title: VIMSS Desulfovibrio vulgaris Hildenborough 7K v3.0

status: Public on Jul 31 2012

city: Berkeley

first: Lara

last: Rajeev

state: CA

address: 1 Cyclotron Road

country: USA

institute: Lawrence Berkeley Lab

organism: Nitratidesulfovibrio vulgaris str. Hildenborough

technology: spotted oligonucleotide

distribution: non-commercial

first: Adam

middle: P

last: Arkin

first: Marcin

last: Joachimiak

manufacture_protocol: Thompson, D., Beliaev, A., Giometti, C., Tollaksen, S.,Khare, T., Lies, D., Nealson, K., Lim, H., Yates, J., Brandt, C. Tiedje, J., and Zhou, J. 2002. Transcriptional and Proteomic Analysis of a Ferric Uptake Regulator (Fur) Mutant of Shewanella oneidensis: Possible Involvement of Fur in Energy Metabolism, Transcriptional Regulation, and Oxidative Stress. Appl. Environ. Microbiol. 68:881-892.


title: UCSF/Yamamoto Human HEEBO 49K 1.0

city: San Francisco

first: Samantha

middle: B.

last: Cooper

department: Cellular and Molecular Pharmacology

institute: UC San Francisco

organism: Homo sapiens

distribution: custom-commercial

manufacture_protocol: Oligos (HEEBO v1.0, Invitrogen) resuspended in 3X SSC. Printed on poly-lysine coated glass slides (Erie Scientific) with arrayer in the UCSF.Center for Advanced Technology


title: NimbleGen Custom Cowpea 50k v1

status: Public on Sep 19 2012

city: Charlottesville

first: Stephen

last: Turner

state: VA

address: 1670 Discovery Drive

institute: Signature Science, LLC

organism: Vigna unguiculata

technology: in situ oligonucleotide

description:
A 385,000 feature microarray was fabricated (Nimblegen Inc., Madison, WI) using 60-nucleotide long oligonucleotide synthesized based upon the nucleotide sequence of 43,253 cowpea unigenes of known and unknown function previously identified in a gene-space sequencing study
array_description.ndf
array_description.ngd

manufacture_protocol: High-density DNA array prepared via NimbleGen protocol. See manufacturer's website at http://www.nimblegen.com/.


title: Agilent-035566 20110716NbenthCorbv3

status: Public on Apr 08 2013

city: Yokohama

first: Pamela

last: Gan

state: Kanagawa

address: 1-7-22 Suehiro-cho, Tsurumi-ku

department: RIKEN Plant Sciences

country: Japan

institute: RIKEN

organism: Colletotrichum orbiculare

description:
Arrays of this design have barcodes that begin with 16035566 or 2535566.

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: Candida albicans Custom Microarray Agilent [Agilent-028105]

status: Public on Sep 30 2012

city: Braunschweig

first: Anna

last: Buschart

address: Inhoffenstr. 7

department: BiSA

country: Germany

institute: Helmholtz-Centre for Infection Research

organism: Candida albicans

first: Robert

last: Geffers

manufacture_protocol: Agilent custom microarray: in situ synthesis


title: CFGP_CitrusTranscriptionFactor_oligos_chip

city: Valencia

first: Javier

last: Forment

state: Valencia

address: Ingeniero Fausto Elio, s/n

department: Biotecnología

country: Spain

institute: Instituto de Biología Molecular y Celular de Plantas, IBMCP (UPV-CSIC)

organism: Citrus

manufacturer: IBMCP (Instituto de Biología Molecular y Celular de Plantas, UPV-CSIC)

first: Jose

last: Gadea

manufacture_protocol:
1) Putative Citrus transcription factors were identified from all public Citrus sequences, using BLAST and local Perl scripts to parse the results by keywords.
2) Highly-specific oligos were designed from the sequence of the putative Citrus transcription factors above identified, using YODA software.
3) Oligos designed above were purchased to a commercial company, and spotted at the Genomics Core Service of the IBMCP.


title: Illumina Genome Analyzer (Vitis labrusca x Vitis vinifera)

status: Public on Jul 30 2012

last: GEO

organism: Vitis labrusca x Vitis vinifera

technology: high-throughput sequencing

distribution: virtual


title: Derived from GPL9545 - The Genome Center at Washington University, Candida albicans 20K array

status: Public on Dec 11 2012

city: San Antonio

first: David

last: Kadosh

state: TX

address: 7703 Floyd Curl Drive

department: Microbiology and Immunology

institute: University of Texas Health Science Center at San Antonio

manufacture_protocol: See manufacturer's website: http://genome.wustl.edu/services/microarray/candida_albicans


title: Agilent Gene Expression Array for Schizosaccharomyces pombe 8x15K [Agilent-020613 Spom-8x15 Feature Number version]

status: Public on Jan 01 2013

city: Cambridge

first: Ian

middle: O'Brien

last: Carter-O'Connell

state: MA

address: 52 Oxford St. NW 440

department: MCB

institute: Harvard University

organism: Schizosaccharomyces pombe

description:
Arrays of this design have barcodes that begin with 16020613 or 2520613.

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 IIx (Saccharopolyspora erythraea)

organism: Saccharopolyspora erythraea


title: Illumina Genome Analyzer IIx (Drosophila virilis)

organism: Drosophila virilis


title: Illumina Genome Analyzer IIx (Drosophila yakuba)

organism: Drosophila yakuba


title: Agilent-022326 Custom Danio rerio transcription factor array [ITG_TF_rerio]

city: Eggenstein-Leopoldshafen

first: Jessica

last: Legradi

state: Baden-Wuerttemberg

address: Hermann-von-Helmholtz-Platz 1

department: Institute of Toxicology and Genomics ITG

institute: Karlsruhe Institute of Technology

organism: Danio rerio

description:
Transcription factor array

Arrays of this design have barcodes that begin with 16022326 or 2522326.

