title: KTH RAT 27k Oligo Microarray platform ver3

status: Public on Feb 28 2014

city: Las Palmas de Gran Canaria

first: Leandro

last: Fernandez-Perez

state: Las Palmas

address: Campus of San Cristóbal

department: Clinical Sciences

country: Spain

institute: University of Las Palmas de Gran Canaria

organism: Rattus norvegicus

technology: spotted oligonucleotide

description: Mcroarray containing 27K rat 70-mer oligo probe sets produced at the KTH Microarray Center (www.biotech.kth.se)

distribution: non-commercial


title: Illumina HiSeq 2000 (Bathycoccus prasinos)

last: GEO

country: USA

organism: Bathycoccus prasinos

technology: high-throughput sequencing

distribution: virtual


title: Illumina HiSeq 2000 (Leishmania major)

organism: Leishmania major


title: Illumina HiSeq 2000 (Fusarium graminearum PH-1)

organism: Fusarium graminearum PH-1


title: TaqMan microRNA Low-Density Array pools A an B

status: Public on Feb 27 2014

city: Nashville

first: Kasey

middle: C

last: Vickers

state: TN

address: 2220 Pierce Ave   358 PRB

department: Medicine

institute: Vanderbilt Univ. School of Medicine

organism: Homo sapiens

technology: RT-PCR

distribution: commercial


title: Cryptococcus_neoformans 3X20K

status: Public on Feb 26 2014

city: Seoul

first: Hyojeong

last: Kwon

address: Yonsei street

country: South Korea

institute: Yonsei university

organism: Cryptococcus neoformans

technology: in situ oligonucleotide

distribution: custom-commercial

manufacture_protocol: see MYcroarray , MI. USA.


title: Illumina HiSeq 2000 (Lactococcus lactis subsp. cremoris MG1363)

organism: Lactococcus cremoris subsp. cremoris MG1363


title: Illumina MiSeq (Pseudomonas fluorescens)

organism: Pseudomonas fluorescens


title: Illumina Genome Analyzer IIx (Dinoroseobacter shibae DFL 12 = DSM 16493)


title: Illumina HiSeq 2000 (Saccharomyces cerevisiae BY4741)

status: Public on Feb 25 2014

organism: Saccharomyces cerevisiae BY4741


title: [HT_MG-430_PM] Affymetrix HT MG-430 PM Array Plate [CDF: HTMG430PM_Mm_ENTREZG, Brainarray version 15]

status: Public on Feb 24 2014

city: Bilthoven

first: Alexa

last: Vitins

address: P.O. Box 1

country: Netherlands

institute: RIVM

organism: Mus musculus

description: This Platform is identical to GPL11180 but a custom CDF environment was used to extract data. The custom CDF file (from Brainarray) is based on Entrez Gene. The custom CDF is linked below as a supplementary file.

relation: Alternative to: GPL11180 (Alternative CDF [official])

manufacture_protocol: See manufacturer's web site.


title: Phalanx Mouse miRNA OneArray Ver 5 (miRBase Release 19)

status: Public on Feb 21 2014

city: Hsinchu

first: Sandy

last: Lin

address: 6F, NO.6 Technology Road 5

department: Product Dept.

country: Taiwan

institute: Phalanx Biotech Inc

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


title: PfPv500 version1

status: Public on Feb 22 2014

city: Irvine

first: Elisabeth

last: Baum

state: CA

address: Med Surge II

institute: University of California Irvine

organism:
Plasmodium falciparum
Plasmodium vivax

technology: spotted peptide or protein

description: The arrays used in this study came from a commercially available source,  Antigen Discovery Inc. (Irvine, CA). It features 500 Plasmodium falciparum and 500 P. vivax ORFs spotted as in vitro rapid translation/transcription (IVTT) reactions, and some additional purified proteins, onto nitrocellulose-coated slides. Multiple spots consisting of reactions lacking plasmid templates ('no DNA' controls) are present on each array and used for data normalization. The array is called PfPv500 version1.

manufacture_protocol: Antigen Discovery Inc.


title: Phalanx Rat miRNA OneArray Ver 5 (miRBase Release 19)


title: 120828_Papaver_TU_exp

city: Çankırı

first: tugba

last: gurkok

address: Uluyazı

department: biology

country: Turkey

institute: Çankırı Karatekin University

organism: Papaver somniferum

description: 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.

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


title: Agilent-043253 Danio rerio miRNA array [miRNA version]

city: Ottawa

first: Paul

last: Craig

state: Ontario

address: 30 Marie Curie

department: Biology

country: Canada

institute: University of Ottawa

organism: Danio rerio

description:
Arrays of this design have barcodes that begin with 16043253 or 2543253.

The ID column represents the miRNA IDs.

