Cell death  Microarray is composed of 494  human specific cDNAs. These cDNAs include for each array six house-keeping genes as positive controls. In addition four E. coli DNA fragments and the corresponding in vitro transcribed RNAs (spiking controls) provide a control for the labeling and hybridisation efficiency. Two negative controls are given by spotted herring sperm DNA and buffer, respectively. All features are spotted in quadruplicate. The Platform data table reflects a condensed representation of the quadruplicate features.

first: Bernhard

last: Gerstmayer

first: Andreas

last: Bosio

manufacture_protocol: Defined 200-400 bp fragments of selected cDNAs were generated by RT-PCR, cloned and sequence-verified. Amplified and purified cDNA inserts were spotted in quadruplicate on PIQOR slides using a proprietary piezoelectric spotter. The PIQOR slides were coated in a 2 step process generating a surface which covalently binds DNA molecules.


title: Illumina HiSeq 2000 (Aspergillus nidulans FGSC A4)

organism: Aspergillus nidulans FGSC A4


title: SABiosciences Real-time quantitative PCR analysis PAHS-135Z

city: AUSTIN

first: MOHAMMAD

middle: SALEEM

last: BHAT

address: 801, 16th AVE NE

institute: UNIVERSITY OF MINNESOTA

description:
PCR assay
SABiosciences RT² Profiler panel of PCR assays.


title: Illumina Genome Analyzer IIx (Medicago truncatula; Sinorhizobium meliloti)

organism:
Sinorhizobium meliloti
Medicago truncatula


title: Agilent-013490 Mouse Genome CGH Microarray 44A G4414A (Probe Name version)

city: Palo Alto

last: Agilent Technologies

institute: Agilent Technologies

description:
Designed and validated for genome-wide profiling of DNA copy number changes, Agilents Mouse Genome CGH Microarray 44A is the only commercial product for high-resolution, genome-wide analyses of chromosomal abnormalities in cancer and other genetics diseases in this critical model organism.  The microarray provides comprehensive genome-wide coverage with an emphasis on the most commonly studied genomic regions and cancer-related genes.  It consists of over 43,000 60-mer oligonucleotide probes, empirically validated in multiple model systems, that span coding and noncoding sequences with an average spatial resolution of 35kb.  Coupled with Agilents optimized assay protocols, this microarray allows researchers to identify and locate genetic alterations in this critical model organism with the highest resolution and precision.

Arrays of this design have barcodes that begin with 16013490 or 2513490.

The ID column represents the Agilent Probe name.

A different version of this platform with the Agilent featire numbers in the ID column is assigned accession number GPL2884

relation: Alternative to: GPL2884 (Feature Number version)


title: Illumina HiSeq 2000 (Sorghum propinquum)

organism: Sorghum propinquum


title: Illumina HiSeq 2000 (Sinorhizobium meliloti)

organism: Sinorhizobium meliloti


title: NimbleGen Bacteroides fragilis 638R custom array [091125_Bfra_CJS_exp]

city: Greenville

first: Charles

middle: Jeffrey

last: Smith

state: NC

address: 600 Moye Blvd.

department: Microbiology & Immunology

institute: East Carolina University

organism: Bacteroides fragilis 638R

description:
091125_Bfra_CJS_exp Custom expression order for Bacteroides fragilis (FQ_312004).
Each probe will be replicated 8 times on the chip. Probes are randomly distributed over the surface of the array.
Picked 11 probes per gene for all 4341 cds regions (12 SEQ_IDs were duplicates).  8 replicates on final array
Design_ID: 10998
native array description file: 091125_Bfra_CJS_exp.ndf
native array description file: 091125_Bfra_CJS_exp.ngd

manufacture_protocol: High-density DNA array prepared with Maskless Array Synthesizer technology per manufacturer website .


title: MRA-1004 miR Zebrafish 10.1 [miRNA ID version]

city: Boston

first: Alvin

middle: T.

last: Kho

address: 320 Longwood Avenue

department: Informatics Program

institute: Boston Children's Hospital

organism: Danio rerio

description:
Identical to GPL15952, but based on the miRNA ID
Zebrafish miRNA microarray with 100% coverage of mature miRNAs listed in miRBase version 10.1

manufacture_protocol: Arrays are made based µParaflo microfluidic technology (Atactic Technologies). On the µParaflo microfluidic chip, each detection probe consists of a chemically modified nucleotide coding segment complementary to target microRNA (from miRBase, http://miRBase.org) or other RNA (control or customer defined sequences) and a spacer segment of polyethylene glycol to extend the coding segment away from the substrate. The detection probes are made by in situ synthesis using PGR (photogenerated reagent) chemistry.