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-035843 Genotypic_EA519_Xenopus_tropicalis_GE_4x44k

city: Gainesville

first: Christopher

middle: Joseph

last: Martyniuk

state: FL

address: CEHT Mowry Road

department: Physiological Sciences

institute: UF

organism: Xenopus tropicalis

first: Valerie

middle: S

last: Langlois

middle: J

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


title: Illumina Genome Analyzer IIx (Stenotrophomonas maltophilia)

status: Public on Jul 27 2012

organism: Stenotrophomonas maltophilia


title: 454 GS FLX Titanium (Oryza sativa)

organism: Oryza sativa


title: Illumina Genome Analyzer IIx (Plasmodium falciparum 3D7)

organism: Plasmodium falciparum 3D7


title: Exiqon miRCURYTM LNA array v.10.0 (miRBase 11.0)

status: Public on Jul 29 2012

city: Chicago

first: R. Stephanie

last: Huang

state: IL

address: 900 E 57th street

institute: University of Chicago

description:
miRCURY LNA Array Version 10.0. Based on miRbase 11.0 annotation
LNA capture probes


title: Saccharomyces cerevesiae  1x244k ChIP on chip  designed by Genotypic Technology Private Limited. (AMADID: 022360)

city: Bangalore

first: Genotypic

last: technology

state: Karnataka

address: 259, Apoorva 4th cross,80 feet Road,RMV 2ND STAGE

country: India

institute: Genotypic Technology

organism: Saccharomyces cerevisiae

first: Mugasimangalam

middle: C

last: Raja

manufacture_protocol:
sacCer2, SGD June 2008
www.chem.agilent.com


title: AB SOLiD System 2.0 (Saccharomyces cerevisiae)

status: Public on Jul 26 2012


title: Progenika Biopharma Pseudomonas putida MPA-02-0001

status: Public on Jul 25 2012

city: Campus de Cantoblanco

first: Victor

last: de Lorenzo

state: Madrid

address: Darwin 3

department: Systems Biology

institute: CNB-CSIC

organism: Pseudomonas putida KT2440

manufacture_protocol: See manufacturer's web site.


title: YCW_Human_3.6KBAC_ARRAY

city: Tainan

first: Yi-Ching

last: Wang

address: No.1, University Road, Tainan 70101, Taiwan, R. O. C.

country: Taiwan

institute: National Cheng Kung University

organism: Homo sapiens

technology: spotted DNA/cDNA

description: build 35 - hg17 of UCSC Genome Browser

manufacturer: Department of Pharmacology, College of Medicine, National Cheng Kung University, Tainan, Taiwan.

manufacture_protocol: The genomic microarray used containing 3604 BAC clones representing the human genome at 18 non-gap chromosome regions. Clone mapping was analyzed using the BAC end pairs database of UCSC Genome Bioinformatics (http://genome.ucsc.edu/). The BAC library used was RP-11, which was provided from Genome Research Center, University of Yang-Ming. The extracted BAC DNA was amplified to 10 μg by Phi29 DNA polymerase reaction (TempliPhi DNA Sequencing Template Amplification Kit, Amersham, Princeton, NJ), and digested by DNaseI (New England Biolabs, Ipswich, MA), and purified by MultiScreen-PCR Plates (Millipore, Danvers, MA). After digestion, the DNA fragments were resolved by gel electrophoresis and the fragment size were optimized to within 0.5–3 kb. Finally, the purified BAC DNA fragments were dotted triplicate in 72 blocks on the glass slides (Corning, NY, USA) with spotting solution (50% DMSO, 50% D2H2O).


title: Lonza StellARay mouse cell cycle qPCR array

city: Ann Arbor

first: Yasmina

last: Laouar

state: Michigan

address: 1150 West Medical Center Drive

institute: University of Michigan

organism: Mus musculus

technology: RT-PCR

description: PCR assay for cell cycle-related genes.

manufacture_protocol: See manufacturer's website.


title: Illumina HiSeq 2000 (Schizosaccharomyces pombe 972h-)

status: Public on Jul 19 2012

organism: Schizosaccharomyces pombe 972h-


title: NanoString nCounter Human miRNA assay

city: Boston

first: Oleg

last: Butovsky

address: 77 Avenue Louis Pasteur, Office 614

department: Center of Neurologic Diseases

institute: Brigham and Women's Hospital, Harvard Medical School

technology: other

manufacture_protocol: See manufacturer's website


title: NanoString nCounter Human GX  Immunology and Nanostring Human Inflammation assays

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


title: Agilent-031148 Yarrowia lipolytica V2 [Feature Number version]

city: Thiverval-Grignon

first: Nicolas

last: Morin

address: Av. Lucien Bretignières

department: UMR 1319 Micalis

country: France

institute: INRA

organism: Yarrowia lipolytica

description:
Yarrowia lipolytica V2

Arrays of this design have barcodes that begin with 16031148 or 2531148.

