title: Gladstone Mm_09042002 v2 mouse long oligo array

status: Public on May 01 2003

city: San Francisco

first: Dean

last: Sheppard

state: CA

address: UCSF Box 0854

department: Medicine

country: USA

institute: UCSF

organism: Mus musculus

technology: spotted oligonucleotide

description:
Spotted long oligonucleotide array produced using Operon Mouse Genome Oligo Set Version 2 probes. This set includes 16463 oligonucleotides designed based upon representative sequences in build 102 of the mouse UniGene database. 24 negative controls are included on these arrays as well as 13 controls from the Stratagene SpotReport Oligo Array Validation System.
Keywords = spotted, long oligonucleotide

distribution: non-commercial


title: y16

status: Public on Feb 12 2002

city: Stanford

last: Stanford Microarray Database

address: 300 Pasteur Drive

department: Stanford University, School of Medicine

institute: Stanford Microarray Database (SMD)

organism: Saccharomyces cerevisiae

technology: spotted DNA/cDNA

description:
Tip Configuration: Standard 16-tip
Columns per Sector: 24
Column Spacing: 175
Row Spacing: 175


title: y14


title: Agilent-011472 Mouse Development Oligo Microarray G4120A (Feature Number version)

status: Public on Sep 22 2005

city: Palo Alto

last: Agilent Technologies

institute: Agilent Technologies

technology: in situ oligonucleotide

description:
The content on this microarray was derived from the National Institute on Aging/National Institute of Health cDNA mouse clone set that includes genes from sequences of stem cells and very early-stage embryo cDNA libraries.

Arrays of this design have barcodes that begin with 16011472 or 2511472.

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 GPL7269.

distribution: custom-commercial

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


title: Sentrix MouseRef-8 Expression BeadChip (Target ID)

status: Public on Jun 30 2007

city: San Diego

last: Illumina Inc.

address: 9885 Towne Centre Drive

institute: Illumina Inc.

technology: oligonucleotide beads

description: The Sentrix MouseRef-8 BeadChip can be used to study expression of approximately 24,000 well-annotated transcripts from the NCBI RefSeq database. Researchers can generate whole-genome expression profiles for 8 samples in parallel on a single BeadChip. The array is composed of 3 micron features with average feature redundancy of 30-fold. All features are quality controlled by sequential hybridizations process called array decoding. Probes are fully screened, full-length 50-mers. Assay requires 50-100ng of total RNA input.

first: Weiguang

last: Zhong


title: y12

description:
Tip Configuration: Standard 16-tip
Columns per Sector: 24
Column Spacing: 135
Row Spacing: 135


title: y13


title: y11


title: yeast_384_F_v1.0

description:
Tip Configuration: Standard 16-tip
Columns per Sector: 24
Column Spacing: 173
Row Spacing: 173


title: Carnegie Xenopus Laevis 22K Microarray v1.0 (60-mer Oligo)

status: Public on Sep 30 2005

city: Baltimore

first: Minoru

last: Ko

state: MD

address: 251 Bayview Blvd, Suite 100, 10C

department: National Institute on Aging

institute: NIH

organism: Xenopus laevis

description: Carnegie Xenopus laevis 22K Microarray 1.0 contains 21,807 60-mer oligonucleotides representing over 20,000 known and predicted Xenopus laevis genes.

manufacture_protocol: As descripted by Agilent manuals under Platform_web_link


title: CMF/NKI produced Human 18K cDNA array, spots 1-19200

status: Public on Jan 14 2006

city: Wageningen

first: Peter

last: Hendriksen

address: Akkermaalsbos 2

department: RIKILT

country: Netherlands

institute: Wageningen University & Research

organism: Homo sapiens

first: Natasja

last: Dits

first: Guido

last: Jenster

manufacture_protocol: Spotted PCR products


title: FHCRC Human 18K Array

status: Public on Feb 09 2002

city: Seattle

first: Lynn

last: Graf

state: WA

address: 1100 Fairview Ave. N. D1-100

department: Clinical Research Division

institute: Fred Hutchinson Cancer Research Center

description: Microarray construction and hybridization protocols were modified from DeRisi, J.L., V.R Iyer, and P.O. Brown. Science 278:680-686, 1997. The microarrays were constructed using a set of more than 17000 sequence-verified clones from Research Genetics (UniGene Build 136). The cDNA inserts were amplified from replica plate cultures by PCR, purified and mechanically spotted onto polylysine-coated microscope slides using an OmniGrid robotic spotter (GeneMachines, San Carlo, CA).

first: Jeffrey

last: Delrow


title: NIA Mouse 22K Microarray v1.0 (Development 60-mer Oligo)

status: Public on Jun 16 2005

description: NIA Mouse 22K Microarray v1.0 contains 21,939 60-mer oligonucleotides representing  sequences derived from the NIA/NIH early mouse embryo cDNA clone set. The annotation information is based on the NIA Mouse Gene Index 4.0 http://lgsun.grc.nia.nih.gov/geneindex4, which combines genome assembly sequences from public databases (RefSeq, Ensembl, Riken), and the NIA collection of public EST libraries derived from stem cells and early stage of mouse embryos, along with human-curated genetic databases to form structure models of over 40,000 genetic loci4.


title: DGC v1.0

status: Public on Jul 16 2003

city: Cambridge

first: Colin

last: Meiklejohn

state: MA

address: 16 Divinity Ave

department: Organismic and Evolutionary Biology

institute: Harvard University

organism: Drosophila melanogaster

description: 5928 cDNAs from the Drosophila Gene Collection version 1.0 were amplified by PCR with universal primers and PCR products were confirmed by gel electrophoresis. Added to these was a set of 177 separately amplified controls, each of which was replicated from one to 16 times on the array.  Clones for which the PCR product was absent, faint, the incorrect size, or showed multiple bands failed PCR quality control.  The PCR products were purified with Multiscreen filter plates (Millipore), dried down, resuspended in 30?L 3X SSC, and mechanically spotted onto polylysine-coated glass slides.  The arrays were allowed to air dry following printing and stored in a dessicator.  Prior to blocking, arrays were rehydrated by placing them in a humid chamber for 5-7 minutes and then snap dried by placing the slide (array up) on a 80 °C heating block for 3-5 seconds.  DNA was then crosslinked to the slide with 60 mJ of UV radiation.  Slides were blocked by immersion in a blocking solution (6 g succinic anhydride, 335 mL 1-methyl-2-polypyrolidinone, 15 mL 1 M sodium borate) and shaken at room temperature for 20 minutes.  They were then washed in boiling water for 2 minutes, rinsed in 95% ethanol, and spun dry.

middle: D

first: John

last: Parsch

first: José

middle: M

last: Ranz

first: Daniel

middle: L

last: Hartl


title: GF200 (ResGen)

status: Public on May 06 2003

city: Rockville

first: Jo Ann

middle: S.

last: Rinaudo

address: 13 Taft Court, Suite 101

department: Microbiology

institute: Georgetown University

description: Research Genetics GF 200 nylon membrane containing spotted cDNA clones.

first: Jo

middle: S


title: [Plasmodium_Anopheles] Affymetrix Plasmodium/Anopheles Genome Array

status: Public on Jul 01 2004

city: Santa Clara

last: Affymetrix

institute: Affymetrix, Inc.

organism:
Plasmodium falciparum
Anopheles gambiae

description:
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

June 03, 2009: annotation table updated with netaffx build 28
Oct 12, 2009: annotation table updated with netaffx build 32

distribution: commercial

manufacture_protocol:
see manufacturer's web site

The GeneChip Plasmodium/Anopheles Genome Array includes probe sets to over 4,300 Plasmodium falciparam transcripts and approximately 14,900 Anopheles gambiae transcripts. The Plasmodium/Anopheles Genome Array was developed in collaboration with the Malaria Research Institute at the Johns Hopkins Bloomberg School of Public Health.
P. falciparam sequence information for this array was collected primarily from PlasmodB (version 4.1, June 2003) and augmented with sequence information from GenBank® and dbEST. Sequence information for A. gambiae was drawn primarily from Ensembl (Build 2, 2003) and augmented with sequence information from GenBank and dbEST.
Note: The DsRed probe set is provided with permission from BD Biosciences, and BD Biosciences grants users a limited license to utilize this probe set only on the Affymetrix array. Other uses of the probe set, or other DsRed sequence or sequences, require a license from BD Biosciences.


title: Human Unigene3.1 cDNA Array 37.5K v1.0

status: Public on Dec 09 2005

city: Heidelberg

first: Ruprecht

last: Kuner

address: Im Neuenheimer Feld 460

department: Molecular Genetics

country: Germany

institute: German Cancer Research Center and National Center of Tumor Diseases

description: The human Unigene3.1 cDNA Array represents 37530 cDNA clones provided by "Deutsches Ressourcenzentrum fuer Genomforschung (RZPD)"

manufacturer: Gene expression profiling group, Division of Molecular Genome Analysis, DKFZ Heidelberg

first: Holger

last: Sultmann

first: Andreas

last: Buness

first: Markus

last: Ruschhaupt

first: Katharina

last: Finis

first: Michael

last: Stojanov

first: Annemarie

last: Poustka

manufacture_protocol:
The microarrays carried 37,530 human cDNA clones (human UniGene Set RZPD3.1, German Resource Center for Genome Research, Berlin, Germany). DNA fragments were amplified by PCR and spotted on epoxysilane glass slides (Quantifoil, Jena, Germany) using the VersArray ChipWriter Pro System (Biorad, Munich, Germany) and SMP3 pins (Telechem, Sunnyvale, CA, USA). Spotting was performed in the division of Molecular Genome Analysis with a
spacing of 28x29 Spots in 4x12 Subarrays (top-down to left-right). After spotting, microarrays were rehydrated, and the DNA was denatured with boiling water prior to washing with 0.2% SDS, water, ethanol, and isopropanol. The arrays were dried with air pressure.


title: IncyteMouseGEM1

status: Public on Aug 13 2004

city: Cincinnati

first: Bruce

middle: J

last: Aronow

state: OH

institute: Cincinnati Children's Hospital Medical Center

description: IncyteMouseGEM1 (127 cloneID)


title: CDMC_Drosophila_7k2

status: Public on May 27 2003

city: Mississauga

first: Zak

last: Razak

state: ON

address: 3359 Mississauga Road

department: Zoology Department

country: Canada

institute: University of Toronto

description:
The CDMC_Drosophila_7K2 array is a primarily cDNA-based Drosophila melanogaster glass microarray.  The array features 5,756 Berkeley Drosophila Genome Project cDNAs, 1,078 NIH Testis cDNAs (Andrews et al. 2000) and 546 gene fragments that were amplified from genomic DNA, together representing approximately 50% of the predicted genes in D. melanogaster.  The array is produced by the Canadian Drosophila Microarray Centre at the University of Toronto and is available for distribution to academic labs.