title: Barbee Lab Drosophila Larval CNS miRNA RT-PCR Array

city: Denver

first: Scott

last: Barbee

state: CO

address: 2190 E. ILIFF Ave.

department: Biological Sciences

institute: University of Denver

organism: Drosophila melanogaster

description:
RT-qPCR assay
SYBR Green
Primer assays for 79 miRNAs expressed in the third instar larval CNS


title: Agilent-026798 Sphingomonas Sp. LH128 Array (Probe Name version)

status: Public on May 30 2012

city: Heverle

first: Tekle Tafese

last: Fida

address: Kastelpark Arenberg 220

department: Earth and environmental Science

country: Belgium

institute: KU Leuven

organism: Sphingomonas sp. LH128

description:
Arrays of this design have barcodes that begin with 16026798 or 2526798.

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.

Probes SEQUENCEs in Supplementary file LH128_GEO_026798_D_GEO_20100105.txt.


title: Phalanx Human miRNA OneArray Ver 4 (miRBase Release 18)

status: Public on May 06 2012

city: Hsinchu

first: Sean

last: Chang

address: 6F, NO.6 Technology Road 5

department: R&D

country: Taiwan

institute: PhalanxBiotech Group

organism: Homo sapiens

description: Human miRNA microarray designed and annotated based on Sanger's miRBase release 18.

manufacture_protocol: See http://www.phalanxbiotech.com/ for updated protocols


title: Agilent-015421 Rhesus Macaque Gene Expression Microarray (Feature Number version)

status: Public on Jan 08 2010

state: CA

organism: Macaca mulatta

description:
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.

relation: Alternative to: GPL14569 (Probe Name Version)


title: Illumina HumanOmni1-Quad BeadChip (15004098)

city: Moscow

first: Vladimir

last: Naumov

address: Malaya Pirogovskaya 1a

department: Molecular Biology

country: Russia

institute: Research Institute of Physico-Chemical Medicine

technology: oligonucleotide beads

description: includes > 72,000 CPGs (probes that start with kgp) from the 1000 Genomes Project that are  not in dbSNP as of 01/30/2013, catalog # 15004098

manufacture_protocol: See manufacturer's website


title: Agilent-019553 Gallus gallus (chicken) Genome CGH Microarray 244K(Feature Number version)

status: Public on Oct 12 2010

organism: Gallus gallus

description:
Gallus gallus (chicken) Genome CGH Microarray 244K

Design ID: 019553

Control Grid: IS-243504-1-V1_244K_CGH_Gga_20080227

Arrays of this design have barcodes that begin with 16019553 or 2519553.

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 GPL15501.


title: Exiqon miRCURY LNA microRNA array v11.0 (miRBase 14.0)

manufacture_protocol: The quality of the total RNA was verified by an Agilent 2100 Bioanalyzer profile. 0.5 µg total RNA from sample and reference was labelled with Hy3™ and Hy5™ fluorescent label, respectively, using the miRCURY™ LNA Array power labelling kit (Exiqon, Denmark) following the procedure described by the manufacturer. The Hy3™-labeled samples and a Hy5™-labeled reference RNA sample were mixed pair-wise and hybridized to the miRCURY™ LNA array version 11.0 Other Species (Exiqon, Denmark), which contains capture probes targeting all miRNAs for all other species than human, mouse or rat registered in the miRBASE version 14.0 at the Sanger Institute. The hybridization was performed according to the miRCURY™ LNA array manual using a Tecan HS4800 hybridization station (Tecan, Austria). After hybridization the microarray slides were scanned and stored in an ozone free environment (ozone level below 2.0 ppb) in order to prevent potential bleaching of the fluorescent dyes. The miRCURY™ LNA array microarray slides were scanned using the Agilent G2565BA Microarray Scanner System (Agilent Technologies, Inc., USA) and the image analysis was carried out using the ImaGene 8.0 software (BioDiscovery, Inc., USA). The quantified signals were background corrected (Normexp with offset value 10 – Ritchie et al., 2007) and normalized using the global Lowess (LOcally WEighted Scatterplot Smoothing) regression algorithm.


title: [Hs35b_M09R] Affymetrix Human Tiling 1.0R Set, Array 9

status: Public on Nov 20 2007

city: Santa Clara

last: Affymetrix

institute: Affymetrix, Inc.

description:
Tiling array 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® Human Tiling 1.0R Array Set is designed for transcript mapping experiments. This 14-array set contains approximately 45 million oligonucleotide probes to interrogate the human genome. Each array in the set contains over 3.25 million Perfect Match/Mismatch probe pairs to specifically interrogate genomic regions.