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: Phalanx Rat miRNA OneArray Ver 3 (miRBase Release 17)

city: Hsinchu

first: Sean

last: Chang

address: 6F, NO.6 Technology Road 5

department: R&D

institute: PhalanxBiotech Group

organism: Rattus norvegicus

description: Rat miRNA microarray designed and annotated based on Sanger's miRBase release 17

distribution: commercial

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


title: SARS_Oikopleura_WG_til (probe-level)

status: Public on Jul 24 2012

city: Bergen

first: Eric

last: Thompson

address: Thormøhlensgt. 55

country: Norway

institute: Sars International Centre for Marine Molecular Biology

organism: Oikopleura dioica

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

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


title: UNMC-MWG Human 10K v1.0

status: Public on Jul 20 2012

city: Omaha

first: Mark

middle: A.

last: Carlson

state: NE

address: Surgery 112, VA Medical Center, 4101 Woolworth Ave

department: Surgery

institute: Univ Nebraska Med Ctr

manufacture_protocol: The gene clones on the chip consisted of unique 50-mer oligonucleotide sense strand sequences synthesized by MWG Biotech (Ebersberg, Germany). The oligo set from MWG consists of approximately one third of the genes expressed in the human genome (9,850 genes) with 30 replica spots and 104 Arabidopsis negative controls. Each gene is annotated with a specific NCBI accession number (release 126). The oligos were suspended in 3X SSC in 384 V bottom plates and were spotted to the polylysine coated glass slides by a set of 16 robotically controlled printing tips using a Omnigrid microarray printer in the UNMC Microarray Core Facility.


title: Human Cancer Array 11K

status: Public on Aug 01 2012

city: Shenyang

first: Ziwei

last: Feng

address: Sanhao street

country: China

institute: China Medical University

manufacturer: Beijing CapitalBio Biochip Co., Ltd., National Engineering Research Center

manufacture_protocol: see manufacturer's web site


title: NimbleGen Custom Desulfovibrio alaskensis G20 Tiling [NimbleGen_G20_2082K_1]

city: Berkeley

first: Morgan

middle: N

last: Price

address: 1 Cyclotron Road Mailstop 977-152

department: Physical Biosciences Division

institute: Lawrence Berkeley Lab

organism: Oleidesulfovibrio alaskensis G20

description:
NC_007519
100318_DdesG20_JK_EXP_HX1.ndf

manufacture_protocol: see NimbleBen website


title: Custom NimbleGen Shewanella oneidensis MR-1 Tiling [NimbleGen_MR1_2005K_1]

organism: Shewanella oneidensis MR-1

description:
NC_004347 and NC_004349
100318_Shew_one_MR1_JK_EXP_HX1.ndf

manufacture_protocol: see NimbleGen website


title: NimbleGen Custom Zymomonas mobilis ZM4 12-plex

organism: Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821

description:
145,804 60-mer probes in a 12-plex format
100302_JS_ZM4_v3_expr.ndf

manufacture_protocol: 60 nt probes


title: Illumina Genome Analyzer IIx (Bacillus thuringiensis)

status: Public on Jul 18 2012

last: GEO

organism: Bacillus thuringiensis


title: Illumina Genome Analyzer II (Shewanella oneidensis MR-1)


title: Illumina Genome Analyzer IIx (Medicago truncatula)

status: Public on Jul 17 2012

organism: Medicago truncatula


title: Illumina custom human SNP VeraCode microarray

status: Public on Jul 22 2012

city: Jinan

first: Xiaotian

address: Jingshi road 18877

institute: Shandong Acedemy of medicinal sciences

technology: oligonucleotide beads

description: MAF:Minor Allele Frequency

manufacture_protocol:
catalog number: VC-201-0384 GoldenGate Genotyping Kit for Verocade, 384-Plex
See manufacturer's website


title: Phalanx Mouse miRNA OneArray Ver 3 (miRBase Release 17)

description: Mouse miRNA microarray designed and annotated based on Sanger's miRBase release 17


title: NimbleGen Custom Shewanella oneidensis MR-1 12-plex

description:
144,352 60-mer probes with 40,881 different genic sequences in a 12-plex format
090408_Sone_MR1_EXP.ndf


title: Illumina Genome Analyzer II (Eucalyptus camaldulensis)

status: Public on Jul 16 2012

organism: Eucalyptus camaldulensis


title: [RMLchip3a520351] Affymetrix RML Custom Pathogenic chip 3

status: Public on Oct 31 2007

city: Hamilton

first: Dan

last: Sturdevant

state: MT

address: 903 S 4th street

department: NIAID

institute: NIH

organism:
Coxiella burnetii
Rickettsia rickettsii
Chlamydia muridarum
Chlamydia pneumoniae AR39
Staphylococcus epidermidis RP62A
Staphylococcus epidermidis ATCC 12228
Staphylococcus aureus subsp. aureus MW2
Borreliella burgdorferi B31
Coxiella burnetii RSA 493
Chlamydia caviae GPIC
Chlamydia trachomatis D/UW-3/CX
Staphylococcus haemolyticus JCSC1435
Granulibacter bethesdensis

description: custom pathogenic Affymetrix chip 3 manufactured for RML

manufacture_protocol: standard Affymetix protocol


title: ZB/SBS-NTU Plasmodium falciparum 10.4K v1.0

status: Public on Jul 15 2012

city: Singapore

first: Ramya

last: Ramadoss

address: 60 Nanyang Drive, 04n-18, School of Biological Sciences

country: Singapore

institute: Nanyang Technological University, School of Biological Sciences

organism: Plasmodium falciparum

first: Guangan

last: Hu

first: Zbynek

last: Bozdech

first: M

last: Llinás

first: J

last: Li

first: P

middle: R

last: Preiser

manufacture_protocol:
Oligonucleotides were selected using the program OligoRankPick, described in Guangan Hu, Manuel Llinás, Jingguang Li, Peter Rainer Preiser & Zbynek Bozdech: Selection of long oligonucleotides for gene expression microarrays using weighted rank-sum strategy. BMC Bioinformatics 2007, 8:350.
The 70-bp oligonucleotides were spotted onto poly-L-lysine-coated microscopic slides as described in Zbynek Bozdech, Jingchun Zhu, Marcin P Joachimiak, Fred E Cohen, Brian Pulliam & Joseph L DeRisi: Expression profiling of the schizont and trophozoite stages of Plasmodium falciparum with a long-oligonucleotide microarray. Genome Biology 2003, 4:R9.