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


title: Illumina HiSeq 2000 (Porphyromonas gingivalis ATCC 33277)

status: Public on Feb 20 2014

organism: Porphyromonas gingivalis ATCC 33277


title: Illumina HiSeq 2000 (Spirodela polyrhiza)

organism: Spirodela polyrhiza


title: human CNTNAP2 tiling array

status: Public on Feb 19 2014

city: Würzburg

first: Claus

middle: Juergen

last: Scholz

address: Josef-Schneider-Str. 2

department: Core Unit SysMed

country: Germany

institute: University Hospital Würzburg

description:
annotation corresponds to the UCSC hg19 genome sequence
High-resolution (13bp) tiling of the human CNTNAP2 gene plus 100 MB up- and downstream flanking regions

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


title: Illumina Genome Analyzer II (Callithrix jacchus)

organism: Callithrix jacchus


title: Illumina HiSeq 1000 (Streptococcus pneumoniae)

organism: Streptococcus pneumoniae


title: chimpanzee CNTNAP2 tiling array

organism: Pan troglodytes

description:
annotation corresponds to the UCSC panTro2 genome sequence
High-resolution (13bp) tiling of the chimpanzee CNTNAP2 gene plus 100 MB up- and downstream flanking regions


title: Agilent-024519 RBD_v3_244K_Hughes

city: Toronto

first: Zhaolei

last: Zhang

state: ONTARIO

address: 160 College St

department: Molecular Genetics, Computer Science

institute: University of Toronto

organism: synthetic construct

description: This custom microarray consists of probes representing two complete sets of all possible 10-base sequences. The probes on the array are made double-stranded, ssDNA are stripped from the array, and PCR-amplified to create a dsDNA pool. This DNA pool is then used as a template for in vitro T7 RNA polymerase-mediated RNA transcription to generate an RNA pool used for pull-down experiments using GST-tagged RNA binding proteins. The RNAs pulled-down by each RNA-binding protein are then labelled with a fluorophore and hybridized back onto the array, along with the total pool.

first: Debashish

last: Ray

first: Kathleen

last: Cook

first: Hilal

last: Kazan

first: Ally

last: Yang

first: Hong

last: Zheng

first: Matthew

middle: T

last: Weirauch

first: Mihai

last: Albu

first: Arun

middle: K

last: Ramani

first: Andrew

middle: G

last: Fraser

first: Quaid

middle: D

last: Morris

first: Timothy

middle: R

last: Hughes

manufacture_protocol: Please refer to the manufacturer's web site at http://www.agilent.com/


title: Targeted array-based proteomics DKFZ_BC_RPPA_JS

status: Public on Feb 18 2014

city: Heidelberg

first: Ulrike

last: Korf

address: Im Neuenheimer Feld 580

department: Molecular Genome Analysis

institute: German Cancer Research Center

description: spotted total protein from tissue (reverse phase protein array)

manufacturer: Division of Molecular Genome Analysis, B050, German Cancer Research Center

manufacture_protocol: Samples were printed on nitrocellulose-coated glass slides (Grace-Biolabs) using a solid-pin printer (Aushon 2470) equipped with 185 µm pins.


title: Agilent-023710 Daphnia magna (probe name version)

city: Montreal

first: Maeva

last: Giraudo

state: Quebec

address: 105 McGill street

department: Water Science and Technology Directorate

institute: Environment Canada

organism: Daphnia magna

description: The ID column represents the Agilent probe name. A related platform with Feature Extraction feature numbers in ID column is assigned accession number GPL15139.


title: UniversityPadova_Ruditapes philippinarum_8x60K (Feature Number version)

status: Public on Nov 05 2014

city: Legnaro

first: Massimo

last: Milan

state: PD

address: Viale dell'Università 16

department: Dept. of Department of Public Health, Comparative Pathology,and Veterinary Hygiene

country: Italy

institute: University of Padova

organism: Ruditapes decussatus

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


title: Agilent-021441 NCode Human Long Non-coding RNA microarray (Feature Number Version)

city: Sheffield

first: Stefan

last: Peter

address: Beech Hill Road

department: Oncology

country: United Kingdom

institute: The University of Sheffield

organism: Homo sapiens

description:
Based on hg18; NCBI36; Mar2006
NCode_Human_ncRNA_v1_021441_ncRNA_v1_human

manufacture_protocol: This array targets 17,112 putative long noncoding RNAs and 22,074 coding RNA transcripts. 60-mer probes were designed using Agilent's probe design system and printed using Agilent SurePrint technology. Spots re 65μM in site.


title: Operon OpArray - Mus Musculus - 38k v4.0

status: Public on Feb 15 2014

city: Rondebosch

first: Nicola

last: Illing

state: Western Cape

address: Chemistry Rd

department: Molecular and Cell Biology

country: South Africa

institute: University of Cape Town

manufacture_protocol: According to manufacturer


title: SABiosciences Human miRNome miRNA PCR Array [MAH-100C]

city: Chicago

first: Guofei

last: Zhou

state: IL

address: 840 S Wood St, ste 1206, MC856

department: Pediatrics

institute: University of Illinois at Chicago

description:
PCR assay
The Human Genome V2.0 (Set 1) 96-well RT2 miRNA PCR Arrays profile the expression of the 352 most abundantly expressed and best characterized miRNA sequences in the human miRNA genome (miRNome) as annotated by the Sanger miRBase Release 14. Catalog Number: MAH-100C. Including a replicate set of four different plates with the following labels in each package: MAH-001C: Human miFinder/Genome Plate1; MAH-002C: Human Genome Plate2; MAH-003C: Human Genome Plate3; MAH-004C: Human Genome Plate4.

