title: Agilent TALE_v3

status: Public on Jun 10 2015

city: Boston

first: Julia

middle: M

last: Rogers

state: Massachusetts

address: 45 Shattuck Street

department: BCMP

country: USA

institute: Harvard Medical School

organism: synthetic construct

technology: in situ oligonucleotide

distribution: custom-commercial

manufacture_protocol: In situ oligosynthesized array with synthetic sequences containing the following classes of probes: (1) TALE binding sites for 24 TALE proteins with mono- or di- nucleotide substitutions in constant flanking sequence, in both orientations (2) TALE binding sites for 24 TALE proteins in flanking sequences with differing G/C content (3) TALE binding sites for 24 TALE proteins in constant flanking sequence, located at different positions within the probe sequence, in both orientations (4) 200 randomly generated negative control probes with at least four mismatches from any TALE target site. AMADID 043197.


title: Bacillus cereus ATCC 14579 - design 3

status: Public on Jul 27 2015

city: Ede

first: Jos

last: Boekhorst

address: Kernhemseweg 2

country: Netherlands

institute: NIZO food research

organism: Bacillus cereus ATCC 14579

manufacture_protocol:
Agilent manufacture protocol.
Agilent uses its inkjet technology to print oligos onto glass slides.


title: Agilent-045101 final09112012 045098

status: Public on Sep 16 2015

city: Pittsburgh

first: Gregory

last: Cary

state: PA

address: 4400 Fifth Ave

department: Biological Sciences

institute: Carnegie Mellon University

organism: Saccharomyces cerevisiae

description:
Arrays of this design have barcodes that begin with 16045101 or 2545101.

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.

distribution: commercial

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


status: Public on Apr 20 2016

city: Lørenskog

first: Anne

middle: Hansen

last: Ree

address: Sykehusveien 25

department: Division of Medicine - Oncology

country: Norway

institute: Akershus University Hospital

organism: Homo sapiens

technology: antibody

description:
RayBio L-Series Human Antibody Array 507 Glass
Array consists of 507 human target proteins printed in duplicate. Each slide has two arrays, i.e two hybridizations per chip. See manual for more http://www.raybiotech.com/files/manual/Antibody-Array/AAH-BLG-1.pdf

manufacture_protocol: See manufacturer's website, http://www.raybiotech.com/l-series-507-label-based-human-array-1-glass-slide-2.html


title: Custom PEPperCHIP Peptide Microarray

status: Public on Feb 28 2015

city: Birmingham

first: Jennie

last: Hamilton

state: AL

address: 1825 University Blvd.

department: Department of Medicine, Division of Clinical Immunology and Rheumatology

institute: University of Alabama Birmingham

technology: spotted peptide or protein

description: Laser printer spotted peptides (peptide autoantigens).

manufacture_protocol: Amino acid microparticles are laser printed onto a glass slide with a custom 24-color laser printer.  One layer of an amino acid particle pattern is printed on a coated glass slide. A heating step melts the particles.  Embedded amino acids can couple to the chip surface.  In accordance with solid phase Fmoc chemistry, a cycle of synthesis is completed after removal of excessive material by washing and cleavage of the N-terminal Fmoc protection group. The cycle is repeated until the full peptide microarray is synthesized.


title: PEPperCHIP Autoimmunity Microarray

organism:
Klebsiella pneumoniae
Proteus mirabilis
Mycobacterium tuberculosis
Homo sapiens
Human alphaherpesvirus 2
human gammaherpesvirus 4
Caprine arthritis encephalitis virus
Human endogenous retrovirus K
Torque teno virus

description:
Laser printer spotted peptides
All source information for each peptide is available on the Immune Epitope Database (http://www.iedb.org/).


title: Agilent-021827 Human miRNA Microarray [miRNA_105_Dec08]

status: Public on May 31 2015

city: Kyoto

first: Kenichi

last: Koga

address: 54 Syogoin Kawahara-cho

department: Department of Nephrology, Kyoto University Graduate School of Medicine

country: Japan

institute: Kyoto University

description: Table corresponds to miRNA_105_Dec08feature extraction file.