title: NimbleGen S. meliloti 4-plex expression array 72K [081103_Sm_RM_EXP]

first: Turlough

middle: M

last: Finan

state: Ontario

address: 1280 Main Street West

department: Biology

country: Canada

institute: McMaster University

organism: Sinorhizobium meliloti

description: Design name: 081103_Sm_RM_EXP

manufacture_protocol: NimbleGen designed 60 mer probes for S. meliloti genome (annotations: AL591688, AE006469,AL591985) 64913 probes, including 1800 null probes; 8681 customer designed probes.


title: ZB/SBS-NTU Plasmodium falciparum 11K v1.1


title: NimbleGen D. melanogaster Gene Expression 12x135K Array [Probe-level, 090828_Dmel_exp]

city: Bethesda

first: GEO

last: admin

state: MD

address: 9000 Rockville Pike

institute: NCBI/NLM/NIH

organism: Drosophila melanogaster

description:
Design name: 090828_Dmel_exp
Design ID: 10545
Source: Flybase
Build: DM5.7
Probe Length: 60mer
16637 target genes (exemplars), 21051 CDS sequences.

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


title: Illumina Genome Analyzer (Trichinella spiralis)

status: Public on Jul 13 2012

organism: Trichinella spiralis


title: Illumina HiSeq 2000 (Columba livia)

organism: Columba livia


title: Agilent-036355 FsOx 44K v1.1

status: Public on Jul 14 2012

city: Cordoba

first: David

last: Turrá

address: Campus de Rabanales

institute: University of Cordoba

organism: Fusarium oxysporum

description:
Fusarium oxysporum microarray

Arrays of this design have barcodes that begin with 16036355 or 2536355.

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: NimbleGen_Human_CustomCGH_135K

city: vancouver

first: Farah

last: Zahir

state: BC

address: Box 153, 4500 Oak Street

institute: UBc

organism: Homo sapiens

description: Build Hg18, NCBI 36


title: Bluegnome ISCA 60K Cytochip (hg18)

status: Public on Jul 12 2012

city: Amsterdam

first: Els

last: Voorhoeve

address: De Boelelaan 1117

department: Clinical Genetics

country: Netherlands

institute: VU medical center


title: NimbleGen AUTS2 high density array (hg18)

description: with probes tiled across 7q11.22 (hg18; chr7:65,992,311-72,003,221) at a median density of 75 bp


title: 454 GS (Cucumis sativus var. sativus)

organism: Cucumis sativus var. sativus


title: Illumina HiSeq 2000 (Oryza rufipogon)

organism: Oryza rufipogon


title: Illumina Genome Analyzer II (Anopheles gambiae)

status: Public on Jul 11 2012

organism: Anopheles gambiae


title: Affymetrix GeneChip Human Genome U133 Plus 2.0 Array based on a custom CDF (REFSEQ_14)

description: This identical to GPL570 but a custom cdf environmnet was used to extract data. The cdf can be found at the link below. We used the REFSEQ14 version for HGU-133_plus2

manufacture_protocol: see the Affymetrix website


title: Illumina Genome Analyzer IIx (Solanum tuberosum)

status: Public on Jul 10 2012

organism: Solanum tuberosum


title: UCC339_L.ruminis_44/k_v1.0

city: Cork

first: Paul

middle: W

last: O'Toole

address: Western Rd.

department: Microbiology

country: Ireland

institute: Univeristy College Cork

organism: Ligilactobacillus ruminis

description: Custom 4x44k microarray design based on automated ORF prediction of draft L. ruminis ATCC25644 [Genbank accession: AFYE00000000.1, Bioproject: PRJNA71361] and L. ruminis ATCC27782 [Genbank accession: CP003032.1, Bioproject: PRJNA70721] genomes.  Probes were generated against every 1000nt of a given ORF.  At least 6 features are present on each microarray for each 1000nt fragment.  Where the sequence of a given probe is identical for a gene common to both ATCC25644 and ATCC27782, its corresponding "feature set" is represented on the microarray only once.

first: Anne

last: Neville

first: Brian

last: Forde

first: Aldert

last: Zomer

manufacture_protocol: Chemical In-situ oligonucleotide synthesis


title: Illumina Genome Analyzer IIx (Bombyx mori)

status: Public on Jul 09 2012

last: GEO

organism: Bombyx mori


title: JCVI PFGRC Pseudomonas aeruginosa 25K v2 array designed primarily based on strain PAO1 (full layout)

city: Lubbock

first: Jane

last: Colmer-Hamood

state: Texas

address: 3601 4th Street  STOP 6591

department: Microbiology & Immunology

institute: Texas Tech University Health Sciences Center

organism: Pseudomonas aeruginosa

description: This set includes 5552 oligonucleotides, has 25392 spots distributed in 48 blocks.

manufacture_protocol: 2QPA, with arrayer GENETIX, machine cycles 0, pen id 0, pen cycles 0, operator 0, humidity control 0, humidity set point0.000


title: NimbleGen custom human 3X720K CGH array [111205_HG19_PS_CGH]

city: Houston

first: Pawel

last: Stankiewicz

address: One Baylor Plaza

department: Molecular Human Genetics

institute: Baylor College of Medicine

description:
Annotation in this record based on hg19.
Design id: 563001
Genomic regions covering 2Mb regions flanking FOXF1.