manufacture_protocol: see manufacturer's website


title: Illumina HiSeq 2500 (Ostreococcus 'lucimarinus')

last: GEO

organism: Ostreococcus sp. 'lucimarinus'


title: Ion Torrent Proton (Eleusine coracana)

organism: Eleusine coracana


title: Agilent-041686 Unrestricted Human miRNA Microarray (miRNA ID version)

city: Palo Alto

last: Agilent Technologies

institute: Agilent Technologies

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


title: Illumina MiSeq (Dictyostelium discoideum)

organism: Dictyostelium discoideum


title: [AraGene-1_0-st] Arabidopsis Gene 1.0 ST Array [probe set (exon) version]

city: Santa Clara

last: Affymetrix

institute: Affymetrix, Inc.

organism: Arabidopsis thaliana

description:
#%create_date=Fri Mar 29 10:46:56 2013 PDT
#%chip_type=AraGene-1_0-st-v1
#%lib_set_name=AraGene-1_0-st
#%lib_set_version=v1
#%genome-version=tair10
#%genome-version-ucsc=tair10
#%genome-lifted-method=NONE
#%genome-lifted_from-version-ucsc=tair10
#%netaffx-annotation-date=2012-09-15
#%netaffx-annotation-netaffx-build=33
#%netaffx-annotation-data-type=probe_set

manufacture_protocol: See manufacturer's web site


title: Illumina HiSeq 2000 (Reaumuria soongarica)

organism: Reaumuria songarica


title: NimbleGen Horse CGH 3x1.4M Whole-Genome Tiling Array [121114_EquCab2_SW_CGH_UX3]

city: Hohhot

first: Wei

last: Wang

address: Inner Mongolia Hohhot City Saihan District Zhao Wuda road 306

country: China

institute: College of Life Sciences Chinese Inner Mongolia Agricultural University

organism: Equus caballus

description:
Format:3x1.4M
Source: NCBI
Build:Equus caballus EquCab2.0
Probe Length: 50-75mer
Median Probe Spacing: 1650 bp

manufacture_protocol: See www.nimblegen.com


title: Agilent-024673 ORC_ChIP-chip_4x180K Array

status: Public on Feb 13 2014

city: Minneapolis

first: Hung-Ji

last: Tsai

state: MN

address: 6-170 MCB, 420 Washington Ave. SE

institute: University of Minnesota

organism: Candida albicans


title: NimbleGen Homo sapiens custom 5C array

first: Josée

last: Dostie

state: QC

address: 3655 Promenade Sir-William-Osler

department: Biochemistry

institute: McGill University

description:
HG17
080327_5C_Human_HOX_Clusters.ndf
All required information contained in .ndf file, please see above


title: Illumina HiSeq 2500 (Pseudomonas aeruginosa)

organism: Pseudomonas aeruginosa


title: Illumina HiSeq 2000 (Phyllostachys edulis)

organism: Phyllostachys edulis


title: Illumina HiSeq 2000 (Yersinia pseudotuberculosis YPIII)

organism: Yersinia pseudotuberculosis YPIII


title: Agilent-023991 GT-PNU-Gmax-090519 (Probe Name version)

status: Public on Feb 12 2014

city: Seoul

first: Jung Min

last: Kim

address: Gangnam-gu Teheran-ro 216

department: Department of Health Genomics

institute: NAR Center, Inc. & Genoplan, Inc.

organism: Glycine max

description:
Arrays of this design have barcodes that begin with 16023991 or 2523991.

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 Human miRNA OneArray Ver 5 (miRBase Release 19)

city: Hsinchu

first: Sandy

last: Lin

institute: Phalanx Biotech Inc


title: Illumina HiSeq 2500 (Acinetobacter oleivorans DR1)

organism: Acinetobacter oleivorans DR1


title: Illumina Genome Analyzer IIx (Lonicera japonica)

organism: Lonicera japonica


title: Illumina HiSeq 2000 (Caulobacter crescentus NA1000)

status: Public on Feb 11 2014

organism: Caulobacter vibrioides NA1000


title: Illumina HumanHT-12 WG-DASL V4.0 R2 expression beadchip [gene symbol version]

city: Houston

first: Roel

last: Verhaak

state: TX

address: 1400 Pressler street

institute: UT MD Anderson Cancer Center

technology: oligonucleotide beads


title: NimbleGen Human 6x630K CGH Whole Genome tiling array [100710_HG19_WG_CGH_PERF_UX6]

city: Madison

first: Inc

last: Nimblegen Systems

state: WI

address: 504 S. Rosa Road

institute: NimbleGen Systems, Inc.