title: TaqMan® Rodent miRNA Card B v3.0

status: Public on Feb 21 2015

city: Osaka

first: Kosuke

last: Endo

address: 5-7-1 Fujishirodai, Suita

department: Dept. of Genomic Medicine

institute: National Cerebral and Cardiovascular Center

organism:
Mus musculus
Rattus norvegicus

technology: RT-PCR

distribution: virtual


title: Agilent TALE_v2b


title: PEPperCHIP Autoimmunity Microarray 2.0

organism:
Helicobacter pylori
Escherichia coli
Klebsiella pneumoniae
Proteus mirabilis
Shigella flexneri
Yersinia enterocolitica
Haemophilus influenzae
Chlamydia trachomatis
Porphyromonas gingivalis
Staphylococcus aureus
Streptococcus pyogenes
Lactobacillus delbrueckii subsp. bulgaricus
Mycobacterium avium
Mycobacterium tuberculosis variant bovis
Mycobacterium avium subsp. paratuberculosis
Mycobacterium tuberculosis
Mycobacterium gordonae
Trypanosoma cruzi
Homo sapiens
Mus musculus
Human alphaherpesvirus 1
Human alphaherpesvirus 2
Human betaherpesvirus 5
Human betaherpesvirus 6
human gammaherpesvirus 4
Human herpesvirus 4 strain B95-8
Hepatitis C virus isolate HC-J6
Human immunodeficiency virus 1
Human T-cell leukemia virus type I
Human T-cell lymphotrophic virus type 1 (isolate MT-2)
Coxsackievirus A9
Coxsackievirus B4
Human herpesvirus 4 type 2
Human adenovirus 12
Human herpesvirus 4 type 1
Coxsackievirus A20
Human endogenous retrovirus K
Human Endogenous Retrovirus IDDMK1,2-22
Torque teno virus
Chlamydia pneumoniae
Prochlorococcus marinus str. MIT 9202
Human rotavirus MP409
Coxsackievirus B4 (strain E2)
Paraburkholderia fungorum
Porphyromonas gingivalis W83
Mycobacterium avium subsp. paratuberculosis K-10
Human poliovirus 3 strain Sabin
Staphylococcus aureus A9635
Betapolyomavirus macacae
Hepacivirus hominis

description: Laser printer spotted peptides


title: NimbleGen Mus musculus 140K

status: Public on Feb 20 2015

city: Maebashi showa-machi

first: Kenji

last: Ito

department: Graduate school pf medicine

institute: Gunma university

organism: Mus musculus

description:
Annotation in this record based on NCBI37/ mm9
The customized NimbleGen array consists of 1.4 million probes with a length of 50-70mer covering as many fragments as possible with BglII and NlaIII sites on the 5' and 3' ends.

manufacture_protocol: see manufacturer's website


title: SYSUCC human 440 SNPs around D4S2964

city: Guangzhou

first: Guo-liang

last: Huang

address: 651 Dongfeng East Road

department: Cancer Center

country: China

institute: Sun Yat-Sen University

technology: spotted oligonucleotide

distribution: non-commercial

manufacture_protocol:
One volume of probe was mixed with 4 vol of microarray printingsolution,EZ'nBrite (distributed by GenBase Biosciences Corp.),for a final concentration of 40μM for each probe in the wells of the 384-well plates.
Probes were then spotted onto the washed glass slides by using the microarray spotter, a SmartArrayTM-136 printer (CapitalBio Inc., Beijing,China), under a humidity of 50% to 55% and temperature of 22℃ to 25℃.


title: Illumina HiSeq 2500 (Fusarium verticillioides)

status: Public on Feb 18 2015

last: GEO

organism: Fusarium verticillioides

technology: high-throughput sequencing


title: [HuGene-1_0-st-v1] Affymetrix Human Gene 1.1 ST Array [HuGene10stv1_Hs_ENSG, v.14.1.0]

status: Public on Feb 27 2015

city: Bethesda

first: GEO

last: admin

state: MD

address: 9000 Rockville Pike

institute: NCBI/NLM/NIH

description: Probe set data extracted from custom CDF (HuGene10stv1_Hs_ENSG, v.14.1.0). See below web link for CDF and other related files.

manufacture_protocol: See manufacturer's web site


title: illumina HiSeq 2000 (Mus musculus)

status: Public on Feb 24 2015


title: NSB POSTECH DPS Mouse phosphokinase antibody array

city: Mainz

first: Hyobin

last: Jeong

state: Germany

address: Richard shirrmann Str 12.

country: Germany

institute: IMB

description: Dendron-coated phosphokinase antibody array (DPA) with 88 spots of mouse antibodies.