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


title: Agilent-032180 Saccharomyces cerevisiae Gene Expression 8x60K Microarray

city: Pittsburgh

first: Anthony

last: Gitter

state: PA

address: 5000 Forbes Ave

department: Computer Science Department

institute: Carnegie Mellon University

organism: Saccharomyces cerevisiae

manufacture_protocol:
Agilent 60-mer SurePrint technology.
See manufacturer's web site at http://www.agilent.com/.


title: Agilent-030795 custom-designed human 16q24.1 region-specific 4x44K oligonucleotide microarray (hg19)

description:
8Mb

Arrays of this design have barcodes that begin with 16030795 or 2530795.

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 HumanOmni5-Quad BeadChip (HumanOmni5-4v1_B)

city: L'Hospitalet de Llobregat

first: Antonio

last: Gómez

state: Barcelona

address: Av. Gran Vía s/n km. 2,7.

department: Epigenetics and Biology of Cancer Program

institute: IDIBELL

manufacture_protocol: See manufacturer's website


title: Illumina HiSeq 2000 (Tupaia chinensis)

status: Public on Jul 06 2012

organism: Tupaia chinensis


title: Agilent-021886 Lactobacillus delbrueckii subsp. bulgaricus 2038 array

status: Public on Jul 07 2012

city: Shanghai

first: Zhidong

last: zhu

state: Shanghai

address: 151# Libing road

institute: shanghai biochip Co.

description:
Arrays of this design have barcodes that begin with 16021886 or 2521886.

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: Human and EBV 0.95K microRNA array

city: Guangzhou

first: bijun

last: huang

address: 651#Dongfeng East Road

institute: Cancer Center, Sun Yat-Sen University, Guangzhou, China

organism:
Homo sapiens
human gammaherpesvirus 4

manufacturer: State Key Laboratory of Oncology in Southern China, Cancer Center, Sun Yat-Sen University, China

first: Hong-jie

last: Yang

first: Tie-jun

last: Huang

first: Hui-yun

last: Wang

first: Bi-jun

manufacture_protocol: Pre-cleaned Gold Seal slides (Thermo Fisher) were washed with detergents and baked at 140°C for 4 h. A total of 873 human microRNA probes and 44 EBV-encoded microRNA Probes (40 nM each) were printed onto the slides using the SmartArrayer™ 136 printer (CapitalBio Inc, Beijing, China).


title: [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [HuGene10stv1_Hs_ENTREZ, Brainarray v14]

first: GEO

last: admin

description: custom CDF: HuGene10stv1_Hs_ENTREZG.cdf [Brainarray Version 14]

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

manufacture_protocol: See manufacturer's web site


title: Agilent-022084 16q24.1_HD

city: Rotterdam

first: Erwin

last: Brosens

state: - If in U.S, Select a State -

address: Dr molewaterplein 50

department: Clinical genetics

institute: ErasmusMC

description:
annotation based on hg18

Arrays of this design have barcodes that begin with 16022084 or 2522084.

Orientation:
Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software.

The ID column represents the Agilent Feature Extraction feature number.

Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface).

To match data scanned on an Axon scanner, use the RefNumber column contained in the Agilent-provided GAL file as the ID_REF column in sample submissions.


title: NimbleGen P. falciparum 72K array [100712_Pfal_3D7_JM_exp_72K]

city: Tampa

first: JUN

last: MIAO

state: Florida

address: 3720 Spectrum Boulevard, MDC84

department: Internal Medicine

institute: University of South Florida

organism: Plasmodium falciparum 3D7

description:
NimbleGen design name 100712_Pfal_3D7_exp, NimbleGen design ID 05327954001.  A 35809 45-60mer probes were selected with two replicates on final array for a total of 71618 probes. For transcripts between 1-299bp, 3 probes were selected per transcript. For transcripts between 300-3999bp, 6 probes were selected per transcript.  For transcripts >4000bp, 11 probes were selected per transcript.  No 3' bias was used during probe selection.  Tm weighting parameter (500) was used when selecting the final probes (Tm distribution between 60.90 and 77.80). It was design for 5367 genes from Plasmodium falciparum 3D7.
The  probes were designed based on the NCBI genomic sequence (July 2010), and these genomic sequence accession numbers are NC_004314 -004318,  NC_004325-004331, NC_002375, NC_000910, NC_000521, X95276.
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: 100712_Pfal_3D7_JM_exp.ndf
native array description file: 100712_Pfal_3D7_JM_exp.ngd

DesignID: 539063

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


title: Agilent-028213 Tetranychus urticae Expression Array

city: Ghent

first: Wannes

last: Dermauw

address: Coupure Links 653

department: Crop Protection

country: Belgium

institute: University Ghent

organism: Tetranychus urticae

description:
Tetur Expression Array

Design Format: 8 x 60 K

Arrays of this design have barcodes that begin with 16028213 or 2528213.