Keywords = CDMC
Keywords = Drosophila
Keywords = microarray
Keywords = cDNA

first: Scott

last: Neal

first: Meredith

last: Gibson

first: Anthony

middle: K

last: So

first: Jon

middle: T

last: Westwood


status: Public on Apr 04 2005

last: Hitachi Software Engineering Co.

country: Japan

institute: Hitachi Software Engineering Co., Ltd.

description:
Hitachisoft Hypergene Yeast Chip Ver. 2.0
ID is made by connecting BlockX, BlockY, SpotX and SpotY.
Keywords = S. cerevisiae
Keywords = cDNA microarray

manufacture_protocol: see manufacturer's web site


title: Agilent Mouse Development Oligo Microarray (G4120A) Reannotated 020504

status: Public on Jun 30 2004

first: Joshua

middle: M.

last: Spin

institute: Stanford University

description:
Description Mouse Development Oligo Microarry, Catalog Number G4120A. Reannotated on 020504 at Stanford University School of Medicine, Cardiovascular Division, using current NCBI databases. 20,371 60-mer oligonucleotides representing over 20,000 known mouse genes. Derived from the National Institutes of Aging/NIH cDNA mouse clone set that includes genes from sequences of stem cells and very early-stage embryo cDNA libraries.
Keywords = Agilent
Keywords = Mouse
Keywords = Oligonucleotide
Keywords = Development

first: Thomas

last: Quertermous


title: PRHU05-S1-0006 (PC Human Operon v2 21k)

status: Public on Jun 16 2006

city: Vancouver

first: Shawn

last: Anderson

address: The Prostate Centre at Vancouver General Hospital, 2660 Oak Street

department: Urological Sciences

institute: University of British Columbia

manufacturer: Microarray Facility - the Prostate Centre at Vancouver General Hospital

last: Dangerfield

first: Sonal

last: Brahmbhatt

first: Melanie

last: Lehman

manufacture_protocol: This array consists of 21,329 70mer probes representing 21,329 genes ( Operon Version 2.1 of the Human Genome Oligo Set).  Oligonucleotides are consolidated into 384-well plates, lyophilized by speed-Vac, and resuspended in 3x SSC to a printing concentration of 30uM. Oligos are printed on aminosilane slides (Erie, Hudson, NH, USA) with a Biorobotics Microgrid II microarray printer (Genomic Solutions). Microspot 10K quill pins (Biorobotics) in a 48-pin tool were used to deposit <0.5 nL per spot onto the slide. The resulting microarrays have a 4 x12 subgrid layout with 392 spots per subgrid, each spot having approximate diameter and pitch of 90 µm and 190µm, respectively. A 280-bp GFP (green fluorescent protein) oligo was printed in subgrid corners to assist in placing on the grid. The slides were crosslinked in a UV Stratalinker 2400 (Stratagene) at 300mJ. Array quality was assessed by visual inspection and hybridization of representative slides from a print run by dye-labelled random 9-mer oligonucleotides.  The quality control images were aquired via the ScanArray Express from Perkin Elmer at a 10 micron resolution and quantified with the Imagene 6.0 software suite.


title: Human Array 2.0

status: Public on May 26 2005

city: Padova

first: Gerolamo

last: Lanfranchi

address: Via U. Bassi, 58/B

department: CRIBI - Biotechnology Center and Biology Department

country: Italy

institute: University of Padova

description:
Human Array 2.0 was constructed arraying on glass slides cDNA inserts corresponding to the 3’-portion of mRNAs, from a collection of 4,670 different bacterial clones. This collection was obtained by the systematic sequencing of human skeletal muscle, heart and hematopoietic cell specific libraries. cDNA inserts were PCR amplified directly from bacterial cultures. Bacterial clones were inoculated in 96-well, 2 ml Assay Block (Corning), containing 600 µl LB/Ampicillin (50 µl /ml) and incubated at 37 °C for 16 hrs. Approximately 1µl of culture suspension was transferred in 96 well plate (Corning), loaded in each single well with 100 µl of the following solution: 1X PCR buffer, 1.5 mM MgCl2, 0.15 mM for each of the four dNTPs, 0.2 µM for each of primer A and B, 0.02U/µl of Taq Polimerase (New England Biolabs). PCR buffer and unincorporated nucleotides were removed by filtering through 96-well multiscreen filter plates (Millipore, Bedford, MA, USA). The purification protocol was automated using the 96 channel robotic workstation Multimek (Beckman) to avoid errors due to the manual handling of large number of samples. Quality control and quantification of the amplified products was done by separation of 3 µl samples on agarose gels containing EtBr and gel image analysis with Chemi Doc UV transilluminator equipped with the Quantity One software (Bio-Rad, Hercules, CA, USA). PCR products were then lyophilized and plates were sealed using thermowell sealers (Corning) and stored at –20°C. For microarray printing, PCR products were dissolved in 15 µl of Micro Spotting Solution (ArrayIt, Telechem, Sunnyvale, CA, USA) by vigorous shaking of plates for 4-5 hrs at 4°C, and transferred in 384 well plates. Spotting was performed using the robotic system Genpak Array 21 (Genetix, Hampshire, UK) equipped with 32 Stealth Micro Spotting Pins SMP 3B (ArrayIt) settled to obtain spots with an average diameter of 120 µm. Samples were spotted in duplicate on derivatized glass slides (MICROMAX Glass Slides: SuperChip™ I, PerkinElmer, Wellesley, MA, USA) to obtain more consistent fluorescence measures. Spotting was performed at 50% relative humidity to obtain the best spot morphology and to reduce the plate evaporation. Microarrays were then processed in a UV cross linker (Stratagene, La Jolla, CA, USA) (total power of 300 mJoules) for the binding the DNA to the slides. Microarrays were finally processed to remove any unbound PCR product, dried and stored under vacuum at room temperature in sealed boxes.
Keywords = cDNA microarray
Keywords = human skeletal muscle
Keywords = heart
Keywords = bone marrow
Keywords = EST

first: Cristiano

last: De Pittà

first: Lucia

last: Tombolan

first: Beniamina

last: Pacchioni

first: Caterina

last: Millino

first: Paolo

last: Laveder

first: Milena

last: Bellin

first: Stefano

last: Campanaro

last: Cagnin

first: Giorgio

last: Valle


title: yeast_v1_2.2

status: Public on Feb 12 2002

last: Stanford Microarray Database

description:
Tip Configuration: Standard 4-tip
Columns per Sector: 42
Column Spacing: 210
Row Spacing: 210


title: SHS

status: Public on Jun 27 2002

description:
A microarray with 24192 spot features.
Tip Configuration: Standard 32-tip
Columns per Sector: 28
Rows per Sector: 27
Column Spacing: 200
Row Spacing: 200


title: y744

description:
Tip Configuration: Standard 4-tip
Columns per Sector: 44
Column Spacing: 135
Row Spacing: 135


title: y9

description:
Tip Configuration: Standard 16-tip
Columns per Sector: 24
Column Spacing: 175
Row Spacing: 175


title: yeast_3_v1

description:
Tip Configuration: Standard 4-tip
Columns per Sector: 42
Column Spacing: 175
Row Spacing: 175


title: ORF_intergenic_v1.0

description:
Tip Configuration: Standard 32-tip
Columns per Sector: 24
Column Spacing: 173
Row Spacing: 173


title: [MoGene-1_0-st] Affymetrix Mouse Gene 1.0 ST Array [Alternative CDF: affy9939alt]

status: Public on Jan 11 2010

city: Philadelphia

first: Marni

last: Falk

state: PA

address: 3615 Civic Center Blvd

department: Pediatrics/ Human Genetics

institute: CHOP

relation: Alternative to: GPL6246 (Alternative CDF [official])

manufacture_protocol: This is identical to GPL6246 but a custom cdf environmnet was used to extract data. The cdf can be found at the link below.


title: [HuGene10stv1_Hs_ENSG] Affymetrix GeneChip Human Gene 1.0 ST Array [Brainarray Version 12]

status: Public on Nov 15 2010

city: Bethesda

first: GEO

last: admin

address: 9000 Rockville Pike

institute: NCBI/NLM/NIH

relation: Alternative to: GPL6244 (Alternative CDF [official])

manufacture_protocol: See manufacturer's web site


title: Operon Mouse V3.0.1 printed oligonucleotide array

status: Public on Mar 01 2007

city: Durham

first: Holly

middle: Kloos

last: Dressman

state: NC

address: 101 Science Drive

department: Institute for Genome Sciences and Policy

institute: Duke University Medical Center

manufacturer: Duke Microarray Facility (manufactured printing of arrays)


title: Illumina Rat Ref-12 v1

status: Public on Mar 24 2010

city: Birmingham

first: Molly

middle: Bray

last: Bray

state: AL

address: 720 20th Street S

department: Genetics

institute: Univ of Alabama at Birmingham

organism: Rattus norvegicus

description: Approximately 22,000 RefSeq and EST transcripts are present on the arrays in the form of oligo-coated (50mer) beads.

manufacture_protocol: See manufacturer web site (www.illumina.com).


title: Affymetrix GeneChip Mouse Genome 430 2.0 Array [CDF: Mm_ENTREZG_9]

status: Public on Aug 24 2007

first: Guido

last: Hooiveld

address: HELIX, Stippeneng 4

department: Div. Human Nutrition & Health

institute: Wageningen University

description:
CDF file was created by Microarray Lab at the Molecular and Behavioral Neuroscience Institute at the University of Michigan.
Oligonucleotide probes on GeneChips were reorganized based on the latest genome and transcriptome information. In this particular case the Entrez Gene database (build: 05/04/2006) was used as source.
For the CDF file based on Entrez Gene:
A probe must hit only one genomic location;
Probes that can be mapped to the same target sequence in the correct direction are grouped together in the same probe set;
Each probe set must contain at least three oligonucleotide probes and probes in a set are ordered according to their location in the corresponding exon.
For detailed description please see the paper and website.

relation: Alternative to: GPL1261 (Alternative CDF [official])

manufacture_protocol: This array is identical to GPL1261 but a custom, remapped CDF environment is used to extract data. This is version 9 of the remapped CDF. The CDF for various platforms can be found at the link below.


title: Illumina Mouse 6x Beads-Chip

status: Public on Jun 23 2007

description: The Mouse-6 Expression BeadChip can be used in high-confidence studies to profile more than 47,000 well-annotated NCBI RefSeq transcripts per sample.  Users can determine whole-genome expression profiles for 6 samples in parallel on one single BeadChip.  The array is composed of 3 micron features with 30 times feature redundancy in average.  All features are quality controlled by sequential DECODING hybridizations process.  The length of the probes is.  50-100ng total RNA is required for each assay.

manufacturer: Illumina Inc. San Diego, California, USA

first: Dan

last: Zhou

first: Jiyi

last: Wang

first: Gabriel

middle: G

last: Haddad


title: NCI/ATC Hs-OperonV2

status: Public on Oct 27 2004

city: Gaithersburg

first: David

last: Petersen

address: 8717 Grovemont Circle

institute: NCI

description:
Attachment: UV cross-linked
Array description:  The custom arrays are manufactured by the NCI Advanced Technology Center Microarray Facility (NIH/NCI/CCR/ATC).  Microarrays are printed with GeneMachines robotic arrayer from Genomic Solutions (http://www.genomicsolutions.com) that is fitted with a printhead containing 32 SMP3 printing pins from Telechem International (http://www.arrayit.com).

manufacturer: Printing by the NCI /ATC Microarray Facility

manufacture_protocol: The human long oligonuleotide probe set contains 21,329 optimized 70mers (plus controls) obtained from Operon (http://www.operon.com/ ) . The long oligonucleotide probes were purchased in 384-well polypropylene plates (Genetix, 384 micro array) and dissolved in 3XSSC print buffer at a concentration of 20-30 uM.  The microarray spot densities are 160 microns (center-to-center), and one spot is printed per probe per slide.  The microarrays printed on Corning Ultra-GAPS slides (Item #40018) coated with amino-silane and post-processed according to the manufacturer's protocol.


title: Ramaciotti Centre Saccharomyces cerevisiae 13K MWGSc6Kv2

status: Public on Feb 17 2007

city: Randwick

first: Anthony

middle: G.

last: Beckhouse

state: NSW

address: High St

department: BABS

country: Australia

institute: Ramaciotti Centre for Gene Function Analysis

description:
The Platform data table reflects a condensed representation of the duplicate array features.
The full array layout (GPL4873_complete_layout.txt) is linked as a supplementary file at the foot of this record.