description: Build: HG19


title: Illumina HiSeq 2500 (Saccharomyces cerevisiae BY4741)

organism: Saccharomyces cerevisiae BY4741


title: CapitalBio human 22k v1.0

city: Jinan

first: Jing

last: Zhao

address: Shanda nan road 27#

institute: Shandong University

manufacture_protocol: as described in CapitalBio Corporation Manual


title: Targeted array-based proteomics DKFZ_BC_RPPA_JS_2

last: Korf


title: Applied Biosystems TaqMan Rodent MicroRNA Array A using the Megaplex™ RT Primers, Rodent Pool A

first: Ravi

last: Ranjan

address: 840 S Wood St

organism: Mus musculus

description:
FAM-based qPCR assay.
FAM-based real-time PCR-based microRNA microarray.

manufacture_protocol: See manufacturer's website.


title: PacBio RS II (Burkholderia pseudomallei)

organism: Burkholderia pseudomallei


title: MYcroarray Mycobacterium tuberculosis str. H37Rv and str. CDC1551 array

city: San Antonio

first: Deepak

last: Kaushal

address: 8715 W Military Dr

department: HPI

institute: Texas Biomedical Research Institute

organism:
Mycobacterium tuberculosis CDC1551
Mycobacterium tuberculosis H37Rv

manufacture_protocol:
In-situ synthesis of oligonucleotides on surface using the phosphoramidite chemistry
http://www.mycroarray.com/technology/index.html


title: Campylobacter jejuni Sheep abortion_IA3902_platform CUST-30K-110303

city: Ames

first: Zuo-Wei

last: Wu

state: IA

address: 1113 Veterinary Medicine Bldg

institute: Iowa state university

organism: Campylobacter jejuni

manufacture_protocol: see manufacturer's web site http://pfgrc.jcvi.org/index.php/microarray.html


title: Human Taqman miRNA array Card A v2.0

status: Public on Feb 14 2014

city: Turin

first: Gabriella

last: Gruden

address: C/so AM Dogliotti 14

department: Medical Science

institute: University of Turin

organism: Homo sapiens

description:
PCR assay: Human Array MicroRNA Card A v2.0
The human TaqMan® miRNA Array was used in conjunction with Megaplex™ RT Primers-predeﬁned pool A and a preampliﬁcation step using Megaplex™ PreAmp Primers was included


title: TIGR PFGRC Aspergillus nidulans version 2 array designated primarily based on strain FGSC A4

city: Warszawa

first: Marek

last: Skoneczny

email: kicia@ibb.waw.pl, mrksknc@gmail.com

address: Pawińskiego 5A

country: Poland

institute: Institute of Biochemistry and Biophysics PAS

organism: Aspergillus nidulans

description: Array design is exactly the same as the one described in platform GPL6443. However the annotations of approximately 1300 probes including those that had assmbl_XXXX as the target, were updated to reflect the status of A. nidulans sequencing project as of 2011-01-03. The GAL file with updated annotations is attached as raw data file.

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

manufacture_protocol: Arrayer GENETIX


title: MaviMtuba520731F Affymetrix Mycobacterium avium Genome Array

city: Muttenz

first: Laura

last: Sutter-Dick

state: Basel-Land

address: Hofackerstrasse 30

department: Institute of Chemistry and Bioanalytics

country: Switzerland

institute: FHNW

organism: Mycobacterium avium 104

manufacture_protocol: see manufacturer's web site


title: Illumina HiSeq 2000 (Bombus terrestris)

last: GEO

organism: Bombus terrestris


title: Illumina Genome Analyzer IIx (Laccaria bicolor; Populus trichocarpa)

status: Public on Feb 07 2014

organism:
Populus trichocarpa
Laccaria bicolor


title: KRIBB_Human_25K

city: Daejeon

first: Bu-Yeo

address: 1672 Yuseongdae-ro, Yuseong-gu

department: Herbal Medicine Research Division

institute: Korea Institute of Oriental Medicine

technology: spotted DNA/cDNA

manufacture_protocol: Microarray chips contain ~25,000 cDNA clones originated from 14 libraries of cancer cell lines, 1 of carcinoma, and 5 of nontumor tissues. The PCR products were spotted on glass slides using an Array Spotter Generation III. The detailed information about clones and manufacture protocols can be found at website of Korean Unigene Information (http://kugi.kribb.re.kr).


title: Custom Mycobacterium Expression Design OID39789

city: Notredame

first: prachi

last: singh

state: indiana

address: 130 Galvin

department: biological sciences

institute: university of notredame

organism: Mycobacterium tuberculosis

description: M.tb genome array from Nimblegen 120910_Mtub_AD_expr.ndf with probes for all 3999 mycobacterial genes

manufacture_protocol: Whole M.tb H37Rv genome gene expression array


title: Illumina Genome Analyzer IIx (Bacillus amyloliquefaciens)

organism: Bacillus amyloliquefaciens


title: Illumina Genome Analyzer IIx (Pseudomonas aeruginosa)

organism: Pseudomonas aeruginosa


title: [MoEx-1_0-st] Affymetrix Mouse Exon 1.0 ST Array [xmapcore Ensembl mouse version 62]

city: Berlin

first: Nils

last: Blüthgen

address: Chariteplatz 1

department: Institute of Pathology

institute: Charite Universitätsmedizin Berlin

description:
xmapcore database for Ensembl mouse version 62 (http://annmap.picr.man.ac.uk/download/).