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


title: Life Technologies murine miRNA expression assays Murine Megaplex pools A and B

status: Public on Jul 05 2012

city: Gent

first: Pieter

last: mestdagh

address: De Pintelaan 185

institute: Center for Medical Genetics

organism: Mus musculus

description: PCR assay

manufacture_protocol: see manufacturer's website


title: Life Technologies Human miRNA expression assays 450-plex

description: PCR assay


title: NimbleGen UW-Madison Saccharomyces cerevisiae 380K tiling array [2006-10-12_Ansari_tiling_51mer; gene-level version]

city: Madison

first: Suraiya

middle: Ruma

last: Haroon

state: WI

address: 425 Henry Mall

department: Genetics

institute: University of Wisconsin - Madison

description:
designname=2006-10-12_Ansari_tiling_51mer
designid=4770
51mer oligos

manufacture_protocol: Standard NimbleGen synthesis procedures


title: Illumina HiSeq 2000 (Trichinella spiralis)

organism: Trichinella spiralis


title: SABiosciences Mouse Inflammation PCR Array PAMM-073

status: Public on Jul 04 2012

city: Chapel Hill

first: Janelle

last: Arthur

state: NC

address: 111 Mason Farm Rd

institute: University of North Carolina at Chapel Hill

description: PCR assay

manufacture_protocol: See manufacturer's website.


title: SABiosciences Mouse Inflammation PCR Array PAMM-077

description: PCR assay


title: Wafergen Biosystems SmartChip Human Oncology Panel v2

status: Public on Jul 01 2012

city: New York

first: Zeynep

middle: H.

last: Gumus

state: NY

address: 1300 York Ave

department: Physiology and Biophysics

institute: Cornell University

description: SYBR Green qPCR assay

manufacture_protocol: 1239 unique primer pairs in quadruplicate were printed on nano volume SmartChip for a total of 5184 wells. There are 11 endogenous control and 4 exogenous control primers. Total RNA was analyzed using the SmartChip Real-Time PCR System (WaferGen Biosystems, Fremont, CA). Briefly, cDNA was prepared using 1 ug of total RNA per sample per manufacturer’s recommendation. A PCR cocktail containing SYBR Green I dye and the equivalent of 1000 ng of starting RNA for each sample was loaded onto the SmartChip Human Oncology V2 Panel (containing 1,239 unique real-time PCR reactions in quadruplicate for a total of 5,184 reactions/sample.) The volume per reaction was 100 nL with an equivalent of 96 pg of RNA loaded per reaction. Forty cycles of real-time PCR were performed on the SmartChip Cycler collecting both raw Ct and Tm of each gene and sample for data analysis.  A data quality screen on amplification, Tm curves, and Ct and Tm variability was performed to remove any outlier data before delta-delta Ct calculations were used to determine fold change in expression.


title: NimbleGen Mouse CGH 385K Array [090128_Montreal_JRL_CGH]

city: Montreal

first: Brian

last: Wilhelm

address: 2950 Chemin Polytechnique

institute: University of Montreal

description:
Genome Build: NCBI37, MM9

This array type was designed from mm9 and uses c57bl/6 mouse strain chr 6 sequence (~2Mbp) from chr6 and also uses ~700kb of sequence from the 129 mouse strain for the NKC region.

The probes in the .ndf file are designated as _b6 or _129 depending on the origin of the sequence.

The 60bp probes on the array overlap one another by 45bp (i.e. there are 15bp increments in the position of each probe).

For the 129 sequence coordinates, they are derived from the following contigs in Genbank: AY686474, AY686475, AY686476, AY686477, AY686478, which were published as part of this paper: http://www.ncbi.nlm.nih.gov/pubmed/15674375
The sequences of the assembled contig used are provided in the '129-Ly49_total.txt' file.

Since all of the probes appear twice one the array (ie. replicated), unique identifiers were assigned by appending X (ROW) and Y (COL) coordinates on the .NDF file to each probe_ID.

DesignID: 9080

NimbleGen description files linked below:
native array description file: 090128_Montreal_JRL_CGH.ndf
native array description file: Andrew_corrected_posfile.pos

manufacture_protocol: See www.nimblegen.com


title: Agilent_024261 OGT_Streptococcus uberis_3780 features_8X15K_v1.0

city: Sutton Bonington

first: Sharon

last: Egan

state: Leicestershire

address: Sutton Bonington Campus

department: School of Veterinary Medicine and Sciences

country: United Kingdom

institute: University of Nottingham

organism: Streptococcus uberis 0140J

description: DesignID : 024261

manufacturer: Oxford Gene Technology, Begbroke Science Park, Sandy Lane, Yarnton, Oxford, OX5 1PF,  United Kingdom

manufacture_protocol: S. uberis 0140J DNA microarray  encompassed the whole bacterial genome, composed of 3780 features, with optimised 60mer oligonucleotide probes printed in triplicate. Two separate probes were designed to match each individual gene determined from the S. uberis 0140J genome annotation  with regions of homology discounted. Arrays were printed on glass microscope slides following described protocols  (Hughes, Mao et al, Nature Biotechnol 2001, 9(4)342-7).


title: miRXplore TM Microarray version5.0 (according to miRBase 14.0)

city: Milan

first: Loris

last: De Cecco

address: via Venezian 1

country: Italy

institute: IRCSS Istituto Nazionale Tumori

organism: synthetic construct

description: Homo Sapiens; Mus musculus; Rattus norvegicus

manufacture_protocol: 1.2 nl of 10 uM HPLC purified, 5' amino-modified DNA oligonucleotides (Metabion) were spotted four times on aminopropyltrimethoxysilane/phenyllendiisothiocyanate coated glass slides using a customized piezoelectric spotter.