manufacturer: Ramaciotti Centre for gene Function Analysis, University of New South Wales, Sydney, Australia

first: Chris

last: Grant

first: Peter

last: Rogers

first: Ian

middle: W

last: Dawes

first: Vincent

last: Higgins

manufacture_protocol: Single stranded (sense) 40mer oligonucleotides were obtained from MWG, diluted and spotted onto glass Eppendorf Creative Oligo Chips using a 24 pin ESI scanner. A total of 13824 features were spotted onto 120 slides within a run where 24 subarrays were added (6x4) with each containing 24 vertical by 24 horizontal features. Features are 100 microns in diameter and attached via an amino-epoxide bond with a separation size of 180 microns.


title: UNI Lausanne Mouse 17K

status: Public on Sep 28 2006

city: Lausanne

first: Sylvain

last: Pradervand

address: Genopode

department: CIG

country: Switzerland

institute: UNI Lausanne

manufacture_protocol: cDNA arrays were spotted using the OmniGrid 300 microarrayer from Genomic Solutions


title: Affymetrix GeneChip Mouse Genome 430 2.0 Array (CDF: Mouse4302_Mm_ENTREZG.cdf version 12.0.0)

status: Public on Jan 04 2010

city: Mannheim

first: Carsten

last: Sticht

address: Theodor-Kutzer-Ufer

department: ZMF

institute: University Heidelberg

description: Custom CDF (Brainarray Entrez Gene v12.0.0)


title: NIH-NIEHS/Agilent Human Familial IIP 43K array

status: Public on Oct 01 2006

city: Denver

first: Ivana

middle: V

last: Yang

state: CO

address: 1400 Jackson Street

department: Medicine

institute: National Jewish Health

description: The contents of the standard Agilent whole human genome array(G4112A) were modified by removing probes for 308 poorly annotated ESTs and adding 657 probes for genes/ESTs not represented on the standard array that we have determined to be potentially informative for familial pulmonary fibrosis.

first: Lauranell

middle: H

last: Burch

first: Mark

middle: P

last: Steele

first: Jordan

last: Savov

first: John

last: Hollingsworth

first: Erin

last: McElvania-Tekippe

first: Katheerine

last: Berman

first: Marcy

middle: C

last: Speer

first: Thomas

middle: A

last: Sporn

first: Kevin

last: Brown

first: Marwin

middle: I

last: Schwarz

last: Schwartz

manufacture_protocol: In-situ synthesized 60-mer oligonucleotides.  Use ink-jet technology.


title: FHCRC Human Prostate PEDB cDNA Array v4

status: Public on Jul 14 2006

city: Seattle

first: Denise

last: Mauldin

address: 1100 Fairview Ave N D4-100

department: Human Biology

institute: Fred Hutchinson Cancer Research Center

last: Nelson

first: Ilsa

last: Coleman

middle: E

last: Abbott

first: Ruth

last: Dumpit

manufacture_protocol: DNA spotted onto polylysine-coated glass microscope slides


title: CDMC_Drosophila_12k2

status: Public on Mar 31 2006

first: Zak

last: Razak

description:
The CDMC_Drosophila_12k2 platform is a primarily cDNA-based glass microarray.
The array features 10,844 Berkeley Drosophila Genome Project cDNAs, 231 NIH Testis cDNAs (Andrews et al., 2000) and 360 gene sequences that were amplified from genomic DNA.  All of the features on the array are spotted in duplicate. This array is produced by the Canadian Drosophila Microarray Centre located at the University of Toronto. It is available for distribution to academic labs.

first: J

last: Westwood

first: S

last: Neal

first: M

last: Lam

first: D

last: Kasimer

first: Z

first: K

last: Mo

last: Pei

first: H

last: Li

manufacture_protocol:
The 12k2 arrays are printed on CMT-UltraGAPS substrates (Corning Inc, Acton, MA) using a SpotArray 72 microarrayer (Perkin Elmer, Boston, MA). There are 26812 spots and 836 blanks on each array in a 12 row by 4 column arrangement of blocks. Each block contains 560 spots and 16 blanks arrayed in a
24 row by 24 column grid. The blanks occupy positions 9 through 24 of the 24th row. The blocks are spaced at 4500 micron intervals and the spot-to-spot distance is
180 microns. The nominal spot diameter is 125 microns.   Printing conditions and post-print treatments are as described earlier (Neal et al., 2003).


title: AMC-MAD Homo sapiens 19k ver 1.0

status: Public on Feb 15 2007

city: Amsterdam

first: Oscar

middle: Leonard

last: Volger

state: Noor Holland

address: Meibergdreef 15

department: Cardiology

institute: Academic Medical Center

description:
Oligo Library: Human Sigma/Compugen
Genes (N): 18.861
Type: 60-mer oligonucleoties, spotted on glass-slides: Codelink
Facility: Microarray Department (MAD), Swammerdam Institue of Life Sciences (SILS), University of Amsterdam (Uva),

manufacturer: Microarray Department (MAD), Swammerdam Institute of Life Sciences (SILS), University of Amsterdam (UvA), The Netherlands

first: Wanwisa

last: Jamnongluk

first: Natasja

last: Kisters

first: Wouter

last: Eijgelaar

first: Erwin

last: Wijnands

first: Kitty

middle: B

last: Kleutjens

first: Johan

last: Kuiper

middle: L

first: Anton

last: Horrevoets

first: Mat

last: Daemen

first: Ann-Pascale

last: Bijnens

manufacture_protocol: oligo library: Sigma / Compugen / Genosys representing 18.861 60-mer oligonucleotide sequences, spotted on glass-slides (Codelink)


title: Duke University Murine Operon v.3.0 spotted Array

status: Public on Dec 06 2005

first: Zachary

middle: Conrad

last: Hartman

address: Research Drive MSRB rm 414

department: Surgery

institute: Duke University

description:
Protocol for Preparing Poly-Lysine Slides for Microarrays     page 1

Basics:

-The following protocol is for coating 180 slides with poly-l-lysine.
	-Be sure slide racks are bent slightly inwards in the middle to hold slides 	more securely.
	-DO NOT use powdered gloves at any time during this protocol.
	-To avoid dust, try to keep slides covered or submerged in solution at all 	times.
	-It is recommended that at least two batches of poly-lysine slides are
prepared per printing.

1. Prepare wash solution for 180 slides:	200 g NaOH pellets
					          1200 ml 95% EtOH
						800 ml H2O

2. Mix wash solution until NaOH pellets are completely dissolved.

3. Rinse slide dishes completely with H2O.  Add one rack of Gold Seal Microslides(30 slides/rack) per slide dish.  Pour wash solution over slides and cover.

4. Shake slides gently for 2 hours in wash solution.  Although the slides come “pre-washed” the are still significant amounts of oils and debris.  This basic wash is necessary to completely clean the slides before applying the poly-lysine.

5. Rinse slides with several liters of Milli-Q H2O.  I like to fill a large container with H2O so that I can vigorously dump the rinse over the slides.  Let the slides sit in the water while you prepare the poly-lysine solution.

6. Prepare poly-lysine solution (**use only plastic-ware when preparing poly-lysine):
					180 slides:	1500 ml H2O
							205 ml 1XPBS (filtered)
							352 ml poly-l-lysine
7. Mix ingredients on stir plate in plastic beaker in order listed above.

8. Before adding poly-lysine, dump H2O from slides.  Immediately after adding poly-lysine pour solution over slides.

9. Let slides shake gently in poly-lysine for 30 minutes.

10. Rinse slides again with Milli-Q H2O in same fashion as described above.

11. Immediately spin slides in tabletop at 600 rpm until dry.

12. To ensure slides are completely dry, place racks in 50°C vacuum oven for at least 5 min.

Protocol for Preparing Poly-Lysine Slides for Microarrays     page 2

13. Store slides in a clean plastic slide box.  Slides MUST be stored for at LEAST 14 days before spotting DNA.  We do not recommend using slides that are more than 4 months old as degradation of poly-lysine has been observed.

**Poly-lysine solution can be reused if you expect to prepare a large volume of slides.  To do so, filter lysine solution after step 9 and store at 4°C in a plastic container.  When ready to use, distribute solution to slide dishes and add an additional 10-15 ml of new poly-lysine to each dish.  This should be repeated a maximum of 6 times.

After slides are preparred they are spotted with Operon olgionucleotides, for details see weblink below.

first: Andrea

last: Amalfitano

first: Anne

last: Kiang

manufacture_protocol: The Operon mouse oligonucleotide library,version 3.0, comprised of 70-mer oligonucleotides representing 24,878 unique mouse genes, was printed on poly-L-lysine-coated glass slides. The library also included sets of positive and negative controls that were used for quality control purposes. Oligonucleotides were spotted using a GeneMachines Omnigrid arrayer by the Duke University Microarray facility. Details can be found at http://mgm.duke.edu/genome/dna_micro/core/spotted.htm.


title: Duke University Microarray Facility Operon Mouse Oligo set, version 2.0

status: Public on Nov 22 2005

first: Douglas

last: Coveney

address: Research Drive

department: Cell Biology

middle: J

last: Ross

first: Blanche

last: Capel

manufacture_protocol: The Operon mouse oligonucleotide library,version 2.0, comprised of 70-mer oligonucleotides representing 16,443 unique mouse genes, was printed on poly-L-lysine-coated glass slides. The library also included sets of positive and negative controls that were used for quality control purposes. Oligonucleotides were spotted using a GeneMachines Omnigrid arrayer by the Duke University Microarray facility.  Details can be found at http://mgm.duke.edu/genome/dna_micro/core/spotted.htm.


title: Chinnaiyan Human 20K Hs6

status: Public on Jan 02 2006

city: Ann Arbor

first: Scott

last: Tomlins

state: MI

address: 1400 E. Medical Center Dr., 5410 CCGC

department: Pathology

institute: University of Michigan

description: This 20,000 element (32 blocks, 25 columns and rows per block) spotted microarray contains cDNA clones (version Hs6)

first: Arul

middle: M

last: Chinnaiyan


title: ABI Human Genome Survey Microarray v2.0

status: Public on Feb 20 2006

city: Oslo

first: Bjorn

last: Grinde

state: Oslo

address: Geitmyrsveien 75

department: Infectious Disease Control

country: Norway

institute: Norwegian Institute of Public Health

manufacture_protocol: see manufacturer's website


title: Illumina mouse-6 v1.1 expression beadchip

status: Public on Dec 13 2007

city: San Diego

last: Illumina Inc.

address: 9885 Towne Centre Drive

institute: Illumina Inc.

description:
The MouseWG-6 v1.1 Expression BeadChip contains six wholegenome gene expression arrays allowing six samples to be hybridized to a single chip.  BeadChip content was created by combining proven sources, including the Mouse Exonic Evidence Based Oligonucleotide (MEEBO) set, the RIKEN FANTOM 22-5 database, and the National Center for Biotechnology Information (NCBI) Reference Sequence (RefSeq) database.

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: GPL6238
Alternative to: GPL6481
Alternative to: GPL6568
Alternative to: GPL8081
Alternative to: GPL15943


title: Macrogen MAC Mouse 11K Oligo Microarray

status: Public on Oct 25 2005

city: Seoul

first: Woong Yang

last: Park

address: 28 Yongondong, Chongnogu

department: Biochemistry and Molecular Biology

country: South Korea

institute: Seoul National University

description: Mouse 11K oligo microarray,mostly 50-mers, produced by Macrogen, Inc. Seoul, Korea.

first: Jason

last: Kang


title: Mouse MuscleArray 1.0

status: Public on Sep 21 2005

first: Paolo

last: Laveder

address: via U.Bassi 58/B

department: Department of Biology

institute: CRIBI Biotechnology Center

description:
2,061 muscle-specific cDNA probes (300-600 bp), restricted to the 3'-end of each mRNA, were spotted in quadruplicates.