Attached supplementary file (GPL16682_table_map_probeset_ensg.txt) is used to assign the probes that map to consensus exons, i.e. exons that are contained in the majority of transcripts. This file was generated using xmapcore.

relation: Alternative to: GPL6096 (Alternative CDF [official])


title: Illumina HiSeq 2000 (Zymoseptoria tritici)

organism: Zymoseptoria tritici


title: Illumina Genome Analyzer (Caulobacter crescentus NA1000)


title: [RaGene-1_0-st] Affymetrix Rat Gene 1.0 ST Array [transcript (gene) version] [CDF: Brainarray ENTREZG Version 14]

status: Public on Feb 06 2014

city: Mannheim

first: Carsten

last: Sticht

address: Theodor-Kutzer-Ufer

department: ZMF

institute: University Heidelberg

organism: Rattus norvegicus

description: [RaGene10stv1_Rn_ENTREZG_V14] Affymetrix GeneChip RaGene10stv1 Array [Brainarray Entrez Version 14]

relation: Alternative to: GPL6247 (Alternative CDF [official])

manufacture_protocol:
This is identical to GPL6247 but a custom CDF environment was used to extract data [Brainarray Version 14, RaGene10stv1_Rn_ENTREZG].
CDF and other files can be downloaded at:
http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/CDF_download.asp#v14


title: Illumina HiSeq 2000 (Junonia coenia)

status: Public on Feb 10 2014

organism: Junonia coenia


title: Illumina Genome Analyzer II (Junonia coenia)


title: ZeptoMARK assay platform

city: Basel

first: Jonathan

last: Moggs

address: Fabrikstrasse 2

institute: Novartis

description: protein or protein modifications


title: Illumina HiSeq 2000 (Tribolium castaneum)

status: Public on Feb 05 2014

organism: Tribolium castaneum


title: Illumina Genome Analyzer IIx (Laccaria bicolor)

organism: Laccaria bicolor


title: Agilent-032491 3D7v7.1_transcriptome [ORF version]

city: Bethesda

first: GEO

last: admin

state: MD

address: 9000 Rockville Pike

institute: NCBI/NLM/NIH

organism: Plasmodium falciparum

description: The ID column represents the ORF.

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


title: NimbleGen Ustilago maydis Custom Expression Array [2007-02-19_Gold_TI5270_60mer]

status: Public on Feb 04 2014

city: ATHENS

first: Scott

middle: E

last: Gold

state: GA

address: 950 COLLEGE STATION RD

department: Toxicology and Mycotoxin Research

institute: USDA ARS

organism: Mycosarcoma maydis

description:
DESIGN_ID: 5266
DESIGN_NAME: 2007-02-19_Gold_TI5270_60mer
Expression design for Ustilago maydis (Taxonomy Id: 5270) covering . Probes selected for 6866/6866 sequences. Median number of probes/sequence is 14 with an average of 14.00. Each probe will be replicated 4 times on the chip. Probes are randomly distributed over the surface of the array. Unused features have been filled with randomly generated probes of comparable GC content.
Each U. maydis gene was probed using 14 different probes spread throghout a gene. This was replicated in four blocks. Averages were taken from 14 probes and reported as expression value.

manufacture_protocol: see manufacturer's web site http://www.nimblegen.com/index.html


title: Applied Biosystems Human TaqMan Low Density Array (TLDA)

status: Public on Feb 08 2014

city: New York

last: Shen

address: 650 W. 168th St. Black Building Rm.1608

institute: Columbia University

description:
4444913
TaqMan® Array Human MicroRNA A+B Cards Set v3.0

manufacture_protocol: TaqMan


title: Exiqon LNA probes version 10 microRNA array

city: Rotterdam

first: Erik

last: Wiemer

address: Wytemaweg 80

department: Medical Oncology

institute: Erasmus University Medical Center

description: In house printed microRNA locked nucleic acid (LNA™) modified oligonucleotide capture probes (Exiqon) spotted in duplicate on Nexterion E slides. The capture probe set is based on miRBase version 10, annotation version 13.