Sequences used in the design of the Human Tiling 1.0R Array Set were selected from NCBI human genome assembly (Build 34). Repetitive elements were removed by RepeatMasker. Probes are tiled at an average resolution of 35 bp, as measured from the central position of adjacent 25-mer oligos, leaving a gap of approximately 10 bp between probes.

BPMAP and other files can be downloaded from the Affymetrix Web site below.

manufacture_protocol: See manufacturer's web site


title: [Hs35b_M08R] Affymetrix Human Tiling 1.0R Set, Array 8


title: [Hs35b_M11R] Affymetrix Human Tiling 1.0R Set, Array 11


title: [Hs35b_M14R] Affymetrix Human Tiling 1.0R Set, Array 14


title: [Hs35b_M04R] Affymetrix Human Tiling 1.0R Set, Array 4


title: Illumina human-6 v2.0 expression beadchip

status: Public on Dec 13 2007

city: San Diego

last: Illumina Inc.

address: 9885 Towne Centre Drive

institute: Illumina Inc.

description:
Researchers can generate whole genome expression profiles for multiple samples on a single BeadChip. Researchers can profile six or eight samples perBeadChip, with more than 48,000 transcript probes per sample using the Human-6 v2 beadchip.

Please use the GEO Data Submission Report Plug-in v1.0 for Gene Expression which may be downloaded from https://icom.illumina.com/icom/software.ilmn?id=234 to format the normalized and raw data.  These should be submitted as part of a GEOarchive.  Instructions for assembling a GEOarchive may be found at http://www.ncbi.nlm.nih.gov/projects/geo/info/spreadsheet.html

relation:
Alternative to: GPL6106
Alternative to: GPL6370
Alternative to: GPL6790
Alternative to: GPL7363
Alternative to: GPL5799
Alternative to: GPL7180


title: [Hs35b_M05R] Affymetrix Human Tiling 1.0R Set, Array 5


title: [Hs35b_M10R] Affymetrix Human Tiling 1.0R Set, Array 10


title: [Hs35b_M01R] Affymetrix Human Tiling 1.0R Set, Array 1


title: [Hs35b_M13R] Affymetrix Human Tiling 1.0R Set, Array 13


title: [Hs35b_M12R] Affymetrix Human Tiling 1.0R Set, Array 12


title: [Hs35b_M02R] Affymetrix Human Tiling 1.0R Set, Array 2


title: [Hs35b_M06R] Affymetrix Human Tiling 1.0R Set, Array 6


title: [Hs35b_M03R] Affymetrix Human Tiling 1.0R Set, Array 3


title: [Hs35b_M07R] Affymetrix Human Tiling 1.0R Set, Array 7


title: Agilent-013490 Mouse Genome CGH Microarray 44A G4414A (Feature Number version)

status: Public on Sep 24 2005

organism: Mus musculus

description:
Designed and validated for genome-wide profiling of DNA copy number changes, Agilents Mouse Genome CGH Microarray 44A is the only commercial product for high-resolution, genome-wide analyses of chromosomal abnormalities in cancer and other genetics diseases in this critical model organism.  The microarray provides comprehensive genome-wide coverage with an emphasis on the most commonly studied genomic regions and cancer-related genes.  It consists of over 43,000 60-mer oligonucleotide probes, empirically validated in multiple model systems, that span coding and noncoding sequences with an average spatial resolution of 35kb.  Coupled with Agilents optimized assay protocols, this microarray allows researchers to identify and locate genetic alterations in this critical model organism with the highest resolution and precision.

Arrays of this design have barcodes that begin with 16013490 or 2513490.

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.

relation: Alternative to: GPL16598 (Probe Name version)


title: SBRI_MTuberculosis_12x130K_ver2.0

status: Public on Nov 08 2011

city: Seattle

first: Tige

last: Rustad

state: WA

address: 307 Westlake Avenue N, Suite 500

department: Pathobiology

institute: Seattle Biomedical Research Institute

organism: Mycobacterium tuberculosis H37Rv

description: NimbleGen design name 110405_Mtuber_TR_exp_HX12.  Custom designed in house tiled array of 107,936 unique probes covering all 4000 ORFs, sense and antisense, and all intergenic regions.

middle: R

first: Robert

last: Morrison

manufacture_protocol: High-density DNA array prepared with Maskless Array Synthesizer (MAS) technology. See manufacturer's website at http://www.nimblegen.com/.


title: Illumina HiSeq 2000 (Pseudotsuga menziesii)

last: GEO

organism: Pseudotsuga menziesii


title: Agilent-020109 Porcine Gene Expression Microarray (44K) (Probe Name version)

status: Public on Mar 11 2010

organism: Sus scrofa