MICROARRAY FABRICATION:
The cDNA inserts were cloned in the plasmid vector pZErO-1 (Invitrogen) and amplified by PCR with universal primers (A: 5’-TCCGGCTCGTATGTTGTGTGG-3’, B: 5’-GTTGTAAAACGACGGCCAGTG-3’). The quality of each amplicon was monitored on agarose gels: cDNA probes showing more than a single size product, described by a ‘WARNING’ message, were excluded from subsequent microarray analyses. PCR reactions were transferred to 96-well MicroAmp Optical plates (PerkinElmer) and precipitated with ethanol and salt, following a clean-up protocol developed at the Stanford University. The microarray facility at CRIBI managed microarray printing and post-processing (http://microcribi.cribi.unipd.it/). cDNA probes were spotted on glass slides across an area of 18 x 18 mm, using a Genpak Array 21 robotic system (Genetix, Hampshire, United Kingdom) equipped with 16 Stealth Micro Spotting Pins SMP 3B (ArrayIt): spots have an average diameter of 120 µm, the distance between two spots is 180 µm, each cDNA probe is spotted in four replicates.

GENE ANNOTATION:
The cDNA sequences were aligned on the mouse genome (NCBI Build 32) at the UCSC Genome Browser, using the BLAT software. Known genes are described as LocusLink entry; cDNAs of uncertain origin are marked as ‘SIMILAR TO’ or ‘UNKNOWN’, depending if they have similarity or not to other expressed sequences in GenBank. We realized that 8.4% of cDNA probes are possibly redundant, due to multiple isoforms, alternative mRNA terminations, or to cDNA covering different sequences of the same transcript.

first: Simeone

last: Dal Monego

first: Anna

last: Raffaello

first: Valentina

last: Lissandron

first: Giorgio

last: Valle

first: Gerolamo

last: Lanfranchi


title: Illumina Homo sapiens custom BeadChip

status: Public on Nov 15 2007

city: Raleigh

first: Youssef

last: Idaghdour

address: South Gardner Hall

institute: NCSU

manufacture_protocol: see Manufacturer's website


title: NTU_CGM_MCF Mouse 6.1k Microarray

status: Public on May 24 2006

city: Taipei

first: Sung-Liang

last: Yu

address: Jen Ai Road Section1

department: Clinical Laboratory Sciences and Medical Biotechnology

country: Taiwan

institute: National Taiwan University

manufacturer: NTU Center for Genomic Medicine Microarray Core Facility

first: Pan-Chyr

last: Yang

first: Konan

last: Peck

last: Chen

manufacture_protocol:
The whole system included tool pin, adapter, washing slots, sampling slots, sample distribution region, program and automatically changing plate system. Those treated pins were fitted into multiple-pore adapter, which is designed specially to make the pins elastic while spotting samples on membrane. The adapter could be changed for single or multiple pins system according to experimental need. The PCR-amplified cDNA in V-bottomed 96-well microtiter plates were distributed onto a positively charged nylon membrane with spots spaced 150 mm apart by an arraying machine. The arraying machine was a computer controlled XYZ translation system outfitted with Teflon-coated tool pins for sample delivery. It was designed and constructed by Wittech company (Taipei, Taiwan) with position resolution and repeatability better than ± 5 mm. Samples were held at the tip of the pins for delivery by the action of surface tension, and the delivery volume was governed by the diameter of the tips. Every time after DNA was spotted on membranes, by means of movement of translation stage, the solid pin was immersed into washing slots, and washed by 95% ethanol, and deionized water respectively with sonicating.
The nylon membranes (measured 18 mm by 27 mm) carrying 6,144 PCR-amplified cDNA fragments were prepared by arraying machine built in house. The cDNA microarray membrane contains 6,144 non-redundant expressed sequence tag (EST) clones with putative gene names selected from the IMAGE consortium mouse cDNA libraries based on the insert length and sequence of the EST clones in the Unigene database.


title: SHDP

status: Public on Feb 21 2005

city: Stanford

first: Jonathan

last: Pollack

address: 269 Campus Drive, CCSR3245A

institute: Stanford University

description:
Support: glass
Coating: unknown_surface_type
Manufacturer:  = Joan,,Hebert; SFGF, 2255, CCSR, Stanford, Ca, USA, 94025; 650-736-0075; jhebert@genome.Stanford.edu


title: NHGRI 12k cDNA Custom Array

status: Public on Oct 11 2005

city: Bethesda

first: Sean

last: Davis

address: 37 Convent Drive, Room 6138

institute: National Cancer Institute

description:
cDNA spotted on glass
Keywords = spotted, cDNA

first: Paul

last: Meltzer

first: Kristin

last: Baird


title: Agilent Custom MPIIB Mouse

status: Public on Mar 01 2005

city: Berlin

first: Hans-Joachim

last: Mollenkopf

address: Charitéplatz 1

institute: Max-Planck-Institute for Infection Biology

description: custom tailored 'SurePrint' 60-mer oligonucleotide microarray with 8015 features derived from Unigene clusters (Unigene Build#148) with major focus on immunologically relevant genes

last: Walduck

first: Stefan

last: Kaufmann

first: Thomas

middle: F

last: Meyer


title: SHBA

description:
Support: glass
Coating: unknown_surface_type
Manufacturer:  = Tina,,Boussard; School of Medicine, Department of Genetics, Stanford, CA, United States, 94305; 650-736-0077; boussard@genome.stanford.edu


title: UCSF 12Mm Mouse v.2 Oligo Array

status: Public on Jul 21 2005

city: San Francisco

first: Michael

middle: E.

last: Salazar

address: 1550 Fourth Street, RM 545

institute: University of California, San Francisco

description: Spotted long oligonucleotide array on glass.


title: SHBW

description:
Support: glass
Coating: unknown_surface_type
Manufacturer: Joan,,Hebert; SFGF, 2255, CCSR, Stanford, Ca, USA, 94025; 650-736-0075; jhebert@genome.Stanford.edu


title: SHCN


title: GenePlorer™ TwinChip™ Human-8K

status: Public on Jan 27 2005

first: Se Nyun

last: Kim

institute: Digital Genomics, Inc.

description: Human 8K cDNA microarray produced by Digital Genomics, Inc. Seoul, Korea.

first: Se

middle: N

manufacture_protocol: see manufacturer's web site


title: PSU Operon V1.1

status: Public on Jan 29 2005

city: University Park

first: Ross

last: Hardison

department: BMB

institute: The Pennsylvania State University

description: Penn State Microarray facility print of Operon mouse oligo DNA set V1


title: Illumina human-6 v1.0 expression beadchip

last: Illumina Inc.

description:
The Human-6 Expression BeadChip contains six arrays on a single BeadChip, each with >46,000 probes derived from human genes in the National Center for Biotechnology Information (NCBI) Reference Sequence (RefSeq) and UniGene databases.

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.


title: UCSF 10Mm Operon Mouse v.2 Oligo Array

status: Public on Jan 15 2005

description:
Spotted long oligonucleotide array on glass.
Keywords = spotted, long oligonucleotide


title: Rosetta (Merck) Human 25k v2.2.1

status: Public on Jan 31 2005

first: Lee

last: Lim

institute: Rosetta Inpharmatics

description:
Agilent oligonucleotide array on glass.
Contains 60-mer probes (60-mer)
Submitted for Nature publication Lim et al.
Keywords = Human 25k/Functional ID

first: Nelson

last: Lau

first: Phillip

last: Garrett-Engele

first: Andrew

last: Grimson

first: Janell

last: Schelter

first: John

last: Castle

first: David

last: Bartel

first: Peter

middle: S

last: Linsley

first: Jason

last: Johnson


title: NCI/LMT Mm_FCRF_CGEN oligo

status: Public on Oct 27 2004

city: Frederick

first: Lisa

last: Gangi

address: 915 Tollhouse Ave

department: LMT-Frederick

institute: NCI

description:
Printing by the NCI-Frederick/LMT Microarray Research Facility
Surface type: Surface type: amino-silane coated glass Corning CMT-GAPS II (http://www.corning.com)
Attachment: covalent, (UV-treated)
Array description: The custom arrays are manufactured by the NCI Frederick Laboratory of Molecular Technology Microarray Facility (NIH/NCI/SAIC/LMT).  Microarrays are printed with BioRobotics TAS II robotic arrayer from Genomic Solutions (http://www.genomicsolutions.com) that is fitted with a printhead containing 32 SMP3 printing pins from Telechem International (http://www.arrayit.com).  The mouse microarray (Mm_FCRF_CGEN oligo) probe set is based on 22,271 65mer oligonucleotides from Compugen Mouse Genome Oligo Set V1.0 (http://www.labonweb.com). The set includes 17,815 Unique UniGene Clusters that mapped into build #120. Oligonucleotide probes are distributed into 384-well polypropylene plates (Genetix, 384 micro array) and dissolved in 3XSSC print buffer at a normalized 25 micromolar concentration. The Mm_FCRF_CGEN oligo microarray spot densities are 165 microns (center-to-center) and one spot is printed per probe per slide.  The microarrays are printed on Corning CMT-GAPS II slides (Item #40004) coated with amino-silane and post-processed according to the manufacturer's protocol.


title: Illumina mouseRef-8 v1.0 expression beadchip

description:
The Mouse-8 BeadChip can be used to study expression of over 24,000 mouse transcripts based on MEEBO, RefSeq and RIKEN FANTOM2 content. researchers can generate whole-genome expression profiles for 8 samples in parallel on a single 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


title: Leber et al. (2004)

status: Public on Aug 18 2004

city: Chicago

first: Jess

last: Leber

state: IL

address: 920 E. 58th Street CLSC 615

department: Microbiology

institute: The University of Chicago

description: Array data used in Leber et al. (2004)

first: Sebastian

last: Bernales

last: Walter


title: Hitachisoft AceGene Human Oligo Chip 30K Subset C

status: Public on Jun 18 2004

last: Hitachi Software Engineering Co.

institute: Hitachi Software Engineering Co., Ltd.


title: ABI Human Genome Survey Microarray Version 1

status: Public on Sep 14 2004

city: Rockville

first: chunlin

last: xiao

address: 45 West Gude Drive

institute: Applied Biosystem

description:
The Applied Biosystems Human Genome Survey Microarray--a component of the Applied Biosystems Gene Expression Array System--contains over 33,000 unique probes representing a complete, annotated, and fully curated set of approximately 27,850 human genes and approximately 53,000 transcripts from the public and Celera databases as of February, 2004.