manufacture_protocol: Dendron-modified glass slides (NSB27 NHS Slide) were preparedby using a standard (1 x 3) glass slide (Schott NEXTERION Glass B, ultrasonically cleaned, #1055132).). The slides were purchased (NSB POSTECH, Korea) and used for the phosphokinase antibody array. Antibodies in a printing buffer (0.01%BSA, 0.01% Tween 20, 0.5% glycerol in 1X PBS buffer (pH 8.5)) were spotted on the NHS-activated NSB27 slides by Genetix QArray-Mini microarray spotter. After the printing, the printed slides were incubated in a 70~85% humidified chamber for 5~12 hrs and then washed in 1XPBST (Sigma P3563-10PAK) and subsequently in 1X PBS (Sigma P4417-100TAB). Any chance of the printed slides getting dried in the process of washing was avoided.


title: Illumina HiSeq 2000 (Pseudomonas putida BIRD-1)

status: Public on Feb 23 2015

organism: Pseudomonas putida BIRD-1


title: Illumina Genome Analyzer IIx (Oncorhynchus mykiss)

status: Public on Feb 17 2015

organism: Oncorhynchus mykiss


title: AB 5500 Genetic Analyzer (Plasmodium berghei ANKA)

organism: Plasmodium berghei ANKA


title: Agilent-046808 Mm CGH TL-Focus 2013 BLYTH [Probe Name Version]

status: Public on Mar 03 2015

city: Inage-ku

first: Benjamin

middle: John

last: Blyth

state: Chiba

address: 4-9-1 Anagawa

department: Centre for Radiation Protection

institute: National Institute of Radiological Sciences

description:
Genomic tiling plus high density coverage of key TL loci.

Arrays of this design have barcodes that begin with 16046808 or 2546808.

relation: Alternative to: GPL19183 (Feature Number Version)


title: Illumina MiSeq (Sporomusa ovata DSM 2662)

organism: Sporomusa ovata DSM 2662


title: Agilent-029929 Genotypic M.smegmatis WG GXP Microarray V1 029913

city: Saint John

first: Haoxin

last: Li

state: New Brunswick

address: 100 Tucker Park Road

department: Biology

country: Canada

institute: University of New Brunswick

organism: Mycolicibacterium smegmatis MC2 155

description:
Organism: Mycobacterium smegmatis str. MC2 155, Sequence Source: NCBI. On an avg. 1 probe per transcript. Transcripts for which no target specific probes could be designed have been excluded from the array.
Arrays of this design have barcodes that begin with 16029929 or 2529929.
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-031544 Custom Plasmodium berghei str. ANKA array [PBANKA1; Probe Name version]

city: tsu

first: masao

last: yuda

state: mie

address: edobashi 2-174

institute: mie university

description:
Arrays of this design have barcodes that begin with 16031544 or 2531544.

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 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.

relation: Alternative to: GPL15092 (Feature Number version)


title: [ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array [Custom CDF: Lepidium_LsRNA_FDRp01_ANOVA_Probes_Keep_3probe]

city: Sutton Bonington

first: Simon

middle: Peter

last: Pearce

state: Leicestershire

address: Sutton Bonington Campus

department: Plant and Crop Sciences

country: United Kingdom

institute: University of Nottingham

organism: Arabidopsis thaliana

description: Based on the v14.0.0 Arabidopsis CustomCDF from http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF but processed with a novel cross-species masking technique involving taking an ANOVA for each probe to determine whether it is registering signal or noise

manufacture_protocol: see manufacturer's web site


title: Illumina HiSeq 2000 (Sus scrofa domesticus)

organism: Sus scrofa domesticus


title: Illumina HiSeq 2000 (Streptococcus mutans UA159)

organism: Streptococcus mutans UA159


title: TaqMan® Mouse MicroRNA Assay set

city: Pamplona

first: Xabier

last: Agirre

state: Navarra

address: Pio XII, 55

department: Oncology

country: Spain

institute: CIMA

description:
Stemloop qPCR assay
miRNA Panel


title: Illumina HiSeq 2000 ([Clostridium] termitidis CT1112)

organism: Ruminiclostridium cellobioparum subsp. termitidis CT1112


title: hoi SMD Print_1307 Homo sapiens

city: Zurich

first: Michal

last: Rajski

address: Winterthurerstrasse 190

department: Institute of Physiology

country: Switzerland

institute: University of Zurich

technology: spotted DNA/cDNA

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: Agilent-042836 Human CGH Microarray (Feature Number version)

city: Hannover

first: Doris

middle: Johanna

last: Steinemann

department: Institute of Human Genetics

institute: Hannover Medical School

description:
ercc6+8 high resolution 3/1000bp

Arrays of this design have barcodes that begin with 16042836 or 2542836.