manufacturer: Center for Biomics, Erasmus MC, Rotterdam

manufacture_protocol: The LNA-based capture probeset (Exiqon version 10,) was spotted on Nexterion E slides using a Virtek Chipwriter Pro


title: Illumina Custom VeraCode GoldenGate Methylation Assay (GGMA) microarray

city: Boston

first: William

middle: P

last: Accomando

state: MA

address: Kresge Bldg 911, 677 Huntington Ave

department: Epidemiology

institute: Harvard School of Public Health

manufacture_protocol: See manufacturer's website


title: Arabidopsis Chr4 NimbleGen Tiling Array

status: Public on Feb 03 2014

city: Raleigh

first: Pete

last: Pascuzzi

state: NC

address: 851 Main Campus Drive

institute: North Carolina State University

organism: Arabidopsis thaliana

description:
TAIR5
Probes are grouped into 6 regions based on euchromatin content. Custom positive and negative controls and mismatch probes included.
at_chr4_ng_v5.ndf
at_chr4_ng_v5.pos
at_chr4_ng.txt

manufacture_protocol: Isothermal probes at 100 bp mean probe resolution present in duplicate.


title: [Axiom_GW_Bos_SNP_1] Affymetrix Axiom Genome-Wide BOS 1 Array Plate

city: Santa Clara

last: Affymetrix

state: CA

institute: Affymetrix, Inc.

organism: Bos taurus

description:
##For information about the Annotation file content, please see the bundled README file.
#%create_date=2013-08-28 GMT-08:00 18:04:24
#%chip_type=Axiom_GW_Bos_SNP_1
#%genome-species=Bos taurus
#%genome-version=bosTau6
#%genome-version-ucsc=bosTau6
#%genome-version-ncbi=6.1
#%genome-version-create_date=2009-11-00
#%dbSNP-date=2013-07-23
#%dbSNP-version=138
#%hapmap-date=NA
#%hapmap-version=NA
#%netaffx-annotation-date=2013-07-01
#%netaffx-annotation-netaffx-build=34


title: Nimblegen human microbiome HuMiChip V1.0

city: Norman

first: Qichao

last: Tu

state: OK

address: 101 David L Boren Blvd

institute: University of Oklahoma

organism: human metagenome

manufacture_protocol:
see manufacturer's web site www.nimblegen.com
Microbial ecological functional gene array targeting 139 gene families that play important roles in various pathways


title: NimbleGen Ustilago maydis Custom Expression Array [080805_UM_SG_EXP]

description:
DESIGN_ID: 8036
DESIGN_NAME: 080805_UM_SG_EXP
Each U. maydis gene was probed using 10 different probes spread throghout a gene. Averages were taken from 10 probes and reported as expression value.


title: [Mouse4302_Mm_EntrezG] Affymetrix GeneChip Mouse Genome 430 2.0 Array [Brainarray Version 17.1.0]

organism: Mus musculus

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

manufacture_protocol: This is identical to GPL1261 but a custom CDF environment was used to extract data [Brainarray Version 17, Mouse4302_Mm_ENTREZG_17.1.0].


title: TaqMan® Array Mouse Immune Panel

city: Manchester

first: Dominic

middle: Graham

last: Rothwell

state: Manchester

address: Wilmslow Road

department: CEP

institute: University of Manchester

description: 383-well TaqMan Low Density Array (TLDA)

manufacture_protocol: see manufacturer's website


title: NimbleGen Mouse Meth 2.1M Deluxe Promoter Array Ver. 2 [100929_MM9_Deluxe_Prom_Meth_HX1]

city: Madison

first: Inc

last: Nimblegen Systems

address: 504 S. Rosa Road

institute: NimbleGen Systems, Inc.

description: Annotation in this record based on NCBI mouse build 37.

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


title: Illumina HiSeq 2000 (Rehmannia glutinosa)

organism: Rehmannia glutinosa


title: Applied Biosystems Human MicroRNA Cards (A+B Cards)

city: Nanjing

first: Zhen

last: Zhou

state: Jiangsu

address: 22th,Hankou Road

department: School of Lifesciences

institute: Nanjing University

organism: Homo sapiens

description:
PCR assay
Two array card-set ('Array Card Human A v2.1' and 'Array Card Human B v3.0'  )


title: IBMT Klebsiella pneumoniae full-length 14 immunogenicity [1 of 2]

status: Public on Feb 02 2014

city: Potsdam

first: Sebastian

last: Hoppe

address: Am Mühlenberg 13

department: Bioanalytics and Biosensorics

institute: Fraunhofer Institute for Cell Therapy and Immunology

organism: Klebsiella pneumoniae

description:
overexpressing E.coli (Acella)
spotted fusion protein
HaloTag-fusion proteins derived from Klebsiella pneumoniae cDNA and expressed in Acella E.coli overexpression strains.