Applied Biosystems contact information:
http://faqs.appliedbiosystems.com/cgi-bin/appliedbio.cfg/php/enduser/ask.php


title: SMCmou6600Av1

status: Public on May 21 2004

city: Portland

first: Yuan

last: Fang

state: OR

address: 3375 SW Terwilliger Blvd

department: Ophthalmology, Casey Eye Institute

institute: Oregon Health & Science University

description:
Spotted cDNA array on glass.
cDNA sequence designed based upon representative sequences in NIA 15K MOUSE LIBRARY.
Keywords = spotted, cDNA

first: Robert

last: Searles


title: NCI/ATC Hs-UniGEM2

status: Public on May 27 2004

city: Gaithersburg

last: Petersen

address: 8717 Grovemont Circle

description:
Printing by the NCI /ATC Microarray Facility
Surface type: amino-silane coated glass Corning CMT-GAPS II (http://www.corning.com)
Attachment: UV cross-linked
Array description:  The custom arrays are manufactured by the NCI Advanced Technology Center Microarray Facility (NIH/NCI/CCR/ATC).  Microarrays are printed with GeneMachines robotic arrayer from Genomic Solutions (http://www.genomicsolutions.com) that is fitted with a printhead containing 32 SMP3 printing pins from Telechem International (http://www.arrayit.com).  The human cDNA probe set is based on 9128 PCR products from Incyte's human UniGEM 2.0 library (http://www.incyte.com).  The set includes 122 Incyte EST clones; 8998 identifed with a public GenBank Accession; 8905 Unique GenBank Accessions; 8882 mapped into Hs UniGene Build #131; 8281 Unique UniGene Clusters; 1179 EST clusters; 7102 "Named" clusters.The cDNA probes are distributed into 384-well polypropylene plates (Genetix, 384 micro array) and dissolved in 3XSSC print buffer at a concentration of 50-100 ug/ml.  The microarray spot densities are 235 microns (center-to-center), and one spot is printed per probe per slide.  The microarrays printed on Corning CMT-GAPS II slides (Item #40004) coated with amino-silane and post-processed according to the manufacturer's protocol.

manufacture_protocol: Microarrays are printed with GeneMachines robotic arrayer from Genomic Solutions (http://www.genomicsolutions.com) that is fitted with a printhead containing 32 SMP3 printing pins from Telechem International (http://www.arrayit.com). The human cDNA probe set is based on 9128 PCR products from Incyte's human UniGEM 2.0 library (http://www.incyte.com). The set includes 122 Incyte EST clones; 8998 identifed with a public GenBank Accession; 8905 Unique GenBank Accessions; 8882 mapped into Hs UniGene Build #131; 8281 Unique UniGene Clusters; 1179 EST clusters; 7102 Named clusters. The cDNA probes are distributed into 384-well polypropylene plates (Genetix, 384 micro array) and dissolved in 3XSSC print buffer at a concentration of 50-100 ug/ml. The microarray spot densities are 235 microns (center-to-center), and one spot is printed per probe per slide. The microarrays printed on Corning CMT-GAPS II slides (Item #40004) coated with amino-silane and post-processed according to the manufacturer's protocol.


title: SMCmou8400A

description:
Spotted cDNA array on glass.
cDNA designed based upon representative sequences in NIA 15K MOUSE LIBRARY.
Keywords = spotted, cDNA


title: SMCmou6600Av2


title: Human Promotor Array, v11

status: Public on Mar 23 2004

first: Yipeng

last: Wang

institute: Vaccine Research Institute of San Diego

description:
Human promoter array. Human promoter sequences (1000bp upstream and 500bp downstream from transcription initiation site) were retrieved batch-wise from GoldenPath. PCR primers were selected using an improved version of Primer3 running in-house on a 24 node Linux cluster. Promoter fragments with an average length of 1.2 kb were amplified, purified and spotted onto UltraGAPS coated slides (Corning Incorporated, Corning, NY) in the presence of 50% DMSO.  A promoter microarray containing triplicate spots of 3083 promoter sequences and 787 non-promoter controls and 192 non-human controls. Many of the promoters on the array are from genes of particular relevance to cancer and the array includes promoters from most of the genes that are known to be regulated by methylation in cancer.
Keywords = human promoter array

first: Michael

last: McClelland


title: Muscle _Related_cDNA_Array

status: Public on Feb 12 2004

city: Leiden

first: Ellen

last: Sterrenburg

address: Wassenaarseweg 72

department: Center for Human and Clinical Genetics

institute: Leiden University Medical Center

description:
human cDNA microarray
5184 features in triplicate
subset of Research Genetics 40K library
Keywords = Myogenesis
Keywords = muscle differentiation

first: Rolf

last: Turk

last: 't Hoen

first: Judith

last: van Deutekom

last: Boer

first: Gert-Jan

last: van Ommen

first: Johan

middle: T

last: den Dunnen


title: Rosetta (Merck) Human 50k array

status: Public on Feb 01 2004

city: Kirkland

first: Mao

last: Mao

department: Biology

description:
Oligonucleotide array on glass.
Contains 60-mer probes (60-mer).
Submitted for Genomics publication Mao et al.
Keywords = Human 50k v1 array

first: Matt

last: Biery

first: Sumire

middle: V

last: Kobayashi

first: Terry

last: Ward

first: Greg

last: Schimmack

first: Julja

last: Burchard

first: Janell

last: Schelter

first: Hongyue

last: Dai

first: Yudong

middle: D

last: He

last: Linsley


title: cDNA spotted microarray

status: Public on Jan 20 2004

city: Bronx

first: Weijia

last: Zhang

state: NY

address: 1300 Morris Park Ave

institute: Albert Einstein College of Medicine

description: Each slide contained an unbiased, random collection of 9,568 cDNA probe elements derived from the sequence-verified GEM1 clone set (Incyte Genomics Inc., Palo Alto, CA).

first: Katalin

last: Susztak

first: Erwin

middle: P

last: Böttinger

first: Akiva

last: Novetsky

first: Dan

last: Liang

first: Yanqing

last: Zhu

first: Emilio

last: Ciccone

first: Dona

last: Wu

first: Stephen

last: Dunn

first: Peter

last: McCue

first: Kumar

last: Sharma


title: CHUGAI 41K

status: Public on Jan 26 2004

city: Koto-ku

first: Yuichi

last: Ishikawa

state: Tokyo

address: 3-8-31 Ariake

institute: Cancer Insitute

description:
Patients and Sample Preparation.
We analyzed NT samples from 38 patients undergoing surgery at the Cancer Institute Hospital, Tokyo, during May 1996 – May 2001. All samples were collected with informed consent and ethical committee approval and were grossly dissected, snap-frozen in liquid nitrogen within 20 minutes of removal. Initial diagnosis of each sample  from frozen section was later confirmed by detailed analysis of paraffin sections and immunohistochemistry. Following WHO guidelines,1 17 tumours were classified as SCLC including two combined SCLC with adenocarcinoma (SCLC-AD), 8 as LCNEC, including 2 combined LCNEC with AD (LCNEC-AD), 12 as TC and 1 as AC. The prevalence of LCNEC as a percentage all lung cancer resected at the Cancer Institute during the period was 2.7%. Since LCNEC is described as a variant of large cell carcinoma MAGE(LCC), we also analyzed thirteen LCC samples. Twelve well differentiated  AD samples were included to aid interpretation of expression profiles for the SCLC-AD and LCNEC-AD samples, and to allow identification of markers that distinguish NT from non-small cell lung cancer. We included thirty normal lung samples from unrelated individuals. Finally 11 SCLC cell lines were incorporated into the analysis. Full clinical details of all tumour samples and cell lines are provided in supplementary table 1. Reference RNA, a mixture of lung cancer cell lines and normal lung, is exactly as described previously.5 Cell lines were obtained from the American Type Culture Collection. the Japanese Collection of Research Bioresources, or The RIKEN cell bank.
cDNA microarray
Each microarray contains 40,368 elements, of which 39,936 are derived from IMAGE cDNA clones purchased from Research Genetics (Huntsville, Alabama). This clone set was supplemented with 384 proprietary clones and 48 control elements. According to our latest estimate, the array represents 29,487 unique UNIGENE clusters accounting for 9,085 named genes, 15,276 ESTs and 5126 other un-named genes (for example, clones described as hypothetical proteins). Clones were purchased as sequence verified, but we estimate an error rate of at least 10%. Genes mentioned by name in this paper have been re-sequenced. cDNA PCR products were resuspended in 50% DMSO and printed at a pitch of 150 µm onto CMT-GAPS slides (Corning, Corning, NY) using a MicroGrid II spotting robot fitted with 10K pins (BioRobotics, Cambridge, UK). Relative humidity was controlled within the range 40-50% and temperature between 20-25°C.

cDNA derived from 2µg of cRNA, essentially as described,7 was aminoallyl labeled8 with Cy5 (sample) or Cy3 (reference), hybridized overnight at 42ºC in a buffer containing 50% formamide, 5xSSC, 0.1% SDS, 0.25µg/µl human cot1 DNA and 0.125µg/µl poly dT and washed to a final stringency of 1x SSC at 42°C. After washing, slides were immediately scanned using an Axon GenePix 4000B scanner and quantified using Axon GenePix Pro software (Axon, Union city, CA).  Raw data for all 40,386 elements across all 105 samples assayed here is deposited with

first: Michael

middle: H

last: Jones

first: Carl

last: Virtanen

first: Daisuke

last: Honjoh

first: Tatsu

last: Miyoshi

first: Yukitoshi

last: Sato

first: Sakae

last: Okumura

first: Ken

last: Nakagawa

first: Hitoshi

last: Nomura


title: Rosetta (Merck) Splicing Experiment, Chip 4 of 5

status: Public on Dec 19 2003

first: John

last: Castle

department: Informatics

institute: Merck

description:
Oligonucleotide array on glass.
Contains 36-mer probes on 10-mer T stilts (46-mer), each spanning an exon-exon junction.
Submitted for Science publication Johnson et al.
Keywords = junction splicing oligonucleotide

first: Jason

last: Johnson

first: Philip

last: Garrett-Engele

first: Patrick

last: Loerch

first: Zhengyan

last: Kan

first: Christopher

last: Armour

first: Ralph

last: Santos

first: Eric

last: Schadt

first: Roland

last: Stoughton

first: Daniel

last: Shoemaker


title: Rosetta (Merck) Splicing Experiment, Chip 1 of 5


title: Rosetta (Merck) Splicing Experiment, Chip 2 of 5


title: Rosetta (Merck) Blood donor experiment

status: Public on Dec 31 2003

first: Mao

last: Mao

description:
Oligonucleotide array on glass.
Contains 60-mer probes (60-mer).
Submitted for Genomics publication Radich et al.
The array was custom designed and manufactured by Agilent Technologies.
Keywords = human blood expression data

first: Jerald

last: Radich

first: Sergey

last: Stepaniants

first: Matt

last: Biery

first: Terry

last: Ward

first: Greg

last: Schimmack

first: Sumire

last: Kobayashi

first: Michael

last: Carleton

first: Johanna

last: Lampe

first: Peter

last: Linsely


title: Illumina mouseRef-8 v1.1 expression beadchip

status: Public on Dec 13 2007

city: San Diego

last: Illumina Inc.

state: CA

address: 9885 Towne Centre Drive

institute: Illumina Inc.

description:
The MouseRef-8 v1.1 Expression BeadChip contains eight arrays for eight samples. BeadChip content was created by combining proven sources, including the Mouse Exonic Evidence Based Oligonucleotide (MEEBO) set, the RIKEN FANTOM 22-5 database, and the National Center for Biotechnology Information (NCBI) Reference Sequence (RefSeq) database.