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-031525 rats on cocaine

city: Montreal

first: Moshe

last: Szyf

state: Quebec

address: McIntyre Medical Building, 3655 Promenade Sir William Osler, Room 1309

department: Pharmacology

institute: McGill University

organism: Rattus norvegicus

description:
Arrays of this design have barcodes that begin with 16031525 or 2531525.

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 HiSeq 2000 (Mus musculus; Toxoplasma gondii RH)

organism:
Mus musculus
Toxoplasma gondii RH


title: Illumina HiSeq 2500 (Ammopiptanthus mongolicus)

status: Public on Feb 19 2015

organism: Ammopiptanthus mongolicus


title: Illumina HiScanSQ (Drosophila melanogaster)

organism: Drosophila melanogaster


title: Qiagen Mouse Ubiquitylation Pathway RT2 profiler PCR array (PAMM-079A)

first: Qing-Ping

last: Zeng

address: No. 12, Airport Rd.

department: Tropical Medicine Institute

institute: Guangzhou University of Chinese Medicine

description: PCR assay


title: Illumina HiSeq 2000 (Hordeum vulgare subsp. vulgare)

organism: Hordeum vulgare subsp. vulgare


title: Agilent-062647 INP_039494_Human_GE_v2_8x60K 039494

status: Public on Feb 13 2015

city: Greifswald

first: Anke

last: Schmidt

state: MV

address: Felix-Hausdorff-Str. 2

department: Plasma Life Science

institute: INP Greifswald

organism: Homo sapiens

description:
SurePrint G3 Human GE v2 8x60K Microarray

Arrays of this design have barcodes that begin with 16062647 or 2562647.

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-026819 Halo_30bp_span_genome

city: Durham

first: Amy

middle: K

last: Schmid

state: NC

address: 125 Science Dr.

institute: Duke University

organism: Halobacterium salinarum NRC-1

description:
Schmid lab - Halobacterium ChIP-chip tiling array

Arrays of this design have barcodes that begin with 16026819 or 2526819.

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 HiSeq 2500 (Vibrio parahaemolyticus)

organism: Vibrio parahaemolyticus


title: Agilent-018964 NIAS Designed Custom Agilent Bovine 15K Oligo DNA Microarray (Probe name version)

city: Morioka

first: Keiichiro

last: Kizaki

state: Iwate

department: Vet. Med.

institute: Iwate University

organism: Bos taurus

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


title: Agilent-054270 8x60K_O.sativa_ssp_Indica_exp-val_07-2013 054269 (Feature number version)

city: Hennigsdorf

first: Martina

last: Schad

address: Neuendorfstrasse 16b

institute: OakLabs GmbH

organism: Oryza sativa Indica Group

description: The provided SEQUENCE is only a subset of at least 30 nucleotides of the sequence in the design (this is a kind of copy protection).


title: Agilent-049286 Ath_8x60K_exp_validated_OakLabs_05-2013 048923 (Feature number version)


title: Agilent-054269 8x60K_O.sativa_ssp_Japonica_exp-val_07-2013 (Feature number version)

organism: Oryza sativa Japonica Group


title: Agilent-027954 SurePrint G3 Human Promoter Microarray 2x400K [Probe Name version]

description:
SurePrint G3 Human Promoter Microarray 2x400K

Arrays of this design have barcodes that begin with 16027954 or 2527954.

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 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: 454 GS FLX Titanium (Musca domestica)

status: Public on Feb 12 2015

organism: Musca domestica


title: Illumina HiSeq 2000 (Synthetic plasmid)

organism: Synthetic plasmid


title: Agilent-027954 SurePrint G3 Human Promoter Microarray 2x400K [Feature Number version]

description:
SurePrint G3 Human Promoter Microarray 2x400K

Arrays of this design have barcodes that begin with 16027954 or 2527954.

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: miRCURY LNA microRNA Array, v.11.0 - hsa, mmu & rno [human miRNA ID version]

city: Singapore

first: Kandiah

last: Jeyaseelan

address: 8 Medical Drive

department: Biochemistry

country: Singapore

institute: National University of Singapore

organism:
Homo sapiens
Mus musculus
Rattus norvegicus
Human alphaherpesvirus 1
Human betaherpesvirus 5
Murid betaherpesvirus 1
human gammaherpesvirus 4
JC polyomavirus
Human immunodeficiency virus 1
Murid gammaherpesvirus 4
Human gammaherpesvirus 8
Betapolyomavirus hominis
Betapolyomavirus macacae