manufacturer: platform Halolink Arrays (Promega), spotting performed at IBMT

manufacture_protocol: Spotting was performed with a Qarray2 (Genetix)


title: Illumina Genome Analyzer (Tachysurus fulvidraco)

last: GEO

organism: Tachysurus fulvidraco


title: Affymetrix GeneChip Human Genome U133 Array Set HG-U133A based on a custom CDF (GeneAnnot version 2.1.0)

city: Padova

first: Silvio

last: Bicciato

address: via U. Bassi 59/b

department: Molecular Medicine

institute: University of Padova

description: Affymetrix HG-U133A microarrays analysed with custom chip definition files based on the GeneAnnot database.  For further information, see Ferrari F, Bortoluzzi S, Coppe A, Sirota A, Safran M, Shmoish M, Ferrari S, Lancet D, Danieli GA, Bicciato S.: Novel definition files for human GeneChips based on GeneAnnot. BMC Bioinformatics. 2007 Nov 15;8(1):446  We used Version 2.1.0 of custom CDF files and R packages based on GeneAnnot version 1.9 and GeneCards version 2.41, available online at http://www.xlab.unimo.it/GA_CDF/


title: IBMT Klebsiella pneumoniae full-length 14 immunogenicity [2 of 2]


title: AB SOLiD 4 System (Candida albicans)

organism: Candida albicans


title: [MOE430A_Mm_ENTREZG] Affymetrix Mouse Expression 430A Array [Brainarray Version 14.0.0]

relation: Alternative to: GPL339 (Alternative CDF [official])

manufacture_protocol: This is identical to GPL339 but a custom CDF environment was used to extract data [Brainarray Version 14, MOE430A_Mm_ENTREZG_14.0.0].


title: Illumina Genome Analyzer IIx (Rhodobacter sphaeroides 2.4.1)

organism: Cereibacter sphaeroides 2.4.1


title: IBMT Kpneumoniae 1.5k screening [1 of 4]


title: IBMT Campylobacter jejuni epitope mapping [set2]

organism: Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819

manufacture_protocol: Pepstar peptide microarrays (JPT)


title: IBMT Campylobacter jejuni epitope mapping [set1]


title: IBMT Kpneumoniae 1.5k screening [3 of 4]


title: IBMT Kpneumoniae 1.5k screening [2 of 4]


title: IBMT Kpneumoniae 1.5k screening [4 of 4]


title: Illumina Human1M-Duov3 DNA Analysis BeadChip [Human1M-Duov3_H]

description:
over one million markers to interrogate human genetic variation using single nucleotide polymorphisms (SNPs) and copy number variation (CNV) probes

GenomeBuild37/SnpBuild132


title: [Axiom_GW_EUR] Affymetrix Axiom Genome-Wide EUR 1 Array Plate

status: Public on Nov 22 2013

description:
##For information about the Annotation file content, please see the bundled README file.
#%create_date=2013-09-12 GMT-08:00 09:12:32
#%chip_type=Axiom_KP_UCSF_EUR
#%genome-species=Homo sapiens
#%genome-version=hg19
#%genome-version-ucsc=hg19
#%genome-version-ncbi=37
#%genome-version-create_date=2009-02-00
#%mitochondrion-version=NC_001807
#%dbSNP-date=2012-06-26
#%dbSNP-version=137
#%hapmap-date=2008-01-08
#%hapmap-version=23
#%omim-date=2013-07-09
#%allele_frequency_data_reference=1KGp1_mar2012
#%netaffx-annotation-date=2013-07-01
#%netaffx-annotation-netaffx-build=34
#%netaffx-annotation-tabular-format-version=1.5

manufacture_protocol: see manufacturer's web site


title: Agilent-030589 Enchytraeus albidus Gene Expression Array 8x15k [Probe Name version]

status: Public on Feb 01 2014

city: Aveiro

first: Sara

last: Novais

address: Campus de Santiago, Department of Biology, University of Aveiro

department: Biology

country: Portugal

institute: CESAM & University of Aveiro

organism: Enchytraeus albidus

description:
Probe Name version of GPL14928
E.albidus_1035probes_SSHmet+SSHpest+norm
Arrays of this design have barcodes that begin with 16030589 or 2530589.


title: Agilent-025950 Clavispora lusitaniae Array

city: Providence

first: Christine

last: Scaduto

state: RI

address: 171 Meeting Street

department: Molecular Microbiology and Immunology

institute: Brown University

organism: Clavispora lusitaniae ATCC 42720


title: NanoString nCounter Macaque Inflammatory Genes GAMA CodeSet [Gene Symbol version]

city: Baltimore

first: Lucio

last: Gama

state: MD - EUA

address: 733 N Broadway St - BRB 831

department: Molecular and Comparative Pathobiology

institute: Johns Hopkins School of Medicine

organism: Macaca nemestrina

technology: other

description: The ID column includes Gene Symbol. A different version of this platform is assigned accession number GPL13234


title: UIC-Hu-SBP-AG v1.0

city: Chicago

first: Gye Young

last: Park

state: IL

address: 840 S. Wood St

department: Medicine, Pulmonary

institute: University of Illinois at Chicago


title: Exiqon human miRCURY LNA™ microRNA Array V11.0

status: Public on Jan 01 2012

city: Xi'an

first: Hai-Qiang

last: Wang

email: hqwang@sntcm.edu.cn, drwanghq@163.com

address: Xixian Avenue, Xixian District

department: Insititute of Integrative Medicine

institute: Shaanxi University of Chinese Medicine

manufacture_protocol: See manufacturer website (http://www.exiqon.com/microrna-microarray-analysis-microrna-array#a3).


title: Agilent-039425 Folsomia V5.1

city: Amsterdam

first: Tjalf

last: de Boer

address: Science Park 406

institute: MicroLife Solutions

organism: Folsomia candida

description:
Folsomia candida 74K+ expression array with all probes in the right direction

Arrays of this design have barcodes that begin with 16039425 or 2539425.