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


title: AECOM MOUSE 9K CHIP

status: Public on Jul 29 2003

city: Prairie View

first: Dumitru

middle: Andrei

last: Iacobas

state: TX

address: Ann Preston St

department: Undergraduate Medical Academy

institute: Prairie View A&M University

description: 9k mouse cDNA microarray printed at Albert Einstein College of Medicine


title: UHN Mouse 15k array

status: Public on Oct 06 2003

city: Montreal

first: Gundula

last: Min-Oo

state: Quebec

department: Biochemistry

institute: McGill University

first: Andre

last: Nantel


title: UCSF 4Hs version 2 human long oligo array

status: Public on Mar 18 2003

first: David

last: Erle

department: Medicine

institute: University of California San Francisco

description:
Spotted long oligonucleotide array produced using Operon Human Genome Oligo Set Version 2 probes. This set includes 21329 oligonucleotides (mostly 69-mers) designed based upon representative sequences in build 147 of the human UniGene database. 12 negative control oligos are also included on these arrays.
Keywords = spotted, long oligonucleotide

first: Andrea

last: Barczak


title: UCSF 3OPHs version 1 human long oligo array

description:
Spotted long oligonucleotide array produced using Operon Human Genome Oligo Set Version 1 probes. This set includes 13971 oligonucleotides (mostly 70-mers) designed based upon representative sequences in build 119 of the human UniGene database. 29 negative control oligos are also included on these arrays.
Keywords = spotted, long oligonucleotide


title: MWG Human 30k Array A

status: Public on Apr 24 2003

city: Padova

first: Silvio

last: Bicciato

address: via U. Bassi 59/b

department: Molecular Medicine

institute: University of Padova

description: The MWG Human 30K Array is covering 29,550 human genes on three arrays (10k A/B/C). Each array consists of 9,850 oligonucleotides. The represented genes were selected from various databases (e.g. EBI, NCBI, Ensembl, GoldenPath) and kept non-redundant in MWG's proprietary CodeSeq® database. Almost all genes on Array A have a known function or clearly defined protein domains.


title: LC-17

status: Public on Jun 17 2003

city: Stanford

first: Xin

last: Chen

institute: Stanford University

description:
Tip Configuration: Standard 48 tip
Columns per Sector: 25
Rows per Sector: 24
Column Spacing: 172
Row Spacing: 172


title: SHAI2

status: Public on Jun 27 2002

last: Stanford Microarray Database

address: 300 Pasteur Drive

department: Stanford University, School of Medicine

institute: Stanford Microarray Database (SMD)

description:
A microarray with 24192 spot features.
Tip Configuration: Standard 32-tip
Columns per Sector: 28
Rows per Sector: 27
Column Spacing: 175
Row Spacing: 175


title: ISREC-HU10Kb

status: Public on Feb 12 2003

city: Bordeaux

first: Richard

last: Iggo

address: 229 cours de l'Argonne

department: Bergonie Cancer Institute

country: France

institute: University of Bordeaux

description: Telechem superaldehyde glass slides printed with Incyte and Resgen PCR products. 4 x 8 subarrays of 18 x 18 spots. SA4000 scanner.

first: Otto

last: Hagenbuchle


title: SHV

description:
A microarray with 24192 spot features.
Tip Configuration: Standard 32-tip
Columns per Sector: 28
Rows per Sector: 27
Column Spacing: 155
Row Spacing: 155


title: Drosophila_Life_Cycle

status: Public on Jan 06 2003

city: New Haven

first: Kevin

last: White

state: CT

address: 333 Cedar Street

department: Department of Genetics

institute: Yale University School of Medicine

description:
cDNA microarrays were constructed with ~9,700 Drosophila cDNA elements representing 5,081 different genes. The 5' ends were sequenced of 80% of the cDNAs to verify their identities.
For more details on Materials and Methods, see http://www.sciencemag.org/cgi/data/297/5590/2270/DC1/1

first: M

last: Arbeitman

first: E

middle: E

last: Furlong

first: F

last: Imam

last: Johnson

first: B

last: Baker

middle: A

last: Krasnow

last: Scott

first: R

middle: W

last: Davis

first: K


title: y80-Paul

status: Public on Feb 12 2002

description:
Tip Configuration: Standard 1-tip
Columns per Sector: 22
Column Spacing: 137
Row Spacing: 137


title: y802

description:
Tip Configuration: Standard 4-tip
Columns per Sector: 48
Column Spacing: 175
Row Spacing: 175


title: y6k_6400

description:
Tip Configuration: Standard 4-tip
Columns per Sector: 40
Column Spacing: 210
Row Spacing: 210


title: IMP Genomics Mouse 58MM

status: Public on Aug 08 2013

city: Vienna

first: Roman

middle: R

last: Stocsits

address: Campus-Vienna-Biocenter 1

country: Austria

institute: IMP - Research Institute of Molecular Pathology

manufacture_protocol: Prepare in house spotted  DNA Microarrays      PCRs and Printing        Dilution plates:    Prepare 96 well pates and label them ( eg. 1130 Dil)  Aliquot 95 µl dd water into each well (roboter “95µl verteilen”)  Pipette 5µl from the copy plate into the Dilution plate (roboter “dilution plate”).  (If you do not perform immediately:  Heat for 10 min at 94°C ( PCR machine)  Spin down  Freeze away or perform PCR reaction)      PCRmix for a 96 well plate:    550µl 10x buffer (100mM Tris.HCl pH8.3, 500mM KCl)  11µl UNI-primer (1µg/µl CCCAGTCACGACGTTG)  11µl REV-primer (1µg/µl CACAGGAAACAGCTATG)  11µl 1M MgCl2 (has to be adjusted to Taq used)  44µl 25mM dNTPs  110µl Taq  1887µl dd water  2514µl 3M Betaine  5138µl total Volume (45µl per well)    PCR Reaction:    Transfer 5µl of the working dilution (see bacteria growth) to PCR-plate (MJResearch, skirted plate) containing 45µl PCRmix,     seal plate with sealing sheet (ABGene AB-0558)    Spin down    PCR program:  94°C 1min      35X 94°C 30sec    52°C 30sec    72°C 1min 30sec    72°C 5min      Load 5µl PCR product on a 1% agarose gel for quality control        Preparation for printing the PCR products:    Concentrate PCR products in a Speedvac (Determine time until no further reduction of volume is seen, in our case it is at least 4 hours when using 8 plates per batch, final volume is approximately 6-7 µl)    Add 6µl 6xSSC    Shake vigorously up to 3 hours at 4°C (we use a modified vortex,  probably mixing with pipetting robot before transfer into 384 well plates will do)    Transfer into 384 well plates    Store PCR-plates at –80°C    Spot onto Schott Nexterion A slides      Slide Blocking:  Fixation:  Put slides 30 min on 80°C heating plate and cross link with 600mJ(Schott) or 60mJ with Poly-lysine slides    Blocking:  Dissolve 1.37 g Succinic Anhydride in 90ml N-Methyl - Pyrrolidone   Add 2.5 ml N-methylimidazol (FLUKA)    Immediately pour it into a slide chamber and incubate slides for 1 hour with slight agitation    transfer slide into 0.1 % SDS for 20sec.    transfer into H2O for 20sec    Denature:  Slides are briefly washed in water (or DCE) and incubated for 4 min in a boiling water bath    After a brief rinse in 95% EtOH spin slides 4 min 1200rpm for drying     For 30 slides in a big chamber with 300 ml blocking solution:  (4,11 g SA in 270 ml NMP and 7,5 ml NMI)??????


title: Mouse 9K UCLA

status: Public on Mar 29 2002

city: Los Angeles

first: Vanessa

middle: Marie

last: Brown

address: 650 Charles E. Young Dr. South, CHS 23-151

department: Department of Molecular & Medical Pharmacology

institute: UCLA

description: This is the mouse 9K platform from UCLA Microarray Core Facility.  This platform fits axon output data including blank spots.

first: Alex

last: Ossadtchi

first: Arshad

last: Khan

first: Simon

last: Yee

first: William

last: Melega

last: Cherry

last: Leahy

first: Desmond

last: Smith


title: Illumina Genome Analyzer (Saccharomyces cerevisiae W303)

status: Public on Jan 31 2013

last: GEO

organism: Saccharomyces cerevisiae W303

technology: high-throughput sequencing

distribution: virtual


title: Illumina humanRef-8 v2.0 expression beadchip

last: 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 22,000 transcript probes using the HumanRef-8 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: GPL5060
Alternative to: GPL5104
Alternative to: GPL6014
Alternative to: GPL6255


title: NIAID Mbaa -- Mycobacterium abscessus 180K tiling array

status: Public on Jul 17 2013

city: Bethesda

first: Timothy

middle: G

last: Myers

state: MD

address: 50 South Drive, Room 5509

department: Research Technologies Branch

institute: National Institute of Allergy and Infectious Diseases

organism: Mycobacteroides abscessus

description: The array consists of 180K features 169K of which are tiling probes based on the genome of the Mycobacterium abscessus type strain (ATCC 19977; www.ncbi.nlm.nih.gov/nuccore/CU458896). Each tiling probe is a 60-mer designed end-to-end along the genome with no gaps. In total, there are 84.5K different tiling probe sequences, each one represented twice on the array.

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


title: Agilent-024497 BmicroplusEST_1 custom array (Feature Number version)

status: Public on Mar 14 2013

city: Pretoria

first: Christian

last: Stutzer

state: Gauteng

address: Lynnwood road

country: South Africa

institute: University of Pretoria

organism: Rhipicephalus microplus

description:
B_microplus EST database

Arrays of this design have barcodes that begin with 16024497 or 2524497.

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.

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


title: Agilent-036652 UHN Zebrafish 15K miRNA v2 036651

city: Oslo

first: Arvind

last: Sundaram

address: Kirkeveien

institute: University of Oslo

organism: Danio rerio

description:
Arrays of this design have barcodes that begin with 16036652 or 2536652.

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: Illumina Genome Analyzer II (Eggerthella lenta DSM 2243)

status: Public on Jan 30 2013

organism: Eggerthella lenta DSM 2243


title: Applied Biosystems Human TaqMan Low Density Array (TLDA, v2.0) (Card B)

city: Miami

first: Ricardo

last: Pastori

state: FL

department: Diabetes Research Institute

institute: University of Miami

technology: RT-PCR

description:
DC-APC PCR assay panel
Microfluidic 384-well TaqMan™ real time RT-PCR platform version 2.0 (Card B)


title: Illumina MiSeq (Trypanosoma brucei)

status: Public on Jan 29 2013

organism: Trypanosoma brucei


title: Agilent Human 0.6K miRNA Microarray G4471A

first: Yuichi

last: Ishikawa

institute: Cancer Insitute


title: TIGR PFGRC Aspergillus nidulans version 1 array designed primarily based on strain FGSC A4

city: Armidale

first: Margaret

last: Katz

address: McClymont Building

department: Molecular and Cellular Biology

institute: University of New England

organism: Aspergillus nidulans

description: This set includes 11481 oligonucleotides (ss oligo 70 mer), has 23962 spots (2x oligo replicates) distributed in 48 blocks.

manufacturer: TIGR PFGRC (The Pathogen Functional Genomics Resource Center)

manufacture_protocol: Arrayer GENETIX, machine cycles 0, pen id 0, pen cycles 0, operator 0, humidity control 0, humidity set point0.000


title: Rat miRNA nCounter Expression Assay Kit

city: London

first: Laura

last: Roca-Alonso

address: Du Cane Rd

department: Surgery and Cancer

country: United Kingdom

institute: Imperial College London

technology: other

description: specific miRNA taggig in solution prior to biotin-streptavidin mediated hybridization to surface


title: Agilent-021880 miRNA-v3.3-8x15K (Probe version)

status: Public on Jan 27 2013

city: San Francisco

first: Andrea

middle: J

last: Barczak

address: 1550 4th St Rock Hall 545

institute: UCSF Sandler Center Functional Genomics Core Facility

description:
7 species: hsa,mmu,dre,rno,gga,cel,dme

Arrays of this design have barcodes that begin with 16021880 or 2521880.