description:
Homo sapiens and related vira:96.97%, Mus musculus and related vira: 97.3%, Rattus norvegicus:99.71%"
ArrayContents_DesignedFor=miRBase 11.0
ArrayContents_CurrentNameColumn=miRBase 12.0
This plaform has human_miRNA_IDs in the ID
A different version of this platform with the miRNA_ID_LIST in the ID column is assigned accession number GPL17042
Names, accession numbers and sequences are listed for mature miRNAs in miRBase 12.0. Some probes may target multiple miRNAs, in which case multiple miRNA names, accession numbers and sequences are listed separated by '/'

manufacture_protocol: See manufacturers website (www.exiqon.com),


title: Agilent-029915 ovine array [Feature ID version]

status: Public on Feb 25 2015

city: Jouy-en-Josas

first: Jouneau

last: Luc

address: Domaine de Vilvert

country: France

institute: INRA

organism: Ovis aries

description:
Arrays of this design have barcodes that begin with 16029915 or 2529915.

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: Exiqon miRCURY LNA microRNA array, 7th generation [miRBase v18, condensed human_miRNA version]

description: This platform represents the condensed human_miRNA view of GPL17292


title: Illumina HiSeq 1000 (Apis mellifera)

status: Public on Feb 10 2015

last: GEO

organism: Apis mellifera


title: Illumina Genome Analyzer II (Papio cynocephalus)

organism: Papio cynocephalus


title: Illumina HiSeq 2000 (Agaricus bisporus)

organism: Agaricus bisporus


title: Illumina HiSeq 2500 (Kluyveromyces lactis)

organism: Kluyveromyces lactis


title: [HT_HG-U133A] Affymetrix Human Genome U133A Array [CDF from AffyProbeMiner]

city: La Jolla

first: Clark

middle: C.

last: Chen

state: CA

address: 3855 Health Science Drive #0987

institute: University of California San Diego

description: This identical to GPL3921  but a custom cdf environmnet was used to extract data. The cdf can be found at the link below.

relation: Alternative to: GPL3921 (Alternative CDF [official])

manufacture_protocol: see the Affymetrix website


title: Illumina Genome Analyzer IIx (Musa AAB Group)

status: Public on Feb 06 2015

organism: Musa AAB Group


title: Applied Biosystems Human TaqMan low density miRNA array v3.0 card A

city: Bethesda

first: GEO

last: admin

institute: NCBI/NLM/NIH


title: Illumina HiSeq 2000 (Piper nigrum)

status: Public on Feb 09 2015

organism: Piper nigrum


title: Illumina Genome Analyzer IIx (Musa acuminata AAA Group)

organism: Musa acuminata AAA Group


title: NimbleGen 2006-09-22_HG18_CHRX_FT Fine tiling design for chrX from human genome (hg18; NCBI Build 36)

city: Wilmington

first: Grace

last: Hobson

state: Delaware

address: 1600 Rockland Road

department: Nemours Biomedical Research

institute: Nemours/AI duPont Hospital for Children

organism: Homo sapiens

description:
DESIGN_ID: 4722
DESIGN_NAME: 2006-09-22_HG18_CHRX_FT Fine tiling design for chrX from human genome (hg18; NCBI Build 36).
Probes selected from hg18_tiling probe database.  Includes pseudoautosomal regions (max_matches=2). Isothermal probes with target Tm of 76. Synthesis cycle limit of 148 cycles. Filtered at average 15-mer frequency of 50. Interval spacing: 348 bp (mean); 355 bp (median).


title: KRIBB Ogataea angusta 6400

city: daejeon

first: eun hye

last: kim

address: gwahangno 111

country: South Korea

institute: kribb

organism: Ogataea angusta

first: Ohsuk

last: Kwon

first: Doo-Byoung

last: Oh

first: MinJeong

last: Sohn

first: EunHye

last: Kim

manufacture_protocol: DNA spotted onto aldehyde-coated glass slide


title: Illumina HiSeq 2000 (Bifidobacterium thermophilum)

organism: Bifidobacterium thermophilum


title: Illumina HiSeq 2500 (Bos indicus)

status: Public on Feb 05 2015

organism: Bos indicus


title: Illumina HiSeq 2000 (Aspergillus cristatus)

organism: Aspergillus cristatus


title: NimbleGen Drosophila melanogaster 145K 12plex custom expression array (080523_D_melanogaster_5.5_expr gene version)

address: 9000 Rockville Pike

organism: Drosophila melanogaster

description: Nimblegen custom design 12 plex array for Drosophila melanogaster: 12 identical plex on one slide with about 135,000 probes on each plex. Probes were designed based on the 5.5 release of the Drosophila melanogaster annotation and average of 7 array element probes per predicted genes was selected throughout gene models without a 3? bias.  The design is freely available from Nimblegen.