title: miRCURY LNA microRNA Array, 5th generation MAUI - hsa, mmu & rno designed on miRBase 14.0

description:
Homo sapiens, Mus musculus, Rattus norvegicus, Human lymphocryptovirus, Human cytomegalovirus, Human immunodeficiency virus 1, Human herpes simplex virus 1, Human rhadinovirus, Mouse cytomegalovirus, Mouse gammaherpesvirus, Simian polyomavirus 40, JC polyomavirus, BK polyomavirus, Merkel  cell polyomavirus, Herpes  Simplex Virus 2
ProductNumber: 208320-A,208321-A,208322-A
LotNumberRange: 33100-33100


title: Inserm Homo sapiens 6K Cancerochip

city: angers

first: frederique

last: savagner

address: 4 rue larrey

institute: Inserm

organism: Homo sapiens

manufacture_protocol: oligos from MWG biotech spotted on slide


title: NimbleGen Human 3x720k Whole Genome CGH [090210_HG18_WG_CGH_v3.1_HX3]

city: Tallahassee

first: Benjamin

last: Pope

state: FL

address: 319 Stadium Dr

department: Biological Science

institute: Florida State University

description:
Build: Hg18, NCBI 36
native array description file: 090210_HG18_WG_CGH_v3.1_HX3.ndf
native array description file: 090210_HG18_WG_CGH_v3.1_HX3.pos

manufacture_protocol: see manufacturer's website for details


title: IBBA/CCG_Common bean_90K_v1.0 [condensed]

city: Cuernavaca

first: Mario

last: Ramírez

state: Morelos

address: Avenida Universidad S/N

department: Functional Genomics of Eukaryotes

country: Mexico

institute: Centro de Ciencias Genomicas-UNAM

organism:
Glycine max
Phaseolus vulgaris

description: 18,883 specific oligos (35-40mer) were designed on Bean Gene Index Version 3 (Release 3.0. May 22, 2009) tentative consensus (TC) sequences and 11,205 specific oligos (35-40mer) were designed on Soybean UniGene Built #38 by using the program design OligoArray 2.1 (Rouillard et al. 2003). 141 oligonucleotides sequences provided by the manufacturer were used as quality and negative controls. The 90K BeanArrayTM 1.0 was designed with three replicates of each probe randomly distributed across the array to allow measurement of the variability within the array. All the procedures provided were performed as indicated by CombiMatrix protocols available at the CombiMatrix website (www.combimatrix.com).

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

first: Roberto

last: Ferrarini

first: Francesca

last: Sparvoli

first: Bianca

last: Castiglioni

first: Paola

last: Cremonesi

first: Dario

last: Panzeri

first: Georgina

last: Hernández

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


title: Agilent Streptomyces hygroscopicus var. jinggangensis 15K [Agilent-025874]

status: Public on Feb 09 2012

city: shanghai

first: hang

last: wu

address: Huashan Road

institute: sjtu

organism: Streptomyces hygroscopicus subsp. jinggangensis

description: Arrays of this design have barcodes that begin with 16025874 or 2525874.

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


title: Agilent-030208/UofA Cow 8x15K miRNA array v.3

city: Edmonton

first: Josue

middle: Moura

last: Romao

state: Alberta

address: 116 St. and 85 Ave.

department: AFNS

institute: University of Alberta

organism: Bos taurus

description:
Slide format (1'' x 3''), 8x15K format,
miRbase v.15

manufacture_protocol: Microarrays are manufactured using 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. 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. This process 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.


title: Nanostring Gene Expression Assay, nCounter Virtual Cell Cycle Gene Set

status: Public on Jun 28 2012

city: Columbus

first: Taewan

last: Kim

state: OH

country: USA

institute: The Ohio State University

manufacture_protocol: See manufacturer's website


title: Princeton biocomplexity project, BC0011 90-mer

status: Public on Jul 14 2011

city: Berkeley

first: Nicholas

middle: James

last: Bouskill

state: CA

address: 1 Cyclotron Road

department: Earth Sciences Division

institute: Berkeley Lab

organism: uncultured crenarchaeote

description: The array contains three sets of probes for different applications (rbcL and nitrite reductase (NR) from phytoplankton and amoA from ammonia-oxidizing archaea). The paper to which this submission relates used on the amoA probe set. See linked sequence list for additional details.

first: Bess

last: Ward

manufacture_protocol: 90-mer oligonucleotides, spotted using DiRisi type arrayer


title: MMGG Pig X-tiling path 785 BACs v1

status: Public on May 30 2012

city: Cambridge

first: Ben

last: Skinner

address: Tennis Court Road

department: Department of Pathology

institute: University of Cambridge

organism: Sus scrofa

manufacturer: Mammalian Molecular Genetics Group, Department of Pathology, Cambridge University, Cambridge, CB2 1QP

first: Kim

last: Lachani

first: Christopher

last: Reitter

first: Nabeel

middle: A

last: Affara

manufacture_protocol:
Microarray construction followed the protocol of Fiegler et al (2007). A pig X-chromosome tiling path was provided by the Wellcome Trust Sanger Institute. Briefly, the BAC clones of the tiling path were grown overnight from glycerol stocks in LB in 96 well deep-well plates. BAC DNA was extracted by mini-prep, purified via 96-well filter-plates and eluted in ddH2O. The purified products were amplified by DOP-PCR in three separate reactions using three different DOP primers. Amplified DOP-PCR products were tagged with an aminolinker by PCR, filter-purified and eluted in spotting buffer. Amino-linked products were spotted onto CodeLink CodeLink activated slides (GE Healthcare UK Limited) using an MGII610 (BioRobotics).
1. Fiegler H, Redon R, Carter NP: Construction and use of spotted large-insert clone DNA microarrays for the detection of genomic copy number changes. Nat. Protocols 2007, 2:577–587.