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: SABiosciences Mouse Inflammatory Cytokines and Receptors PCR assay panel (PAMM-011D)

city: Ottawa

first: Sarah

last: Labib

state: Ontario

address: 204b-50 Colombine

institute: Health Canada

description: SABiosciences pathway-specific PCR array for inflammatory cytokines and receptors


title: Illumina Genome Analyzer IIx (Magnaporthe oryzae KJ201)

organism: Pyricularia oryzae KJ201


title: Ion Torrent PGM (Trypanosoma brucei)


title: Illumina Genome Analyzer IIx (Trypanosoma brucei)


title: Applied Biosystems Human TaqMan Low Density Array (TLDA, v2.0) (Card A)

description:
DC-APC PCR assay panel
Microfluidic 384-well TaqMan™ real time RT-PCR platform version 2.0 (Card A)


title: Agilent-026566 Halophiles_HAH49 oligo array v1

status: Public on Jan 22 2013

city: Beijing

first: Hailong

last: Liu

address: West Beichen Road, Chaoyang District

country: China

institute: Institute of Microbiology, Chinese Academy of Sciences

organism: Haloarcula hispanica

description:
Haloarcula hispanica 8*15K oligo array version 1.0
Halophiles_HAH49_4920

Arrays of this design have barcodes that begin with 16026566 or 2526566.

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: [hGlue_3_0_v1] Glue Grant Human Transcriptome Array version 3.0 (GG-H) [exon-level]

status: Public on Jan 24 2013

city: Durham

first: Jian-Liang

last: Li

state: NC

address: 111 TW Alexander Dr

institute: NIEHS

relation: Alternative to: GPL16238 (transcript-level)

manufacture_protocol: See Manufacturers website


title: 454 GS FLX (Entamoeba histolytica)

organism: Entamoeba histolytica


title: Illumina Genome Analyzer IIx (Avicennia marina)

organism: Avicennia marina


title: [hGlue_3_0_v1] Glue Grant Human Transcriptome Array version 3.0 (GG-H) [transcript-level]


title: Illumina Human v2 MicroRNA Expression BeadChip

city: Boston

first: Katherine

last: Hill

state: MA

address: 330 Brookline Avenue, DA-679

institute: Beth Israel Deaconess Medical Center

description: This Platform differs from GPL8179 by including ILMN_3167739 instead of ILMN_3168143.

manufacture_protocol: See manufacturer's website (www.illumina.com).


title: HMC Human 29k Array

status: Public on Jun 27 2013

city: Odense C

first: Martin

middle: Jakob

last: Larsen

address: Sdr. Boulevard 29

department: Dept. of Clinical Genetics

country: Denmark

institute: Odense University Hospital

manufacture_protocol: For fabrication a human oligonucleotide library consisting of 28,919 DNA oligonucleotide probes (60-mer) was used (Compugen-Sigma-Genosys, The Woodlands). The oligonucleotide probes were solubilized in 150 mM sodium phosphate buffer (pH 8.5) to a final concentration of 20 pmol/µl and spotted onto CodeLink HD (SurModics) activated glass slides by a high-precision spotting robot (Virtek ChipWriter Pro, ESI). The slides have an active polymer coating of amine-reactive groups permitting the 5?-amino modified DNA oligos to covalently attach under high relative humidity. The microarray fabrication was carried out in a controlled environment at 38% humidity and the temperature was held constant at 23 °C. SMP 2.5 stealth pins (TeleChem Interational) was used to deposit the oligos onto surface of the slides. Up to 85 arrays were spotted per batch. After printing, slides were incubated overnight at 70% humidity and blocked as recommended by the manufacturer.


title: Illumina HiSeq 2000 (Monopterus albus)

status: Public on Jan 21 2013

country: USA

organism: Monopterus albus


title: Arraystar Mouse 4×44K LncRNA custom array [Agilent-027524]

status: Public on Oct 02 2013

city: L'Hospitalet de Llobregat

first: Manel

last: Esteller

state: Barcelona

address: Hospital Duran i Reynals Av. Gran Via s/n km, 2.7

department: PEBC

country: Spain

institute: IDIBELL

organism: Mus musculus

description:
The Mouse Long Non-coding RNA Array is designed for researchers who are interested in finding new lncRNAs in mouse genome. More than 40000 lncRNAs are collected from the authoritative data sources including NCBI RefSeq, UCSC, RNAdb2.0, NRED, Fantom3.0 and UCRs. Sequences are selected with proprietary strategies. Repeat sequences and ncRNAs shorter than 200 bp have been deleted. Each transcript is represented by one probe. Some housekeeping genes are spotted as positive control.

The Microarray is an Agilent custom array from ArrayStar
Arraystar Mouse 4×44K LncRNA Array Full
DesignID: Agilent-027524; Probe Name version
Genome version: mm9


title: [Tgondiia520372] ToxoDB Toxoplasma gondii Custom GeneChip (CDF: Tgondiia520372.cdf)

first: GEO

last: admin

address: 9000 Rockville Pike

institute: NCBI/NLM/NIH

organism: Toxoplasma gondii

manufacture_protocol: Please see http://ancillary.toxodb.org/docs/Array-Tutorial.html for a complete description of the array design as well as for library files.


title: NimbleGen Mycobacterium avium subsp. paratuberculosis 385k array [090429_Talaat3_60mer]

city: Madison

first: CHIA-WEI

last: WU

state: WI

address: 1656 Linden Dr

department: Pathobiological Sciences

institute: University of Wisconsin-Madison

description:
NimbleGen design name 090429_Talaat3_60mer
NimbleGen design ID 9898.
A 1:4 expression design for 4,350 genes from Mycobacterium avium subsp. paratuberculosis K-10 with twenty 60-mer probe  per gene.  Each probe is replicated 3 times.  The design includes random GC and other control probes. There are some non-M. avium subsp. paratuberculosis genes in the ndf file that are of M. avium 104 or M. intracellulare and are not included in microarray analysis.
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.
native array description file: 090429_Talaat3_60mer.ndf
native array description file: 090429_Talaat3_60mer.ngd

manufacture_protocol: High-density DNA array prepared with Maskless Array Synthesizer (MAS) technology.


title: Agilent-019118 Human miRNA Microarray 2.0 (miRNA_107_Sep09)

status: Public on Jan 23 2013

city: Palo Alto

last: Agilent Technologies

institute: Agilent Technologies

organism: Homo sapiens


title: Agilent-027233 Homo sapiens miRNA array

status: Public on Jan 19 2013

city: Jinan

first: Fan

last: Jiang

state: Shandong

address: 107 Wen Hua Xi Road

institute: Shandong University

manufacture_protocol: Agilent


title: miRCURY LNATM microRNA Array, Exiqon 6th generation miRCURY LNA microRNA Array.

city: Ann Arbor

first: yaping

last: sun

state: Michigan

address: 1500 E Medical Center Dr.

department: internal medicine

institute: university of michigan


title: Illumina Genome Analyzer IIx (Anolis carolinensis)

status: Public on Jan 15 2013

last: GEO

organism: Anolis carolinensis


title: Agilent-022061 human lncRNA 1X244K microarray (Feature Number version)

city: Detroit

first: Hui

last: JIA

state: MI

address: 275 E. Hancock

institute: wsu

description:
Custom 60-mer oligo array.
8 probes per gene and 5 on-chip replicates for each probe.

manufacture_protocol: See manufacturer's website (www.agilent.com).


title: Illumina Genome Analyzer II (Sinorhizobium meliloti)

status: Public on Jan 16 2013

organism: Sinorhizobium meliloti


title: Illumina HiSeq 1000 (Ornithorhynchus anatinus)

organism: Ornithorhynchus anatinus


title: Agilent-035314 Dehalococcoides mccartyi pan_array_v2_2011

status: Public on Jan 20 2013

city: Ithaca

first: Cresten

last: Mansfeldt

state: NY

address: 220 Hollister Hall

institute: Cornell University

organism: Dehalococcoides mccartyi

description:
Arrays of this design have barcodes that begin with 16035314 or 2535314.

The ID column includes the Agilent Probe Names.


title: Illumina HiSeq 1000 (Xenopus (Silurana) tropicalis)

organism: Xenopus tropicalis


title: Agilent-023710 DM15k (probe version)

status: Public on Jan 17 2013

city: Liverpool

first: Philipp

last: Antczak

state: Merseyside

address: Crown Street

institute: University of Liverpool

organism: Daphnia magna


title: Mus musculus 0.3 K S01_GE2-v5_95_miRNA

city: Bethesda

first: Natalie

last: Goldberger

institute: NCI

manufacturer: Frederick National Lab Laboratory Services


title: Invitrogen Custom NCode Multi-Species miRBase Microarray V2

status: Public on Jan 12 2013

city: Pokfulam, Hong Kong

first: Wing Lung

middle: Simon

last: Yau

address: 21 Sassoon Road

department: Surgery

country: Hong Kong

institute: The University of Hong Kong

organism:
Caenorhabditis elegans
Drosophila melanogaster
Danio rerio
Homo sapiens
Mus musculus
Rattus norvegicus

manufacture_protocol: The NCode™ Multi-Species miRBase Microarray Kit V2 contains optimized probes targeting all of the known mature miRBases in mirBase 9.0 for human, mouse, rat, Drosophila, C. elegans, and zebrafish, spotted in triplicate on Corning Glymo epoxide slides


title: Agilent custom Klebsiella 4×44K Oligo Microarray

status: Public on Jan 11 2013

city: Taichung

first: Yichyi

last: Lai

address: No.110, Sec. 1 Jianguo N. Road

department: Microbiology and Immunology

institute: Chung Shan Medical University

organism: Klebsiella pneumoniae subsp. pneumoniae NTUH-K2044


title: Illumina HiSeq 2000 (Mycobacterium phage Giles)

status: Public on Jan 10 2013

organism: Mycobacterium phage Giles


title: NimbleGen_Botrytis_4plex [080425_Botrytis_4plex_expr]

status: Public on Jan 18 2013

city: Kaiserslautern

first: Michaela

last: Leroch

department: Phytopathology

country: Germany

institute: University of Kaiserslautern

organism:
Botrytis cinerea B05.10
Botrytis cinerea T4

description:
NimbleGen design name: 080425_Botrytis_4plex_expr. Order IDs: 16947 and 25188.  Probe length: 60mers. Three probes per gene. The design includes random GC and other control probes.
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.
GeneID number for the ORF to which the indicated probe is directed; Gene-ID is similar to Seq-ID but underscore was replaced by point (see ngf file). For further gene infomation these numbers can be submitted to http://www.broadinstitute.org/annotation/genome/botrytis_cinerea/FeatureSearch.html.

manufacture_protocol: See manufacturer's website at http://www.nimblegen.com/.


title: Illumina HiSeq 1000 (Gallus gallus)

organism: Gallus gallus


title: Codelink 55K Human Array

city: Pittsburgh

first: Guoying

last: Yu

state: PA

address: 3500 Terrace St., W1200

department: Departmnet of Medicine

institute: University of Pittsburgh

manufacture_protocol: see manufacturer's website


title: NimbleGen C. elegans ChIP-chip 2.1M Whole-Genome Tiling Array [100718_Celegans180_ChIP_HX1]

first: Inc

last: Nimblegen Systems

address: 504 S. Rosa Road

institute: NimbleGen Systems, Inc.

organism: Caenorhabditis elegans

description:
Format: 2.1M
Source: Wormbase
Build: WS180
DESIGN_NAME: 100718_Celegans180_ChIP03
DESIGN_NAME: 100718_Celegans180_ChIP02
DESIGN_NAME: 100718_Celegans180_ChIP01
DESIGN_ID:537463

manufacture_protocol: see manufacturere's website


title: Illumina HiSeq 2000 (Magnaporthe oryzae)

organism: Pyricularia oryzae


title: Agilent-037293 rabbit_BDR [Probe name version]

city: jouy en josas

first: barbara

last: schmaltz-barbara

address: domaine de vilvert

institute: INRA

organism: Oryctolagus cuniculus

description:
Array dedicated to rabbit embryo development gene analysis

Arrays of this design have barcodes that begin with 16037293 or 2537293.