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


title: LC_MRA-1002-miRMouse_18

status: Public on Feb 04 2015

city: Houston

first: Christoph

last: Eicken

state: TX

address: 2575 W. Bellfort

institute: LC Sciences, LLC

organism: Mus musculus

manufacture_protocol: Mouse miRNA microarray with 100% coverage of mature mouse miRNAs listed in miRBase version 18. Arrays are made based µParaflo microfluidic technology (Atactic Technologies). On the µParaflo microfluidic chip, each detection probe consists of a chemically modified nucleotide coding segment complementary to target microRNA (from miRBase, http://miRBase.org) or other RNA (control or customer defined sequences) and a spacer segment of polyethylene glycol to extend the coding segment away from the substrate. The detection probes are made by in situ synthesis using PGR (photogenerated reagent) chemistry.


title: Illumina MouseWG-6 v2.0 expression beadchip [MouseWG-6_V2_0_R1_11278593_A; Gene Symbol version]

technology: oligonucleotide beads

description:
The MouseWG-6 v2.0 Expression BeadChip offer the most up-to-date content for whole-genome expression profiling in the mouse. Featuring content derived from the National Center for Biotechnology Information Reference Sequence (NCBI RefSeq) database (Build 36, Release 22).

MouseWG-6_V2_0_R1_11278593_A


title: NimbleGen Human 630K CGH_ISCAplus array [120111_HG19_CGH_ISCAplus_630K]

description: Build: HG19

manufacture_protocol: See www.nimblegen.com


title: Illumina Genome Analyzer IIx (Brassica napus)

status: Public on Feb 03 2015

organism: Brassica napus


title: NimbleGen Human Whole Genome CGH array [100710_HG19_WG_CGH_PERF_UX12]

description: Build: HG19


title: Illumina HiSeq 2000 (Anas platyrhynchos)

organism: Anas platyrhynchos


title: Illumina HiSeq 2500 (Ovis aries)

organism: Ovis aries


title: QIAGEN RT2 Profiler PCR Array [PAHS-049Z]

status: Public on Feb 11 2015

city: Changsha

first: Juanjuan

last: Xiang

address: 110 Xiangya Road

department: Cancer Research Institute

institute: Central South University

description: PCR assay


title: Illumina HiSeq 2000 (Rhizophagus irregularis)

organism: Rhizophagus irregularis


title: Illumina HiSeq 2500 (Brassica napus)


title: Oxford University Mouse ApoE aorta 34K array

city: Oxford

first: Keith

last: Channon

address: Roosevelt Drive

department: Radcliffe Department of Medicine

institute: Oxford University


title: Illumina HiSeq 2500 (Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344)

status: Public on Feb 02 2015


title: Custom Agilent Saccharomyces cerevisiae 8x15K Yeast_LH_03 [Probe name version]

city: Ottawa

first: Linda

middle: J

last: Harris

state: Ontario

address: 960 Carling Ave.

department: Eastern Cereal & Oilseed Research Centre

institute: Agriculture & Agri-Food Canada (AAFC)

organism: Saccharomyces cerevisiae

manufacture_protocol: SurePrint technology: Custom commercial microarrays are manufactured using a 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 “on the fly” and is achieved without stopping, to make contact with the slide surface and without introducing surface-contact feature anomalies.


title: LifeTechnologies TaqMan assays card

city: Lodz

first: Marcin

middle: P

last: Mycko

address: Kopcinskiego 22

department: Department of Neurology

country: Poland

institute: Medical University of Lodz

description:
PCR assay
TaqMan probes


title: SABiosciences Mouse Neurotransmitter Receptors and Regulators Array (PAMM-060A)

status: Public on Feb 01 2015

city: Phoenix

first: Garilyn

last: Jentarra

state: AZ

address: 350 W. Thomas Rd

department: Neurology Research

institute: Barrow Neurological Institute

description: SABiosciences RT² Profiler PCR array


title: SABiosciences Mouse Cytoskeleton Regulators Array (PAMM-088A)

description: SABiosciences RT² Profiler PCR array


title: SABiosciences Mouse Epigenetic Chromatin Modification Enzymes Array (PAMM-085A)

description: SABiosciences RT² Profiler PCR array


title: NCI/Staudt human 12K v10

first: Louis

middle: M.