title: Illumina Genome Analyzer IIx (Sorghum bicolor)

status: Public on Jun 27 2011

last: GEO

organism: Sorghum bicolor


title: Agilent-020412 Yersinia pseudotuberculosis YPIII gene expression array

city: Braunschweig

first: Ann

middle: Kathrin

last: Heroven

state: Niedersachsen

address: Inhoffenstr. 7

department: Molecular Infection Biology

institute: Helmholtz Centre for Infection Research

organism: Yersinia pseudotuberculosis

description: Sequences used for the design of the microarray (Agilent, 8 x 15K format) include three different 60-nt oligonucleotides for all 4172 chromosomal genes (ORFs > 30 codons) of the Y. pseudotuberculosis YPIII genome and six probes for the 92 genes of the virulence plasmid pYV of Y. pseudotuberculosis strain IP32953, and were obtained from the NCBI Genome GenBank (NC_010465.1 and NC_006153). The ORF-specific oligonucleotides were designed using the webdesign application eArray from Agilent (http://www.genomics.agilent.com).

middle: K

first: Katja

last: Böhme

first: Petra

last: Dersch

first: Johannes

last: Klein

first: Richard

last: Münch

first: Jana

last: Melzer

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


title: [Rhesus] Affymetrix Rhesus Macaque Genome Array

status: Public on Mar 09 2006

city: Santa Clara

last: Affymetrix

institute: Affymetrix, Inc.

organism: Macaca mulatta

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

The GeneChip Rhesus Macaque Genome Array enables researcher to study gene expression in the rhesus animal model by simultaneously interrogating over 47,000 M. mulatta transcripts. Additionally, the Rhesus Genome Array contains several relevant viral organisms for studying host-disease immune response.

The sequence information for this array was selected from public data sources including data from the University of Nebraska, the Baylor School of Medicine - Rhesus Macaque Whole Genome Shotgun Assembly (October 1, 2004), and GenBank STSs, ESTs, and mRNAs up to March 30, 2005. Additionally, probe sets were designed to interrogate rhesus transcripts orthologous to the 3' end of human transcripts (GeneChip Human Genome U133 Plus 2.0 Array and RefSeq sequences up to March 2005). Acknowledgements: Affymetrix, Inc. would like to acknowledge Dr. Rob Norgren from the University of Nebraska for his invaluable input into the design of the Rhesus Genome Array.

Keywords = high density oligonucleotide array

manufacture_protocol: see manufacturer's web site


title: Agilent Dano rerio 44K custom chip [Agilent-021643 Feature number version]

status: Public on Feb 03 2010

city: Oslo

first: Håvard

last: Aanes

state: Oslo

address: Ullevålsveien 72

department: Biochemistry

institute: Norwegian School of Veterinary Science

organism: Danio rerio

description: GPL15799 is a PROBE NAME version of this same array (design id 021643).

manufacture_protocol: see manufacturer's website


title: Agilent Gene Expression Array for Schizosaccharomyces pombe 8x15K AMAMID=020613 [gene-centered version]

status: Public on Jun 04 2012

first: Dawn

last: Thompson

state: MA

address: 7 Cambridge Center

institute: Broad Institute

organism: Schizosaccharomyces pombe

description: Regev lab custom

manufacture_protocol: Standard Agilent protocols for Agilent 8x15K Oligo Microarrays


title: S. pombe Nimblegen tiling array

status: Public on Sep 21 2009

city: Singapore

first: Majid

last: Eshaghi

state: Singapore

address: Biopolis

department: Bilogical Investigation

institute: Genome Institute of Singapore

description:
The S. pombe genome sequences version 2004 (www.sanger.ac.uk) was used
The positional information in the platform table reference the contig sequences in the supplementary files.

first: Jianhua

last: Liu


title: UW-Madison Saccharomyces cerevisiae 380K tiling array 51mer oligos 2006-10-12

status: Public on Nov 07 2009

city: Madison

middle: Lawrence

last: Warren

address: 1400 University Ave

institute: University of Wisconsin - Madison

organism: Saccharomyces cerevisiae

middle: L

first: Erika

last: Shor

first: Joshua

last: Tietjen

first: Aseem

middle: Z

last: Ansari

first: Catherine

last: Fox

relation:
Alternative to: GPL13254
Alternative to: GPL15778

manufacture_protocol: Standard NimbleGen synthesis procedures.


title: ZB/SBS-NTU Plasmodium falciparum 3D7 IGR+ORF 16.8K v1.0

status: Public on Dec 07 2010

first: Sachel

last: Mok

address: 60 Nanyang Drive

institute: Nanyang Technological University

organism: Plasmodium falciparum

first: Guangan

last: Hu

first: Zbynek

last: Bozdech

first: Manuel

last: Llinás

first: Jingguang

last: Li

first: Peter

last: Preiser

first: Archna

middle: P

last: Gupta

first: Bernardo

middle: J

last: Foth

manufacture_protocol:
Long oligonucleotides were selected using the program OligoRankPick, described in Guangan Hu, Manuel Llinás, Jingguang Li, Peter Rainer Preiser & Zbynek Bozdech: Selection of long oligonucleotides for gene expression microarrays using weighted rank-sum strategy. BMC Bioinformatics 2007, 8:350.
The 70/50-bp oligonucleotides were spotted onto poly-L-lysine-coated microscopic slides as described in Zbynek Bozdech, Jingchun Zhu, Marcin P Joachimiak, Fred E Cohen, Brian Pulliam & Joseph L DeRisi: Expression profiling of the schizont and trophozoite stages of Plasmodium falciparum with a long-oligonucleotide microarray. Genome Biology 2003, 4:R9.


title: Helicos HeliScope (Homo sapiens)

status: Public on Oct 19 2011

last: GEO


title: Phalanx Biotech mouse OneArray Microarray v2

city: Houston Road

first: Robert

middle: Joel

last: Schwartz

state: Texas

address: 4800 Calhoun

department: Biology and Biochemistry

institute: University of Houston

organism: Mus musculus

manufacture_protocol: See Phalanx Biotech Web site