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 probe name.

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: Agilent-022061 human lncRNA 1X244K microarray (Probe Name version)


title: Illumina HiSeq 1000 (Danio rerio)

organism: Danio rerio


title: Agilent-022725 Efetida44KOligoArray

city: Vicksburg

first: Ping

last: Gong

state: MS

address: 3909 Halls Ferry Road

department: Environmental Laboratory

institute: US Army ERDC

organism: Eisenia fetida

description:
Annotation of 43803 probed target sequences using Blast2GO with default threshold settings (BlastX Expect value ? 1.0E-3) and an E-value Hit filter of 1.0E-6
Efetida44KOligoArray
Arrays of this design have barcodes that begin with 16022725 or 2522725.
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).
NAME and SPOT_ID represent the unique probe names corresponding to their target gene ID with TA standing for 'target'.
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 Pseudomonas syringae B728a custom expression array [090326_P_syringae_B728a_expr]

city: Ames

first: Gwyn

last: Beattie

state: IA

address: 207 Science I

department: Dept of Plant Pathology & Microbiology

institute: Iowa State University

organism: Pseudomonas syringae pv. syringae B728a

description:
NimbleGen design name 090326_P_syringae_B728a_expr, NimbleGen design ID 9510.  An X4 expression design for Pseudomonas syringae strain B728a, NC_007005 plus 61 putative small noncoding RNA genes.  It has 5,132 seqs, with 14 probes per target ORF (5,071) and additional probes for the 61 putative sRNAs.  The array is repeated 4X on each slide.
ORF-based microarray of Pseudomonas syringae B728a

manufacture_protocol: see manufacturer's web site


title: ArrayStar Mouse LncRNA Microarray V1.0

city: Houston

first: Guohui

last: Wan

state: TX

address: 7777 Knight Road

department: Cancer Biology

institute: The University of Texas M.D. Anderson Cancer Center

organism: Mus musculus


title: [PigDrip_miRNA] Custom Affymetrix porcine microRNA array

city: Dummerstorf

first: Klaus

last: Wimmers

address: Wilhelm-Stahl-Allee 2

institute: Leibniz Institute for Farm Animal Biology (FBN)

organism: Sus scrofa


title: Illumina Genome Analyzer IIx (Nasonia vitripennis)

organism: Nasonia vitripennis


title: CapitalBio CAU Rose 10K array

status: Public on Jan 09 2013

city: Beijing

first: Junping

last: Gao

address: Department of Ornamental Horticulture, China Agricultural University

department: Ornamental Horticulture

institute: China Agricultural University

organism: Rosa hybrid cultivar

manufacture_protocol: Five microliters of the purified PCR product from each clone was mixed with 5 μl of saline-sodium citrate (SSC) and transferred into 384-well plates (Greiner Bio-One, Frickenhausen, Germany). The concentration of probe DNA was adjusted to between 0.10 and 0.20 mg/mL. The prepared probe cDNAs were printed onto UltraGAPS coated slides (Corning, Corning, NY) using a MicroGrid II 600 spotter (BioRobotics, Cambridge, UK) with 16 MicroSpot 2500 printing pins. The spotting space was 250 μm and each DNA element was spotted in two replicates. SSC was used as negative control of array. Temperature and humidity inside the arrayer were maintained at 25 °C and 45% relative humidity, respectively. cDNAs were immobilized to the modified glass slides by treatment with 300 mJ of UV irradiation followed by 2 h of incubation at 80 °C.


title: BlueGnome Homo sapiens 3K 24 sure version 3.0 [LOT 345B]

status: Public on Jan 08 2013

city: Leuven

first: Niels

last: Van der Aa

address: Herestraat 49 bus 602

country: Belgium

institute: KU Leuven

organism: Homo sapiens

description: Spotted BAC-array


title: BlueGnome Homo sapiens 3K 24 sure version 2.1


title: Illumina HiSeq 2000 (Pythium splendens)

status: Public on Jan 07 2013

last: GEO

organism: Globisporangium splendens


title: BlueGnome Homo sapiens 3K 24 sure version 2.0


title: BlueGnome Homo sapiens 3K 24 sure version 3.0


title: Illumina HiSeq 2000 (Nasonia vitripennis)


title: Illumina Genome Analyzer (Nasonia vitripennis)


title: Illumina HiSeq 2000 (Drosophila rhopaloa)

organism: Drosophila rhopaloa


title: Illumina Genome Analyzer IIx (Drosophila kikkawai)

organism: Drosophila kikkawai


title: Illumina Genome Analyzer IIx (Drosophila rhopaloa)


title: Illumina HiSeq 2000 (Drosophila takahashii)

organism: Drosophila takahashii


title: Illumina HiSeq 2000 (Drosophila kikkawai)


title: Illumina Genome Analyzer IIx (Drosophila bipectinata)

organism: Drosophila bipectinata


title: Illumina Genome Analyzer IIx (Drosophila ficusphila)

organism: Drosophila ficusphila


title: Illumina Genome Analyzer IIx (Drosophila elegans)

organism: Drosophila elegans


title: Illumina HiSeq 2000 (Drosophila ficusphila)


title: Illumina Genome Analyzer IIx (Drosophila eugracilis)

organism: Drosophila eugracilis


title: Illumina HiSeq 2000 (Drosophila bipectinata)


title: Perkin Elmer Homo sapiens 5K BAC constitutional chip version 4.0


title: HumanHT-12 v4 Expression BeadChip (nuID)

city: Tampere

first: Saara

last: Marttila

address: Biokatu 6

department: School of Medicine

country: Finland

institute: University of Tampere


title: Illumina Genome Analyzer IIx (Drosophila takahashii)


title: NimbleGen Gibbs Drosophila mojavensis 135K 12-plex Array

city: Las Vegas

first: Allen

middle: G.

last: Gibbs

state: Nevada

address: 4505 S Maryland Parkway

department: School of Life Sciences

institute: University of Nevada

organism: Drosophila mojavensis

description: The probe selection was based on the sequences from ftp://flybase.net/genomes/Drosophila_mojavensis/current/fasta/dmoj-all-transcript-r1.3.fasta.gz downloaded on 4/14/2009. Nine probes per transcript were selected. The report.txt file will give you the details of how many probes were chosen for each transcript. There is a total of 130705 probes (12-plex design hold 135K probes. The empty spaces were filled with random (negative) probes.) OID21283_rank9.select is a tab-delimited file containing each probes' sequence as well as other information about the probe (score, tm, etc.) Report.txt tells you the number of probes we were able to select for each id. No_probes.txt contains a list of what we weren't able to select a probe for. Exemplars.txt will let you know if one probe set represents multiple ids (for ex. When doing the selection, FBtr0160978 and FBtr0160979 shared the same probes, so FBtr0160979 was filtered out of the probe set). Finally, annotation.txt is the annotation file we were able to pull together based on the file we downloaded.

manufacture_protocol: Details on the manufacture protocol can be found on http://www.nimblegen.com/technology/index.html


title: Illumina Genome Analyzer IIx (Drosophila biarmipes)

organism: Drosophila biarmipes


title: Illumina HiSeq 2000 (Drosophila eugracilis)


title: Illumina HiSeq 2000 (Gossypium hirsutum)

organism: Gossypium hirsutum


title: KRIBB Hansenula 11K

status: Public on Jan 03 2013

city: Daejeon

first: Oh Cheol

last: Kim

address: Gwahakro 125

institute: KRIBB

organism: Ogataea angusta

description: Hansenula polymopha

manufacture_protocol: DNA spotted onto aldehyde-coated galss slides


title: Illumina HiSeq 2000 (Drosophila elegans)


title: LC Sciences Papio hamadryas miRNA array [UT_D110128 reporter name]

first: Christoph

last: Eicken

address: 2575 W. Bellfort

institute: LC Sciences, LLC

organism: Papio hamadryas

description: Custom miRNA microarray targeting the mature miRNAs of Papio hamadryas

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 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: Custom Salmonella LT2 and Tennessee Strain GE 4x44K (030869)

status: Public on Jan 01 2013

city: Bedford Park

first: Haiping

last: Li

state: IL

address: 6502 S. Archer Rd

department: CFSAN/OFS/Moffett Center

institute: Food and Drug Administration

organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
Salmonella enterica subsp. enterica serovar Tennessee

description: Agilent 60-mer SurePrint technology: a proprietary non-contact industrial inkjet printing process, in which oligo monomers are deposited uniformly onto specially-prepared glass slides. This in situ synthesis process prints 60-mer length oligonucleotide probes, base-by-base, from digital sequence files. The precise inkjet process enables the delivery of extremely small, accurate volumes (picoliters) of the chemicals to be spotted.

manufacture_protocol: Standard phosphoramidite chemistry used in the reactions allows for very high coupling efficiencies to be maintained at each step in the synthesis of the full-length oligonucleotide. Precise quantities are reproducibly deposited “on the fly.” This engineering feat is achieved without stopping, to make contact with the slide surface and without introducing surface-contact feature anomalies, resulting in consistent spot uniformity and traceability. In addition, multiple microarrays can be printed simultaneously in a single manufacturing run.


title: Illumina HiSeq 2000 (Brassica nigra)

status: Public on Jan 02 2013

organism: Brassica nigra


title: Illumina HiSeq 2000 (Drosophila biarmipes)


title: Illumina HiSeq 2000 (Brassica juncea)

organism: Brassica juncea


title: BaSysBio Bacillus subtilis T2 385K array [gene-level]

city: Coventry

first: Emma

middle: L

last: Denham

address: Gibbet Hill Road

department: Warwick Medical School

institute: University of Warwick

organism: Bacillus subtilis subsp. subtilis str. 168

description:
AL009126.3

native array description file: 090325_CBS_DTU_Bsub_T2.ndf
native array description file: 090325_CBS_DTU_Bsub_T2.pos
DesignID: 9494

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 (Brassica rapa)

organism: Brassica rapa


title: NimbleGen Human DNA Methylation 3x720K CpG Island Plus RefSeq Promoter Array [100718_HG18_CpG_Refseq_Prom_MeDIP]

status: Public on Jan 05 2013

city: Milan

first: Stefania

last: Corti

address: via F. Sforza 35

department: Neurological Sciences

country: Italy

institute: University of Milan

organism: Homo sapiens

description: Build: HG18, NCBI 36


title: Agilent-033937 Strongylocentrotus purpuratus 105K v2

city: Santa Barbara

first: Tyler

last: Evans

state: California

address: Marine Science Institute

department: Ecology, Evolution and Marine Biology

institute: University of California Santa Barbara

organism: Strongylocentrotus purpuratus

description:
Arrays of this design have barcodes that begin with 16033937 or 2533937.

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 SPU_* identifiers correspond to putative gene sequences from genome build 3.1 and can be found in the sea urchin genome database (www.spbase.org).***

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


title: AUSTRIACO S. boulardii 15k v1.0 [Agilent-040364]

status: Public on Jan 04 2013

city: Providence

first: David

last: Laprade

state: RI

address: 1 Cunningham Sq.

institute: Providence College

organism: Saccharomyces cerevisiae

description:
Arrays of this design have barcodes that begin with 16040364 or 2540364.

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: Agilent-033937 Strongylocentrotus purpuratus 105K v2 (Probe version)