last: Staudt

address: 9000 Rockville Pike, Bldg 10, Rm 4N114

department: Lymphoid Malignancies Branch

institute: National Cancer Institute

manufacture_protocol: See reference Alizadeh et al. The lymphochip: a specialized cDNA microarray for the genomic-scale analysis of gene expression in normal and malignant lymphocytes. Cold Spring Harb Symp Quant Biol. 64, 71-8 (1999).


title: NimbleGen Human CGH CHR_7_ARRAY 385K [2006-09-22_HG18_CHR7_FT]

city: New York

first: Eirini

last: Papapetrou

state: NY

address: 1470 Madison Avenue

department: Oncological Sciences

institute: Icahn School of Medicine at Mount Sinai

description: Platform annotations based on hg18.

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


title: Agilent-048306 026655AsQuadruplicatesOn4x180k 048295 [Feature Number version]

status: Public on Jun 12 2014

city: Hannover

first: Oliver

last: Dittrich-Breiholz

address: Carl-Neuberg-Str. 1

department: Research Core Unit Genomics

institute: Medical School Hannover

description:
This Microarray represents a refined version of the Whole Mouse Genome Oligo Microarray 4x44K v2 (Design ID 026655, Agilent Technologies), called '026655AsQuadruplicatesOn180k' (design ID 048306) developed in the Research Core Unit Transcriptomics of Hannover Medical School. Microarray design was defined at Agilent's eArray portal using a 4x180k design format for mRNA expression as template. All non-control probes of design ID 026655 have been selected to be printed four times onto one 180k Microarray (on-chip quadruplicates). Control probes required for proper Feature Extraction software algorithms were determined and placed automatically by eArray using recommended default settings.

Arrays of this design have barcodes that begin with 16048306 or 2548306.

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-038314 CBC Homo sapiens lncRNA + mRNA microarray V2.0 (Feature Number version)

status: Public on Mar 07 2014

city: Beijing

first: Jiagen

last: Li

address: 17 Panjiayuannanli Chaoyang District

institute: Cancer Institute, CAMS

description: *** The ID column includes the Agilent Feature Extraction feature numbers. A different version of this platform with the Agilent Probe Names in the ID column is assigned accession number GPL19748.

manufacture_protocol: see manufacturer's website http://www.genomics.agilent.com/article.jsp?pageId=2011&_requestid=670604


title: Agilent-018970 Cyanothece custom 8x15K (Probe Name version)

city: East Lansing

first: Sandeep

middle: B.

last: Gaudana

state: MI

address: 612 Wilson Road

institute: Michigan State University

organism: Crocosphaera subtropica ATCC 51142

description: AMADID 018970

manufacture_protocol: Single 60-mer oligonucleotide probes for each of the 5,304 ORFs. Spotted as triplicates on each microarray .


title: Agilent-029915 ovine array [Probe Name version]

status: Public on Jul 09 2013

first: Jouneau

last: Luc

description: The ID column represents the Agilent Probe Names.


title: Agilent-046064 Unrestricted_Human_miRNA_V19.0_Microarray (Probe Name version)

city: Palo Alto

last: Agilent Technologies

institute: Agilent Technologies

description: Human only V19.0 design.


title: TaqMan Rodent microRNA A array v2.0

status: Public on May 01 2013

city: Boston

first: Sana

last: Mujahid

state: MA

address: 800 Washington St.

department: Pedatrics

institute: Tufts Medical Center

description: PCR assay

manufacture_protocol: see manufacturer's website


title: Illumina Genome Analyzer IIx (Murina leucogaster)

status: Public on Dec 19 2012

last: GEO

organism: Murina leucogaster


title: CustomArray platform for signaling pathways

city: Moscow

first: Maria

middle: Vladimirovna

last: Suntsova

address: Miklukho-Maklaya, 16/10

department: Department of Genetics and Postgenomic Technologies

country: Russia

institute: M.M. Shemyakin and Yu.A. Ovchinnikov  Institute of  bioorganic chemistry of the Russian Academy of Sciences

manufacture_protocol: CustomArray B3 synthesizer was used for oligonucleotide probe synthesis on CustomArray ECD 4X2K/12K slides. Synthesis was performed according to manufacturer recommendations. At least thee replicates of total 3776 unique oligonucleotide probes of 40 nucleotides in length for 2278 genes were placed on chip.