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-016333 Gene Expression Saccharomyces cerevisiae 8x15k array AMADID: 016333 (Feature Number version)

status: Public on Sep 02 2011

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

relation:
Alternative to: GPL15198
Alternative to: GPL18329


title: Print_557

status: Public on Jan 20 2008

city: Stanford

first: Jonathan

last: Pollack

address: 269 Campus Drive, CCSR3245A

department: Pathology

institute: Stanford University

description: SHBU

manufacturer: Stanford Functional Genomics Facility,  Stanford School of Medicine

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


title: Sigma Genosys Panorama Bacillus subtilis Gene Array

status: Public on Oct 09 2008

city: Ithaca

first: John

middle: D.

last: Helmann

state: NY

address: 372 Wing Hall

department: Microbiology

institute: Cornell University

organism: Bacillus subtilis

description: The panorama Bacillus subtilis Gene Array contains 4107 PCR-amplified ORFs, representing all of the protein-encoding genes, spotted in duplicate.


title: Agilent-048534 Rhesus 60k version of 44k 026806 [Feature Number version]

city: Seattle

first: Michael

last: Katze

state: WA

address: Rosen Building 960 Republican St.

institute: University of Washington

organism: Macaca mulatta

description:
Rhesus 60k version of 44k 026806 which is v2 of monkey array.
Arrays of this design have barcodes that begin with 16048534 or 2548534.
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-022297 Wheat Gene Expression Microarray (Probe Name version)

status: Public on May 23 2011

city: Palo Alto

last: Agilent Technologies

institute: Agilent Technologies

organism: Triticum aestivum

description: *** The ID column includes the Agilent Probe Names. A different version of this platform with the Agilent Feature Extraction feature numbers in the ID column is assigned accession number GPL13627.


title: Homo sapiens 43K Print_769

description: SHDI


title: TaqMan® Array Human MicroRNA A Cards v2.0 (catalog# 4398965)

city: Salamanca

first: Beatriz

middle: Roson

last: Burgo

address: Campus Miguel de Unamuno

department: Cancer Research Centre

institute: Consejo Superior de Investigaciones Científicas & Universidad de Salamanca

description: The TaqMan® Array Human MicroRNA A Card v2.0 contains 384 TaqMan® MicroRNA Assays enabling accurate quantitation of 377 human microRNAs in as little as 5 hours. Three TaqMan MicroRNA Assay endogenous controls are included to aid in data normalization and one TaqMan® MicroRNA Assay not related to human is included as a negative control. Details on the included assays is available in the Target List file. Purchase of the Megaplex™ RT Primers, Human Pool A v2.1 is required to run this array. An additional preamplification step is enabled by Megaplex™ PreAmp Primers, Human Pool A v2.1 for situations where sensitivity is of the utmost importance and⁄or sample is limiting.


title: Agilent-021791 D. melanogaster (FruitFly) Oligo Microarray - V2 (Feature Number version)

status: Public on Apr 26 2013

organism: Drosophila melanogaster

description:
D. melanogaster (FruitFly) Oligo Microarray 4x44K - V2

Arrays of this design have barcodes that begin with 16021791 or 2521791.

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-048534 Rhesus 60k version of 44k 026806 [Probe Name version]

description: Rhesus 60k version of 44k 026806 which is v2 of monkey array.

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


title: Illumina HumanWG-6 v2.0 expression beadchip

status: Public on Apr 06 2011

city: San Diego

last: Illumina Inc.

address: 9885 Towne Centre Drive

institute: Illumina Inc.

description:
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

HumanWG-6_V2_0_R4_11223189_A.txt


title: HumanOmniExpress BeadChip

status: Public on Feb 08 2011

city: Bethesda

first: GEO

last: admin

address: 9000 Rockville Pike

institute: NCBI/NLM/NIH


title: [SNOWBALLs520824F] Affymetrix Porcine Snowball Array

status: Public on Feb 14 2013

city: München

first: Lynsey

last: Fairbairn

address: Troger str. 1

institute: Technical University Munich

organism: Sus scrofa


title: Agilent-016333 Saccharomyces cerevisiae 8x15k Expression Array AMADID: 016333 (Probe based)

status: Public on Feb 09 2012

first: Raja

last: Mugasimangalam

relation:
Alternative to: GPL14009
Alternative to: GPL18329


title: Illumina CanineHD BeadChip

status: Public on Jul 31 2013

city: seoul

first: SeungHyun

last: Jung

state: seoul

address: catholic university, medical college, banpo-dong

department: Department of Biochemistry

institute: Catholic University of Korea

organism: Canis lupus familiaris

description: #Catalog number = WG-440-1001