title: Illumina Genome Analyzer IIx (Ursus americanus)

organism: Ursus americanus


title: Illumina HiSeq 2000 (Burkholderia cenocepacia H111)

status: Public on Oct 02 2012

organism: Burkholderia cenocepacia H111


title: Agilent-018964 NIAS Designed Custom Agilent Bovine 15K Oligo DNA Microarray

status: Public on Sep 25 2009

city: Tsukuba City

first: Koichi

last: Ushizawa

state: Ibaraki

address: Ikenodai 2

department: Animal Science Department

institute: National Institute of Agrobiological Sciences

organism: Bos taurus

first: Toru

last: Takahashi

first: Misa

last: Hosoe

first: Kanako

last: Kaneyama

first: Ken

middle: G

last: Hayashi

first: Keiichiro

last: Kizaki

first: Kazuyoshi

last: Hashizume


title: NimbleGen Drosophila melanogaster 145K 12plex custom expression array (080523_D_melanogaster_5.5_expr)

status: Public on Dec 31 2009

city: Bethesda

first: Brian

last: Oliver

state: MD

address: 50 South Drive

department: LBG

institute: NIDDK, NIH

description: Nimblegen custom design 12 plex array for Drosophila melanogaster: 12 identical plex on one slide with about 135,000 probes on each plex. Probes were designed based on the 5.5 release of the Drosophila melanogaster annotation and average of 7 array element probes per predicted genes was selected throughout gene models without a 3’ bias.  The design is freely available from Nimblegen.

first: John

last: Malone

first: Yu

last: Zhang


title: Agilent-031544 Custom Plasmodium berghei str. ANKA array [PBANKA1]

status: Public on May 01 2012

city: tsu

first: masao

last: yuda

state: mie

address: edobashi 2-174

institute: mie university

organism: Plasmodium berghei ANKA

description:
Arrays of this design have barcodes that begin with 16031544 or 2531544.

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

The ID column represents the Agilent Feature Extraction feature number.

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

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

relation: Alternative to: GPL19816 (Probe Name version)


title: Agilent-021827 Human miRNA Microarray (V3) (miRBase release 12.0 miRNA ID version)

status: Public on Aug 24 2010

organism: Homo sapiens

description: Human miRNA Microarray 3.0


title: [stSmel_Mtra] SRL_SU Sinorhizobium meliloti/Medicago truncatula dual-genome SymbiosisChip, Affymetrix part number 510699

status: Public on Jun 01 2010

city: Stanford

first: Melanie

last: Barnett

address: 371 Jane Stanford Way

department: Biology

institute: Stanford University

organism:
Sinorhizobium meliloti
Medicago truncatula

description: The dual genome Affymetrix SymbiosisChip contains probe sets for S. meliloti ORFs annotated in 2001, intergenic regions over 150 bp, and ~10,000 probe sets corresponding to expressed sequence tags of the plant host, Medicago truncatula.


title: Mouse Exonic Evidence Based Oligonucleotide (MEEBO) spotted microarrays

status: Public on Sep 22 2009

city: San Francisco

first: Mark

last: Klinger

address: 513 Parnassus Avenue, Box0414

department: Microbiology and Immunology

institute: University of California, San Francisco


title: Agilent-014741 Yeast Whole Genome ChIP-on-Chip Microarray 244K (G4491A)

status: Public on Aug 17 2006

last: Agilent Technologies

description:
Yeast Whole Genome ChIP-on-Chip Set 244K

Arrays of this design have barcodes that begin with 16014741 or 2514741.

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: HCI Mycobacterium tuberculosis H37Rv 5.5K [MTbH37Rva520456F]

status: Public on Dec 31 2008

city: Braunschweig

first: Robert

last: Geffers

address: Inhoffenstr. 7

department: Dep. Molecular Bacteriology

institute: HCI - Helmholtz Centre for Infection Research

organism: Mycobacterium tuberculosis H37Rv

first: Franz-Christoph

last: Bange

manufacture_protocol: see manufacturer's web site


title: Illumina NextSeq 500 (Gallus gallus)

status: Public on Feb 13 2015

last: GEO

organism: Gallus gallus


title: Illumina HiSeq 2000 (Gallus gallus)

status: Public on Oct 04 2012


title: Illumina HiSeq 2000 (other sequences)

status: Public on Feb 04 2015

organism: other sequences


title: Agilent-047612 Human CGH CHR_7_ARRAY 4x180K (Feature number version)

status: Public on Feb 02 2015

first: Eirini

last: Papapetrou

description:
SurePrint G3 Cust. CGH Microarray 4x180K
chr7-specific array

Arrays of this design have barcodes that begin with 16047612 or 2547612.

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.